Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 38 of 310
Found at i:10828571 original size:66 final size:66
Alignment explanation
Indices: 10828465--10828592 Score: 247
Period size: 66 Copynumber: 1.9 Consensus size: 66
10828455 ACGGCCCGAT
*
10828465 CACGCAAAAAGAGATGTGTCCAAGAAACCTAGAATAGGTGACAATGAAACACCGAGTGAGTTTGA
1 CACGCAAAAAGAGATGTGTCCAAGAAACCTAGAATAGGTGACAAGGAAACACCGAGTGAGTTTGA
10828530 C
66 C
10828531 CACGCAAAAAGAGATGTGTCCAAGAAACCTAGAATAGGTGACAAGGAAACACCGAGTGAGTT
1 CACGCAAAAAGAGATGTGTCCAAGAAACCTAGAATAGGTGACAAGGAAACACCGAGTGAGTT
10828593 GATAACTCAG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (66 bp):
CACGCAAAAAGAGATGTGTCCAAGAAACCTAGAATAGGTGACAAGGAAACACCGAGTGAGTTTGA
C
Found at i:10829067 original size:27 final size:27
Alignment explanation
Indices: 10829037--10829214 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
10829027 ATATTGAGTC
* * * *
10829037 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
10829064 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
10829091 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
10829119 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
10829146 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
10829173 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
10829200 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
10829215 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:10829176 original size:82 final size:81
Alignment explanation
Indices: 10829058--10829213 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
10829048 TGCTATATAA
* *
10829058 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
10829123 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
10829140 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
10829204 CACTTAGTGC
65 CACTTAGTGC
10829214 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:10830882 original size:28 final size:27
Alignment explanation
Indices: 10830837--10830889 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
10830827 CTCATTTGAG
*
10830837 TTTATAAATTCTCTTTGAGTTTTCTTTT
1 TTTAAAAATTCTCTTTGA-TTTTCTTTT
10830865 TTTAAAAATT-TCTCTTGATTTTCTT
1 TTTAAAAATTCTCT-TTGATTTTCTT
10830890 GTAGAAGAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.21, C:0.11, G:0.06, T:0.62
Consensus pattern (27 bp):
TTTAAAAATTCTCTTTGATTTTCTTTT
Found at i:10835411 original size:30 final size:30
Alignment explanation
Indices: 10835375--10835432 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
10835365 TAGCCGAAGA
10835375 TAATTTAAATAGCACACTTAGTGCCAAAGC
1 TAATTTAAATAGCACACTTAGTGCCAAAGC
*
10835405 TAATTTAAATCGCACACTTAGTGCCAAA
1 TAATTTAAATAGCACACTTAGTGCCAAA
10835433 ACTTCCGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (30 bp):
TAATTTAAATAGCACACTTAGTGCCAAAGC
Found at i:10837931 original size:46 final size:47
Alignment explanation
Indices: 10837873--10838048 Score: 182
Period size: 47 Copynumber: 3.7 Consensus size: 47
10837863 ATGGATGTGT
* *
10837873 GCTAATGTAAGACATGTCTGGGACAT-GCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCACAATATGAGA
* * *
10837919 GCTAGTGTAAGACCATGT-TGGGACATGGCATCGG-CATTAAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCA-CAATATGAGA
* * *
10837966 GCTAGTATAAGACATGTTTGGGACAT-GCATCGGCCTCGAGATATGCA-A
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCAC-A-ATATG-AGA
* *
10838014 GCTAGTGTAAGACTTGTCTGAGACATGGCATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGC
10838049 TTGACATGTG
Statistics
Matches: 107, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
46 33 0.31
47 39 0.36
48 26 0.24
49 9 0.08
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCACAATATGAGA
Found at i:10841908 original size:61 final size:63
Alignment explanation
Indices: 10841766--10841908 Score: 138
Period size: 60 Copynumber: 2.3 Consensus size: 63
10841756 TCAAGCTTTA
*
10841766 CTGGGCC-TAAGCCCTATT-CAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCAT-AGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAAT
* * * * *
10841828 TTGGGCCATAGTCCC--TTACAG-TATCAGAG-TACACTGGGCC-TAGCCCATGTTAGTATCAAT
1 CTGGGCCATAG-CCCTATTACAGAAATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAAT
* *
10841888 CTGGGTCGTAGCCCTATTACA
1 CTGGGCCATAGCCCTATTACA
10841909 AGTCGAGATA
Statistics
Matches: 66, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
59 3 0.05
60 26 0.39
61 22 0.33
62 11 0.17
63 4 0.06
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (63 bp):
CTGGGCCATAGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAAT
Found at i:10861138 original size:27 final size:27
Alignment explanation
Indices: 10861105--10861192 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
10861095 CAAAACAGTC
10861105 ATTTTACCCTACAGGGGTATTTCGATA
1 ATTTTACCCTACAGGGGTATTTCGATA
* * *
10861132 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACCCTACAGGGGTATTTCGATA
** *
10861159 ATTTTA-CAAATTAGGGGTATTTCGATA
1 ATTTTACCCTA-CAGGGGTATTTCGATA
10861186 ATTTTAC
1 ATTTTAC
10861193 AAACCGAGGT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
26 1 0.02
27 49 0.98
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.40
Consensus pattern (27 bp):
ATTTTACCCTACAGGGGTATTTCGATA
Found at i:10861175 original size:54 final size:53
Alignment explanation
Indices: 10861117--10861521 Score: 345
Period size: 54 Copynumber: 7.5 Consensus size: 53
10861107 TTTACCCTAC
* *
10861117 AGGGGTATTTCGATAATTTTACACTACAAGGGTATTTCGGTAATTTTACAAATT
1 AGGGGTATTTCGATAATTTTACA-AACAAGGGTATTTCAGTAATTTTACAAATT
* * * *
10861171 AGGGGTATTTCGATAATTTTACAAAC-CGAGGTATTTTAGTAAATTTATAAATT
1 AGGGGTATTTCGATAATTTTACAAACAAG-GGTATTTCAGTAATTTTACAAATT
* * * *
10861224 GGGGGTATTTCGGTAATTTTACACTACAAGGGTATTTCAGTAATTTTACAAACT
1 AGGGGTATTTCGATAATTTTACA-AACAAGGGTATTTCAGTAATTTTACAAATT
* * * ** * *
10861278 -GAGTGTATTTTGGTAATTTTACAAATCGGGGGTATTTTAGTAATTTTACAAATC
1 AG-GGGTATTTCGATAATTTTACAAA-CAAGGGTATTTCAGTAATTTTACAAATT
* * * ** **
10861332 GGGGGTATTTCAATAATTTTAAAAATTGAGGGTATTTTGGTAATTTTACAAATT
1 AGGGGTATTTCGATAATTTTACAAA-CAAGGGTATTTCAGTAATTTTACAAATT
* * * *
10861386 -GGGGTATTTCGGTAATTTTACAAAC-TGGAGTATTTCAGTAATTTTACACTATA
1 AGGGGTATTTCGATAATTTTACAAACAAGG-GTATTTCAGTAATTTTACA-AATT
* * *
10861439 AGGGTAAGGTATTTCGATACTTTTACAAATCAGGGGTATTTC-GATAATTTTACAAACT
1 A-GG---GGTATTTCGATAATTTTACAAA-CAAGGGTATTTCAG-TAATTTTACAAATT
*
10861497 GGGGGTATTTCTG-TAATTTTACAAA
1 AGGGGTATTTC-GATAATTTTACAAA
10861522 TGAAGGTCTT
Statistics
Matches: 286, Mismatches: 48, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
51 2 0.01
52 18 0.06
53 68 0.24
54 149 0.52
55 5 0.02
57 2 0.01
58 22 0.08
59 18 0.06
60 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (53 bp):
AGGGGTATTTCGATAATTTTACAAACAAGGGTATTTCAGTAATTTTACAAATT
Found at i:10861193 original size:27 final size:27
Alignment explanation
Indices: 10861117--10861522 Score: 269
Period size: 27 Copynumber: 15.0 Consensus size: 27
10861107 TTTACCCTAC
* *
10861117 AGGGGTATTTCGATAATTTTAC-ACTAC
1 AGGGGTATTTCGATAATTTTACAAAT-T
* *
10861144 AAGGGTATTTCGGTAATTTTACAAATT
1 AGGGGTATTTCGATAATTTTACAAATT
*
10861171 AGGGGTATTTCGATAATTTTACAAA-C
1 AGGGGTATTTCGATAATTTTACAAATT
* * * * *
10861197 CGAGGTATTT-TAGTAAATTTATAAATT
1 AGGGGTATTTCGA-TAATTTTACAAATT
* * * *
10861224 GGGGGTATTTCGGTAATTTTAC-ACTAC
1 AGGGGTATTTCGATAATTTTACAAAT-T
* *
10861251 AAGGGTATTTC-AGTAATTTTACAAACT
1 AGGGGTATTTCGA-TAATTTTACAAATT
* * * *
10861278 -GAGTGTATTTTGGTAATTTTACAAATC
1 AG-GGGTATTTCGATAATTTTACAAATT
* * *
10861305 GGGGGTATTT-TAGTAATTTTACAAATC
1 AGGGGTATTTCGA-TAATTTTACAAATT
* * *
10861332 GGGGGTATTTCAATAATTTTAAAAATT
1 AGGGGTATTTCGATAATTTTACAAATT
* *
10861359 -GAGGGTATTTTGGTAATTTTACAAATT
1 AG-GGGTATTTCGATAATTTTACAAATT
* *
10861386 -GGGGTATTTCGGTAATTTTACAAACT
1 AGGGGTATTTCGATAATTTTACAAATT
* * *
10861412 -GGAGTATTTC-AGTAATTTTACACTATA
1 AGGGGTATTTCGA-TAATTTTACA-AATT
* *
10861439 AGGGTAAGGTATTTCGATACTTTTACAAATC
1 A-GG---GGTATTTCGATAATTTTACAAATT
*
10861470 AGGGGTATTTCGATAATTTTACAAACT
1 AGGGGTATTTCGATAATTTTACAAATT
*
10861497 GGGGGTATTTCTG-TAATTTTACAAAT
1 AGGGGTATTTC-GATAATTTTACAAAT
10861523 GAAGGTCTTA
Statistics
Matches: 298, Mismatches: 59, Indels: 44
0.74 0.15 0.11
Matches are distributed among these distances:
25 1 0.00
26 63 0.21
27 204 0.68
28 6 0.02
29 2 0.01
30 2 0.01
31 3 0.01
32 16 0.05
33 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTCGATAATTTTACAAATT
Found at i:10861216 original size:81 final size:79
Alignment explanation
Indices: 10861146--10861521 Score: 355
Period size: 81 Copynumber: 4.6 Consensus size: 79
10861136 TACACTACAA
* * *
10861146 GGGTATTTCGGTAATTTTACAAATTAGGGGTATTTC-GATAATTTTACAAACCGAGGTATTTTAG
1 GGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCAG-TAATTTTACAAACTGAGGTATTTTGG
* * *
10861210 TAAATTTATAAATTGG
65 TAATTTTACAAA-CGG
* *
10861226 GGGTATTTCGGTAATTTTAC-ACTACAAGGGTATTTCAGTAATTTTACAAACTGAGTGTATTTTG
1 GGGTATTTCGGTAATTTTACAAAT-CAGGGGTATTTCAGTAATTTTACAAACTGAG-GTATTTTG
10861290 GTAATTTTACAAATCGG
64 GTAATTTTACAAA-CGG
** * * * *
10861307 GGGTATTTTAGTAATTTTACAAATCGGGGGTATTTCAATAATTTTAAAAATTGAGGGTATTTTGG
1 GGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCAGTAATTTTACAAACTGA-GGTATTTTGG
**
10861372 TAATTTTACAAATTG
65 TAATTTTACAAACGG
* * * *
10861387 GGGTATTTCGGTAATTTTACAAA-CTGGAGTATTTCAGTAATTTTACACTATAAGGGTAAGGTAT
1 GGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCAGTAATTTT--AC-A-AA--CTGAGGTAT
* * * *
10861451 TTCGATACTTTTACAAATCAG
60 TTTGGTAATTTTACAAA-CGG
* * *
10861472 GGGTATTTCGATAATTTTACAAA-CTGGGGGTATTTCTGTAATTTTACAAA
1 GGGTATTTCGGTAATTTTACAAATC-AGGGGTATTTCAGTAATTTTACAAA
10861522 TGAAGGTCTT
Statistics
Matches: 248, Mismatches: 35, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
79 20 0.08
80 68 0.27
81 87 0.35
82 6 0.02
83 3 0.01
84 21 0.08
85 26 0.10
86 17 0.07
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (79 bp):
GGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCAGTAATTTTACAAACTGAGGTATTTTGGT
AATTTTACAAACGG
Found at i:10861267 original size:107 final size:106
Alignment explanation
Indices: 10861118--10861521 Score: 438
Period size: 107 Copynumber: 3.7 Consensus size: 106
10861108 TTACCCTACA
* *
10861118 GGGGTATTTCGATAATTTTACACTA-CAAGGGTATTTCGGTAATTTTACAAATTAGGGGTATTTC
1 GGGGTATTTCGATAATTTTACACAATCAAGGGTATTTCGGTAATTTTACAAACT-GGGGTATTTC
* * * *
10861182 GATAATTTTACAAACCGAGGTATTTTAGTAAATTTATAAATTG
65 GGTAATTTTACAAACCG-GGTATTTTAGTAATTTTACAAATAG
* * * * *
10861225 GGGGTATTTCGGTAATTTTACACTA-CAAGGGTATTTCAGTAATTTTACAAACTGAGTGTATTTT
1 GGGGTATTTCGATAATTTTACACAATCAAGGGTATTTCGGTAATTTTACAAACTG-GGGTATTTC
* *
10861289 GGTAATTTTACAAATCGGGGGTATTTTAGTAATTTTACAAATCG
65 GGTAATTTTACAAA-C-CGGGTATTTTAGTAATTTTACAAATAG
* * ** * *
10861333 GGGGTATTTCAATAATTTTA-AAAATTGAGGGTATTTTGGTAATTTTACAAATTGGGGTATTTCG
1 GGGGTATTTCGATAATTTTACACAATCAAGGGTATTTCGGTAATTTTACAAACTGGGGTATTTCG
* * *
10861397 GTAATTTTACAAACTGGAGTATTTCAGTAATTTTACACTATAAG
66 GTAATTTTACAAACCGG-GTATTTTAGTAATTTTACA-AAT-AG
* * *
10861441 GGTAAGGTATTTCGATACTTTTACA-AATCAGGGGTATTTCGATAATTTTACAAACTGGGGGTAT
1 GG---GGTATTTCGATAATTTTACACAATCAAGGGTATTTCGGTAATTTTACAAACT-GGGGTAT
*
10861505 TTCTGTAATTTTACAAA
62 TTCGGTAATTTTACAAA
10861522 TGAAGGTCTT
Statistics
Matches: 251, Mismatches: 34, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
105 2 0.01
106 20 0.08
107 95 0.38
108 68 0.27
109 1 0.00
111 41 0.16
112 24 0.10
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (106 bp):
GGGGTATTTCGATAATTTTACACAATCAAGGGTATTTCGGTAATTTTACAAACTGGGGTATTTCG
GTAATTTTACAAACCGGGTATTTTAGTAATTTTACAAATAG
Found at i:10861350 original size:134 final size:134
Alignment explanation
Indices: 10861105--10861519 Score: 437
Period size: 134 Copynumber: 3.1 Consensus size: 134
10861095 CAAAACAGTC
* * * *
10861105 ATTTTACCCTACAGGGGTATTTCGATAATTTTACACTAC-AAGGGTATTTCGGTAATTTTACAAA
1 ATTTTACACTACAGGGGTATTTCG-TAATTTTACA-AACTGAGAGTATTTCGGTAATTTTACAAA
* * * * * *
10861169 TTA-GGGGTATTTCGATAATTTTACAAA-CCGAGGTATTTTAGTAAATTTATAAATTGGGGGTAT
64 -TAGGGGGTATTTCGATAATTTTACAAATCAGGGGTATTTCAATAATTTTAAAAATTGGGGGTAT
10861232 TTCGGTA
128 TTCGGTA
* * *
10861239 ATTTTACACTACAAGGGTATTTCAGTAATTTTACAAACTGAGTGTATTTTGGTAATTTTACAAAT
1 ATTTTACACTACAGGGGTATTTC-GTAATTTTACAAACTGAGAGTATTTCGGTAATTTTACAAAT
* * * *
10861304 CGGGGGTATTT-TAGTAATTTTACAAATCGGGGGTATTTCAATAATTTTAAAAATTGAGGGTATT
65 AGGGGGTATTTCGA-TAATTTTACAAATCAGGGGTATTTCAATAATTTTAAAAATTGGGGGTATT
*
10861368 TTGGTA
129 TCGGTA
* ** * *
10861374 ATTTTACA-AATTGGGGTATTTCGGTAATTTTACAAACTG-GAGTATTTCAGTAATTTTACACTA
1 ATTTTACACTACAGGGGTATTTC-GTAATTTTACAAACTGAGAGTATTTCGGTAATTTTACA-AA
* * * *
10861437 TAAGGGTAAGGTATTTCGATACTTTTACAAATCAGGGGTATTTCGATAATTTTACAAACTGGGGG
64 T-AGGG---GGTATTTCGATAATTTTACAAATCAGGGGTATTTCAATAATTTTAAAAATTGGGGG
*
10861502 TATTTCTGTA
125 TATTTCGGTA
10861512 ATTTTACA
1 ATTTTACA
10861520 AATGAAGGTC
Statistics
Matches: 235, Mismatches: 35, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
133 22 0.09
134 102 0.43
135 47 0.20
138 63 0.27
139 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (134 bp):
ATTTTACACTACAGGGGTATTTCGTAATTTTACAAACTGAGAGTATTTCGGTAATTTTACAAATA
GGGGGTATTTCGATAATTTTACAAATCAGGGGTATTTCAATAATTTTAAAAATTGGGGGTATTTC
GGTA
Found at i:10869147 original size:26 final size:26
Alignment explanation
Indices: 10869109--10869189 Score: 91
Period size: 24 Copynumber: 3.3 Consensus size: 26
10869099 CACTCTTTCA
* *
10869109 AGCT-ATGATCAGTAAGCTCCT-CCTG
1 AGCTGATGAACAGTAAGCTCCTGAC-G
10869134 AGCTGATGAACAGTAAGCT-CTGACG
1 AGCTGATGAACAGTAAGCTCCTGACG
*
10869159 AGCTGA-GAACAGTAAGCT-CTTACG
1 AGCTGATGAACAGTAAGCTCCTGACG
10869183 AGCTGAT
1 AGCTGAT
10869190 ATATTCGTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
24 23 0.46
25 13 0.26
26 14 0.28
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (26 bp):
AGCTGATGAACAGTAAGCTCCTGACG
Found at i:10869173 original size:24 final size:25
Alignment explanation
Indices: 10869133--10869189 Score: 98
Period size: 24 Copynumber: 2.3 Consensus size: 25
10869123 AGCTCCTCCT
10869133 GAGCTGATGAACAGTAAGCTCTGAC
1 GAGCTGATGAACAGTAAGCTCTGAC
*
10869158 GAGCTGA-GAACAGTAAGCTCTTAC
1 GAGCTGATGAACAGTAAGCTCTGAC
10869182 GAGCTGAT
1 GAGCTGAT
10869190 ATATTCGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 23 0.77
25 7 0.23
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (25 bp):
GAGCTGATGAACAGTAAGCTCTGAC
Found at i:10874456 original size:15 final size:15
Alignment explanation
Indices: 10874436--10874465 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10874426 ACACTAAAAT
10874436 TTCGATAAATGAATA
1 TTCGATAAATGAATA
*
10874451 TTCGATAAATTAATA
1 TTCGATAAATGAATA
10874466 ATCTTAGTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.37
Consensus pattern (15 bp):
TTCGATAAATGAATA
Found at i:10876470 original size:26 final size:27
Alignment explanation
Indices: 10876436--10876492 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
10876426 AAATATTCTC
*
10876436 TAAAATAAT-AAATGTTAATTTATCGA
1 TAAAATAATAAAATATTAATTTATCGA
* *
10876462 TAAATTAATAAAATATTCATTTATCGA
1 TAAAATAATAAAATATTAATTTATCGA
10876489 TAAA
1 TAAA
10876493 CAAATAACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (27 bp):
TAAAATAATAAAATATTAATTTATCGA
Found at i:10877943 original size:24 final size:24
Alignment explanation
Indices: 10877916--10877962 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
10877906 TTGATAAATT
10877916 TTAAATTAAAAAAAT-ATTTATTTG
1 TTAAA-TAAAAAAATCATTTATTTG
10877940 TTAAATAAAAAAATCATTTATTT
1 TTAAATAAAAAAATCATTTATTT
10877963 TTGGTCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
TTAAATAAAAAAATCATTTATTTG
Found at i:10880958 original size:16 final size:16
Alignment explanation
Indices: 10880933--10880970 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
10880923 ATCCTTTCAA
*
10880933 AATAGATATTTACACC
1 AATAGTTATTTACACC
10880949 AATAGTTATTTACACC
1 AATAGTTATTTACACC
10880965 AATAGT
1 AATAGT
10880971 GATTCATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (16 bp):
AATAGTTATTTACACC
Found at i:10886475 original size:40 final size:40
Alignment explanation
Indices: 10886354--10886538 Score: 196
Period size: 40 Copynumber: 4.7 Consensus size: 40
10886344 TTCTAGCACC
** * * * *
10886354 AGCCTGCGGGAATTTAAACCCGG-TATA-ATACCAGCTCGT
1 AGCCTGCGGGTCTTTAAGCCCGGATA-ACATTCCAGCACGA
* ** * *
10886393 AGCCTGCGGGTCTCT-AGCCCAAATAATATTCCAGCACAA
1 AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCACGA
*
10886432 AGCCTGCGGGTCTTTAAGCCTGGATAACATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCACGA
* *
10886472 AGCCTGCGGGTTTTTAAGCCCGGATAACATTCCAGTACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCACGA
* *
10886512 AGCCTGCGGGTTTTTAAGCCCAGATAA
1 AGCCTGCGGGTCTTTAAGCCCGGATAA
10886539 TACCTCAAGT
Statistics
Matches: 123, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
38 5 0.04
39 36 0.29
40 82 0.67
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCACGA
Found at i:10889378 original size:40 final size:40
Alignment explanation
Indices: 10889315--10889510 Score: 241
Period size: 40 Copynumber: 4.9 Consensus size: 40
10889305 CATGAGCATT
* * *
10889315 TGATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-
1 TGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGA
* * *
10889354 TGATTTTATCCGGGCTCAGACCCGAAGGCATTTGTGCAAGT
1 TGA-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGA
*
10889395 TGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGA
1 TGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGA
* * * *
10889435 TGATATATCCAGGCTAAGACCCGAAGGCATTCGTGCGAGT
1 TGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGA
* * * *
10889475 TGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
10889511 TTGTGGTTAT
Statistics
Matches: 137, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 3 0.02
40 131 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGA
Found at i:10889455 original size:80 final size:80
Alignment explanation
Indices: 10889314--10889530 Score: 276
Period size: 80 Copynumber: 2.7 Consensus size: 80
10889304 GCATGAGCAT
* * * * * *
10889314 TTGATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTCAGACCCGA
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCAGGCTAAGACCCGA
*
10889379 AGGCATTTGTGCAAG
66 AGGCATTCGTGCAAG
10889394 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGA-TATATCCAGGCTAAGACCCG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATATCCAGGCTAAGACCCG
*
10889458 AAGGCATTCGTGCGAG
65 AAGGCATTCGTGCAAG
* * * * ** *
10889474 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCAGGCTAA
10889531 ATTCCGAAGA
Statistics
Matches: 120, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
79 8 0.07
80 109 0.91
81 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCAGGCTAAGACCCGA
AGGCATTCGTGCAAG
Found at i:10907410 original size:40 final size:40
Alignment explanation
Indices: 10907289--10907473 Score: 196
Period size: 40 Copynumber: 4.7 Consensus size: 40
10907279 TTCTAGCACC
** * * * *
10907289 AGCCTGCGGGAATTTAAACCCGG-TATA-ATACCAGCTCGT
1 AGCCTGCGGGTCTTTAAGCCCGGATA-ACATTCCAGCACGA
* ** * *
10907328 AGCCTGCGGGTCTCT-AGCCCAAATAATATTCCAGCACAA
1 AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCACGA
*
10907367 AGCCTGCGGGTCTTTAAGCCTGGATAACATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCACGA
* *
10907407 AGCCTGCGGGTTTTTAAGCCCGGATAACATTCCAGTACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCACGA
* *
10907447 AGCCTGCGGGTTTTTAAGCCCAGATAA
1 AGCCTGCGGGTCTTTAAGCCCGGATAA
10907474 TACCTCAAGT
Statistics
Matches: 123, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
38 5 0.04
39 36 0.29
40 82 0.67
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCACGA
Found at i:10910313 original size:40 final size:40
Alignment explanation
Indices: 10910250--10910445 Score: 250
Period size: 40 Copynumber: 4.9 Consensus size: 40
10910240 CATGAGCATT
* * *
10910250 TGATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-
1 TGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGA
* *
10910289 TGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT
1 TGA-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGA
*
10910330 TGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGA
1 TGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGA
* * * *
10910370 TGATATATCCAGGCTAAGACCCGAAGGCATTCGTGCGAGT
1 TGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGA
* * * *
10910410 TGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
10910446 TTGTGGTTAT
Statistics
Matches: 139, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 3 0.02
40 133 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGA
Found at i:10910385 original size:80 final size:80
Alignment explanation
Indices: 10910249--10910465 Score: 285
Period size: 80 Copynumber: 2.7 Consensus size: 80
10910239 GCATGAGCAT
* * * * *
10910249 TTGATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGA
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCAGGCTAAGACCCGA
*
10910314 AGGCATTTGTGCAAG
66 AGGCATTCGTGCAAG
10910329 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGA-TATATCCAGGCTAAGACCCG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATATCCAGGCTAAGACCCG
*
10910393 AAGGCATTCGTGCGAG
65 AAGGCATTCGTGCAAG
* * * * ** *
10910409 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCAGGCTAA
10910466 ATTCCGAAGA
Statistics
Matches: 121, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
79 8 0.07
80 110 0.91
81 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCAGGCTAAGACCCGA
AGGCATTCGTGCAAG
Found at i:10918354 original size:39 final size:40
Alignment explanation
Indices: 10918259--10918520 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
10918249 TTGAATGATG
*
10918259 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
10918297 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
10918338 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
10918377 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
10918416 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
10918455 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
10918494 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
10918521 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:10919771 original size:127 final size:127
Alignment explanation
Indices: 10919545--10919795 Score: 335
Period size: 127 Copynumber: 2.0 Consensus size: 127
10919535 AAACGGCATC
* * * * *
10919545 AGTATTGGAGCCCTGTACAAGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGGGTAGTCGATCC
1 AGTATTGAAGCCCTGTACAAGGAGATATCCAAGTCGTAATACACAAAGGTCAGAGTAGTCGAACC
* * * *
10919610 CTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCCGACCAAAAATTCTAATG
66 CAGTAACAGGGGAGACTTTAACTAATAAACTGTACCAATTGGCCCGACCAAAAATTCTAATG
* * **
10919672 AGTATTGAAGCTCTGTACAGGGAGATATCCAAGTCAG-AATACATGAAGGTCAGAGTAGTCGAAC
1 AGTATTGAAGCCCTGTACAAGGAGATATCCAAGTC-GTAATACACAAAGGTCAGAGTAGTCGAAC
* *
10919736 CCAG-AATCAGGGGAGACTTTAACTAATAAACTGTACCAATTGGCCTGACCAAACATTCTA
65 CCAGTAA-CAGGGGAGACTTTAACTAATAAACTGTACCAATTGGCCCGACCAAAAATTCTA
10919796 TAAATAAATC
Statistics
Matches: 107, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
126 2 0.02
127 104 0.97
128 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (127 bp):
AGTATTGAAGCCCTGTACAAGGAGATATCCAAGTCGTAATACACAAAGGTCAGAGTAGTCGAACC
CAGTAACAGGGGAGACTTTAACTAATAAACTGTACCAATTGGCCCGACCAAAAATTCTAATG
Found at i:10926011 original size:3 final size:3
Alignment explanation
Indices: 10925999--10926030 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
10925989 TAATTTTAAG
10925999 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10926031 TGATATTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:10926298 original size:12 final size:12
Alignment explanation
Indices: 10926276--10926309 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
10926266 AATTTTGAAA
10926276 ATATA-AATAAT
1 ATATATAATAAT
10926287 ATATATAATAAT
1 ATATATAATAAT
10926299 ATATATAATAA
1 ATATATAATAA
10926310 ATTAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATATATAATAAT
Found at i:10927314 original size:26 final size:26
Alignment explanation
Indices: 10927285--10927392 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
10927275 TGGTACAAAT
*
10927285 TGATAATGGGTTAGGCAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
10927311 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10927337 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10927363 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10927389 TGAT
1 TGAT
10927393 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10929397 original size:137 final size:137
Alignment explanation
Indices: 10929151--10929436 Score: 554
Period size: 137 Copynumber: 2.1 Consensus size: 137
10929141 GAGTAGTCTC
10929151 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATTGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATTGGCCTATGGGCCATAC
10929216 TGTTATCTGAATAATGAGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAATGAGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
10929281 ACTGTTA
131 ACTGTTA
10929288 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATTGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATTGGCCTATGGGCCATAC
10929353 TGTTATCTGAATAATGAGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAATGAGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
10929418 ACTGTTA
131 ACTGTTA
**
10929425 CCTGAATGGGCT
1 CCCAAATGGGCT
10929437 GAGGCCCAAT
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATTGGCCTATGGGCCATAC
TGTTATCTGAATAATGAGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:10930673 original size:12 final size:12
Alignment explanation
Indices: 10930656--10930683 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
10930646 ACTCGAGGAA
10930656 GAGGCCGTGGTC
1 GAGGCCGTGGTC
10930668 GAGGCCGTGGTC
1 GAGGCCGTGGTC
10930680 GAGG
1 GAGG
10930684 ACAAGGTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.11, C:0.21, G:0.54, T:0.14
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:10935496 original size:26 final size:26
Alignment explanation
Indices: 10935467--10935574 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
10935457 TGGTACAAAT
10935467 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
10935493 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10935519 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
10935545 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10935571 TGAT
1 TGAT
10935575 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10937071 original size:26 final size:26
Alignment explanation
Indices: 10937042--10937094 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
10937032 TTTACAGTTT
10937042 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
10937068 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
10937094 T
1 T
10937095 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:10937591 original size:137 final size:137
Alignment explanation
Indices: 10937345--10938313 Score: 1832
Period size: 137 Copynumber: 7.1 Consensus size: 137
10937335 TAGTCTCCCT
* *
10937345 AAATGTGCTTGCATATGT-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTG
1 AAATGGGCTTGCATATGTCTT-CTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTG
10937409 TTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCAC
65 TTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCAC
10937474 TGTTACCC
130 TGTTACCC
10937482 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
1 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
10937547 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
10937612 GTTACCC
131 GTTACCC
10937619 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
1 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
10937684 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
10937749 GTTACCC
131 GTTACCC
10937756 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
1 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
10937821 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
10937886 GTTACCC
131 GTTACCC
10937893 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
1 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
10937958 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
10938023 GTTACCC
131 GTTACCC
10938030 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
1 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
10938095 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
10938160 GTTACCC
131 GTTACCC
* *
10938167 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
1 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
* * **
10938232 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
*
10938297 GTTACCT
131 GTTACCC
*
10938304 GAATGGGCTT
1 AAATGGGCTT
10938314 AGGCCCAATG
Statistics
Matches: 821, Mismatches: 10, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
137 819 1.00
138 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (137 bp):
AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
GTTACCC
Found at i:10937840 original size:274 final size:274
Alignment explanation
Indices: 10937345--10938471 Score: 1871
Period size: 274 Copynumber: 4.0 Consensus size: 274
10937335 TAGTCTCCCT
* *
10937345 AAATGTGCTTGCATATGT-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTG
1 AAATGGGCTTGCATATGTCTT-CTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTG
10937409 TTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCAC
65 TTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCAC
10937474 TGTTACCCAAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTC
130 TGTTACCCAAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTC
10937539 CATGCTGTTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCA
195 CATGCTGTTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCA
10937604 GTACCACTGTTACCC
260 GTACCACTGTTACCC
10937619 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
1 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
10937684 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
10937749 GTTACCCAAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCC
131 GTTACCCAAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCC
10937814 ATGCTGTTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAG
196 ATGCTGTTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAG
10937879 TACCACTGTTACCC
261 TACCACTGTTACCC
10937893 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
1 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
10937958 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
10938023 GTTACCCAAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCC
131 GTTACCCAAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCC
10938088 ATGCTGTTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAG
196 ATGCTGTTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAG
10938153 TACCACTGTTACCC
261 TACCACTGTTACCC
* *
10938167 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
1 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
* * **
10938232 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
10938297 GTTACCTGAATGGGCTTAGGCCCAATGGGCTGGGGCTTGCATATGT-TTACTGATGTTGCATGTA
131 GTTACC--------C--A-----AA-----T-GGGCTTGCATATGTCTT-CTGATGTTGCATGTA
* * * * * *
10938361 TTTTGAAATTGGCCTATGGGCCATACTGTTATCTGAATAATGAGCTAAGGCCCAATTTATTGTAA
174 TTTTGAAATGGGCCTATGGTCCATGCTGTTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAA
** *
10938426 TCTGAAAAGGGCTCTGGCCCAGTACCACTGTTACCT
239 TCCAAAAAGGGCTCTGGCCCAGTACCACTGTTACCC
*
10938462 GAATGGGCTT
1 AAATGGGCTT
10938472 AGGCCCAATG
Statistics
Matches: 812, Mismatches: 18, Indels: 25
0.95 0.02 0.03
Matches are distributed among these distances:
274 673 0.83
275 2 0.00
282 1 0.00
284 1 0.00
289 2 0.00
294 3 0.00
295 130 0.16
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (274 bp):
AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
GTTACCCAAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCC
ATGCTGTTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAG
TACCACTGTTACCC
Found at i:10938113 original size:411 final size:411
Alignment explanation
Indices: 10937345--10938471 Score: 1871
Period size: 411 Copynumber: 2.7 Consensus size: 411
10937335 TAGTCTCCCT
* *
10937345 AAATGTGCTTGCATATGT-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTG
1 AAATGGGCTTGCATATGTCTT-CTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTG
10937409 TTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCAC
65 TTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCAC
10937474 TGTTACCCAAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTC
130 TGTTACCCAAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTC
10937539 CATGCTGTTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCA
195 CATGCTGTTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCA
10937604 GTACCACTGTTACCCAAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCC
260 GTACCACTGTTACCCAAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCC
10937669 TATGGTCCATGCTGTTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTC
325 TATGGTCCATGCTGTTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTC
10937734 TGGCCCAGTACCACTGTTACCC
390 TGGCCCAGTACCACTGTTACCC
10937756 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
1 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
10937821 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
10937886 GTTACCCAAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCC
131 GTTACCCAAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCC
10937951 ATGCTGTTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAG
196 ATGCTGTTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAG
10938016 TACCACTGTTACCCAAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCT
261 TACCACTGTTACCCAAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCT
10938081 ATGGTCCATGCTGTTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCT
326 ATGGTCCATGCTGTTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCT
10938146 GGCCCAGTACCACTGTTACCC
391 GGCCCAGTACCACTGTTACCC
* *
10938167 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
1 AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
* * **
10938232 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
10938297 GTTACCTGAATGGGCTTAGGCCCAATGGGCTGGGGCTTGCATATGT-TTACTGATGTTGCATGTA
131 GTTACC--------C--A-----AA-----T-GGGCTTGCATATGTCTT-CTGATGTTGCATGTA
* * * * * *
10938361 TTTTGAAATTGGCCTATGGGCCATACTGTTATCTGAATAATGAGCTAAGGCCCAATTTATTGTAA
174 TTTTGAAATGGGCCTATGGTCCATGCTGTTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAA
** **
10938426 TCTGAAAAGGGCTCTGGCCCAGTACCACTGTTACCTGAATGGGCTT
239 TCCAAAAAGGGCTCTGGCCCAGTACCACTGTTACCCAAATGGGCTT
10938472 AGGCCCAATG
Statistics
Matches: 675, Mismatches: 18, Indels: 25
0.94 0.03 0.03
Matches are distributed among these distances:
411 536 0.79
412 2 0.00
419 1 0.00
421 1 0.00
426 2 0.00
431 3 0.00
432 130 0.19
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (411 bp):
AAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
GTTACCCAAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCC
ATGCTGTTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAG
TACCACTGTTACCCAAATGGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCT
ATGGTCCATGCTGTTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCT
GGCCCAGTACCACTGTTACCC
Found at i:10938459 original size:158 final size:158
Alignment explanation
Indices: 10938171--10938485 Score: 578
Period size: 158 Copynumber: 2.0 Consensus size: 158
10938161 TTACCCAAAT
10938171 GGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTTATC
1 GGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTTATC
* *
10938236 TGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACTGTTA
66 TGAATAAGGAGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACTGTTA
10938301 CCTGAATGGGCTTAGGCCCAATGGGCTG
131 CCTGAATGGGCTTAGGCCCAATGGGCTG
*
10938329 GGGCTTGCATATGT-TTACTGATGTTGCATGTATTTTGAAATTGGCCTATGGGCCATACTGTTAT
1 GGGCTTGCATATGTCTT-CTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTTAT
*
10938393 CTGAATAATGAGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACTGTT
65 CTGAATAAGGAGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACTGTT
10938458 ACCTGAATGGGCTTAGGCCCAATGGGCT
130 ACCTGAATGGGCTTAGGCCCAATGGGCT
10938486 TGAGCTGGCT
Statistics
Matches: 152, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
157 2 0.01
158 150 0.99
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.31
Consensus pattern (158 bp):
GGGCTTGCATATGTCTTCTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTTATC
TGAATAAGGAGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACTGTTA
CCTGAATGGGCTTAGGCCCAATGGGCTG
Found at i:10941985 original size:18 final size:18
Alignment explanation
Indices: 10941962--10941996 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10941952 AAAAGATTTT
10941962 TATATAATATTCTTAAAA
1 TATATAATATTCTTAAAA
* *
10941980 TATATAGTATTTTTAAA
1 TATATAATATTCTTAAA
10941997 TTATTCTGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (18 bp):
TATATAATATTCTTAAAA
Found at i:10943239 original size:17 final size:16
Alignment explanation
Indices: 10943219--10943257 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
10943209 TCCAGAAAAG
*
10943219 TTTTTAATTTTTCTTTA
1 TTTTTAAATTTT-TTTA
10943236 TTTTTAAATTTTTTTA
1 TTTTTAAATTTTTTTA
10943252 TATTTT
1 T-TTTT
10943258 CCTTTTTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTAAATTTTTTTA
Found at i:10943240 original size:18 final size:18
Alignment explanation
Indices: 10943219--10943257 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
10943209 TCCAGAAAAG
10943219 TTTTT-AATTTTTCTT-TA
1 TTTTTAAATTTTT-TTATA
10943236 TTTTTAAATTTTTTTATA
1 TTTTTAAATTTTTTTATA
10943254 TTTT
1 TTTT
10943258 CCTTTTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTAAATTTTTTTATA
Found at i:10945141 original size:7 final size:7
Alignment explanation
Indices: 10945124--10945350 Score: 346
Period size: 7 Copynumber: 31.4 Consensus size: 7
10945114 CATTTCTCTT
10945124 CCCTAAAA
1 CCCT-AAA
10945132 CCCTAAA
1 CCCTAAA
10945139 CCCTAAAA
1 CCCT-AAA
10945147 CCCTAAAA
1 CCCT-AAA
*
10945155 CCATAAA
1 CCCTAAA
10945162 CCCTAAA
1 CCCTAAA
*
10945169 CACTAAA
1 CCCTAAA
10945176 CCCTAAA
1 CCCTAAA
10945183 CCCTAAA
1 CCCTAAA
10945190 CCCTAAA
1 CCCTAAA
10945197 CCCTAAAA
1 CCCT-AAA
10945205 CCCTAAA
1 CCCTAAA
10945212 CCCTAAA
1 CCCTAAA
10945219 CCCTAAAA
1 CCCT-AAA
*
10945227 CCATAAA
1 CCCTAAA
10945234 CCCTAAA
1 CCCTAAA
10945241 CCCTAAA
1 CCCTAAA
10945248 CCCTAAA
1 CCCTAAA
*
10945255 CTCTAAA
1 CCCTAAA
10945262 CCCTAAA
1 CCCTAAA
10945269 CCCTAAAA
1 CCCT-AAA
10945277 CCCTAAAA
1 CCCT-AAA
10945285 CCCTAAA
1 CCCTAAA
10945292 CCCTAAA
1 CCCTAAA
10945299 CCCTAAA
1 CCCTAAA
10945306 CCCTAAA
1 CCCTAAA
10945313 CCCTAAA
1 CCCTAAA
10945320 CCCTAAA
1 CCCTAAA
10945327 CCCTAAA
1 CCCTAAA
*
10945334 CCATAAA
1 CCCTAAA
10945341 CCCTAAA
1 CCCTAAA
10945348 CCC
1 CCC
10945351 ACTTGACACG
Statistics
Matches: 205, Mismatches: 10, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
7 159 0.78
8 46 0.22
ACGTcount: A:0.46, C:0.40, G:0.00, T:0.14
Consensus pattern (7 bp):
CCCTAAA
Found at i:10945237 original size:72 final size:72
Alignment explanation
Indices: 10945124--10945347 Score: 387
Period size: 72 Copynumber: 3.1 Consensus size: 72
10945114 CATTTCTCTT
*
10945124 CCCTAAAACCCTAAACCCTAAAACCCTAAAACCATAAACCCTAAACACTAAACCCTAAACCCTAA
1 CCCTAAAACCCTAAACCCT-AAACCCTAAAACCATAAACCCTAAACCCTAAACCCTAAACCCTAA
10945189 ACCCTAAA
65 ACCCTAAA
*
10945197 CCCTAAAACCCTAAACCCTAAACCCTAAAACCATAAACCCTAAACCCTAAACCCTAAACTCTAAA
1 CCCTAAAACCCTAAACCCTAAACCCTAAAACCATAAACCCTAAACCCTAAACCCTAAACCCTAAA
10945262 CCCTAAA
66 CCCTAAA
*
10945269 CCCTAAAACCCTAAAACCCTAAACCCT-AAACCCTAAACCCTAAACCCTAAACCCTAAACCCTAA
1 CCCTAAAACCCT-AAACCCTAAACCCTAAAACCATAAACCCTAAACCCTAAACCCTAAACCCTAA
*
10945333 ACCATAAA
65 ACCCTAAA
10945341 CCCTAAA
1 CCCTAAA
10945348 CCCACTTGAC
Statistics
Matches: 145, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
72 112 0.77
73 33 0.23
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.14
Consensus pattern (72 bp):
CCCTAAAACCCTAAACCCTAAACCCTAAAACCATAAACCCTAAACCCTAAACCCTAAACCCTAAA
CCCTAAA
Found at i:10945862 original size:51 final size:51
Alignment explanation
Indices: 10945715--10945851 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 51
10945705 CTACCATCAA
* * *
10945715 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
* * ** * * * *
10945766 ATATGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
10945817 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
10945852 AGTTACCATA
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
Found at i:10955802 original size:18 final size:18
Alignment explanation
Indices: 10955771--10955807 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10955761 CATTCAAATG
*
10955771 GCAAATAATATCAACATT
1 GCAAACAATATCAACATT
*
10955789 GCAAACAATCTCAACATT
1 GCAAACAATATCAACATT
10955807 G
1 G
10955808 TATTTTAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.22, G:0.08, T:0.24
Consensus pattern (18 bp):
GCAAACAATATCAACATT
Found at i:10957176 original size:39 final size:38
Alignment explanation
Indices: 10957080--10957176 Score: 97
Period size: 39 Copynumber: 2.5 Consensus size: 38
10957070 ACCATCTCCG
* * * *
10957080 TCCAACCCAACACACCATGTGGGGATAAAATCGACCCA
1 TCCAACCCTACACACCAAGTAGGGATAAAATCAACCCA
* * * *
10957118 CCCAGCCCTACATC-TCAAGTCAGGGATAAAATTAACCCA
1 TCCAACCCTACA-CACCAAGT-AGGGATAAAATCAACCCA
10957157 TCCAACCCTACACACCAAGT
1 TCCAACCCTACACACCAAGT
10957177 GGTACCATAT
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
38 14 0.31
39 31 0.69
ACGTcount: A:0.36, C:0.36, G:0.12, T:0.15
Consensus pattern (38 bp):
TCCAACCCTACACACCAAGTAGGGATAAAATCAACCCA
Found at i:10957537 original size:18 final size:18
Alignment explanation
Indices: 10957501--10957551 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
10957491 CAAACAAATC
* *
10957501 GGGCTCACACGCTCATGT
1 GGGCCCACACGCCCATGT
*
10957519 GGGCCCACACGCCCGTGT
1 GGGCCCACACGCCCATGT
*
10957537 -GGCTCACACAGCCCA
1 GGGCCCACAC-GCCCA
10957552 GATTGGCCTC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.18, C:0.41, G:0.27, T:0.14
Consensus pattern (18 bp):
GGGCCCACACGCCCATGT
Found at i:10959716 original size:20 final size:22
Alignment explanation
Indices: 10959691--10959738 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
10959681 ACCAGAACAT
10959691 CTTTTTCAAT-ATTTTTG-AAA
1 CTTTTTCAATAATTTTTGTAAA
*
10959711 CTTTTT-TATAATTTTTGTAAA
1 CTTTTTCAATAATTTTTGTAAA
*
10959732 TTTTTTC
1 CTTTTTC
10959739 TTTTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.09
20 13 0.57
21 8 0.35
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.62
Consensus pattern (22 bp):
CTTTTTCAATAATTTTTGTAAA
Found at i:10963208 original size:37 final size:37
Alignment explanation
Indices: 10963158--10963229 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
10963148 AAGGAGATTA
10963158 GATCATGCTACATTGAAGGGTAATCCTCATTTATTTG
1 GATCATGCTACATTGAAGGGTAATCCTCATTTATTTG
* *
10963195 GATCATGCTACATTGAAGGGTGATCTTCATTTATT
1 GATCATGCTACATTGAAGGGTAATCCTCATTTATT
10963230 CTCTAAGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.39
Consensus pattern (37 bp):
GATCATGCTACATTGAAGGGTAATCCTCATTTATTTG
Found at i:10964884 original size:21 final size:21
Alignment explanation
Indices: 10964858--10964909 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
10964848 GAGTGCCTTT
10964858 CAGTCAAATAATACAATCAGA
1 CAGTCAAATAATACAATCAGA
* *
10964879 CAGTCAAATAATTCAGTCAGA
1 CAGTCAAATAATACAATCAGA
10964900 CAGTCAAATA
1 CAGTCAAATA
10964910 GATATTGCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (21 bp):
CAGTCAAATAATACAATCAGA
Found at i:10977125 original size:17 final size:17
Alignment explanation
Indices: 10977103--10977154 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
10977093 TTTTTATCAT
10977103 TTATCATTTATCGGGCA
1 TTATCATTTATCGGGCA
**
10977120 TTATCATTTATTTCAAGCA
1 TTATCATTTA--TCGGGCA
*
10977139 TTATCATTTATTGGGC
1 TTATCATTTATCGGGC
10977155 TTTGTCGGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 13 0.46
19 15 0.54
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.46
Consensus pattern (17 bp):
TTATCATTTATCGGGCA
Found at i:10977234 original size:24 final size:24
Alignment explanation
Indices: 10977181--10977237 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
10977171 TCGATGTCAT
* *
10977181 ATATATATAATATTTATACAATTC
1 ATATAAATAATATTTATACAATGC
* *
10977205 ACATAAATAATATTTAATTCAA-GC
1 ATATAAATAATATTT-ATACAATGC
10977229 ATATAAATA
1 ATATAAATA
10977238 TACACAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.39
Consensus pattern (24 bp):
ATATAAATAATATTTATACAATGC
Found at i:10977483 original size:16 final size:13
Alignment explanation
Indices: 10977449--10977476 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10977439 GATCTTTTTA
10977449 TTATTTATCATCT
1 TTATTTATCATCT
10977462 TTATTTATCATCT
1 TTATTTATCATCT
10977475 TT
1 TT
10977477 CCAATTTTGT
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:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:10978009 original size:19 final size:20
Alignment explanation
Indices: 10977980--10978017 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
10977970 ATCTAAAACC
10977980 AAAAAAGTTGTTGAAGAAGG
1 AAAAAAGTTGTTGAAGAAGG
10978000 AAAAAA-TTGTTGAAGAAG
1 AAAAAAGTTGTTGAAGAAG
10978018 ACTTTAGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.26, T:0.21
Consensus pattern (20 bp):
AAAAAAGTTGTTGAAGAAGG
Found at i:10982918 original size:21 final size:21
Alignment explanation
Indices: 10982888--10982945 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 21
10982878 CAACCCACAA
*
10982888 CTCGTATGAGCATATTTACAG
1 CTCGTGTGAGCATATTTACAG
10982909 CTCGTGTGAGCATTATATTTACAG
1 CTCGTGTGAGC---ATATTTACAG
*
10982933 CTCATGTGAGCAT
1 CTCGTGTGAGCAT
10982946 TTCTATTTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 12 0.38
24 20 0.62
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (21 bp):
CTCGTGTGAGCATATTTACAG
Found at i:10982931 original size:24 final size:24
Alignment explanation
Indices: 10982899--10982946 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
10982889 TCGTATGAGC
*
10982899 ATATTTACAGCTCGTGTGAGCATT
1 ATATTTACAGCTCATGTGAGCATT
10982923 ATATTTACAGCTCATGTGAGCATT
1 ATATTTACAGCTCATGTGAGCATT
10982947 TCTATTTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (24 bp):
ATATTTACAGCTCATGTGAGCATT
Found at i:10987621 original size:21 final size:20
Alignment explanation
Indices: 10987596--10987635 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
10987586 TGTAGGGCTC
*
10987596 ACACGCCTGTGTGGTCTAGGG
1 ACACGCCTATGTGGT-TAGGG
10987617 ACACGCCTATGTGGTTAGG
1 ACACGCCTATGTGGTTAGG
10987636 CCGTGTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.23, G:0.35, T:0.25
Consensus pattern (20 bp):
ACACGCCTATGTGGTTAGGG
Found at i:10992608 original size:43 final size:42
Alignment explanation
Indices: 10992549--10992716 Score: 153
Period size: 43 Copynumber: 4.0 Consensus size: 42
10992539 ATATCGTACA
* * * *
10992549 ATGCCAACGTCCCAGATGTGGTCTTACATGCCATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AATCACATATCG
* * *
10992592 ATG-CAATTGTCCCAGATAG-GGCCTTACACGAATCAAATA-CG
1 ATGCCAA-TGTCCCAGA-CGTGGTCTTACACGAATCACATATCG
* *
10992633 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAAATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AATCACATATCG
** * *
10992676 ATGCCAACATCCCAGACGTGGTCTTAAACGAGAACACATAT
1 ATGCCAATGTCCCAGACGTGGTCTTACACGA-ATCACATAT
10992717 TAGAAATCCT
Statistics
Matches: 101, Mismatches: 17, Indels: 14
0.77 0.13 0.11
Matches are distributed among these distances:
41 24 0.24
42 21 0.21
43 55 0.54
44 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAATCACATATCG
Found at i:10993537 original size:4 final size:4
Alignment explanation
Indices: 10993528--10993560 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
10993518 CAAGCTTTAT
10993528 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
10993561 CAAGTTTCGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:10994331 original size:43 final size:43
Alignment explanation
Indices: 10994282--10994377 Score: 192
Period size: 43 Copynumber: 2.2 Consensus size: 43
10994272 ACCAGTGAAG
10994282 CAACAATTATTTGTAATAAAAACTATATATTGGTCCAAGTTCA
1 CAACAATTATTTGTAATAAAAACTATATATTGGTCCAAGTTCA
10994325 CAACAATTATTTGTAATAAAAACTATATATTGGTCCAAGTTCA
1 CAACAATTATTTGTAATAAAAACTATATATTGGTCCAAGTTCA
10994368 CAACAATTAT
1 CAACAATTAT
10994378 ATTATATTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (43 bp):
CAACAATTATTTGTAATAAAAACTATATATTGGTCCAAGTTCA
Found at i:10994383 original size:5 final size:5
Alignment explanation
Indices: 10994373--10994425 Score: 52
Period size: 5 Copynumber: 10.6 Consensus size: 5
10994363 GTTCACAACA
* ** ** *
10994373 ATTAT ATTAT ATTAT GTTAT ATTGC ATTGC ATTAT ATTAT ATTAT ATCAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
10994423 ATT
1 ATT
10994426 GTTTTTTGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.55
Consensus pattern (5 bp):
ATTAT
Found at i:10994426 original size:25 final size:25
Alignment explanation
Indices: 10994378--10994426 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
10994368 CAACAATTAT
* **
10994378 ATTATATTATGTTATATTGCATTGC
1 ATTATATTATATTATATCACATTGC
*
10994403 ATTATATTATATTATATCATATTG
1 ATTATATTATATTATATCACATTG
10994427 TTTTTTGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (25 bp):
ATTATATTATATTATATCACATTGC
Found at i:10998692 original size:43 final size:41
Alignment explanation
Indices: 10998618--10998729 Score: 109
Period size: 43 Copynumber: 2.7 Consensus size: 41
10998608 AGGATTTCCA
* ** *
10998618 ATATGTGTTCTCGTGTAAGACCA-CACTTGGGACGTTGGCATC
1 ATATGTGAT-TCGTGTAAGACCATGTC-TGGGACATTGGCATC
*
10998660 AATATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATC
1 -ATATGTGATT-CGTGTAAGACCATGTCTGGGACATTGGCATC
* * *
10998703 GTATTTGATTCGTGTAAGACCTTGTCT
1 ATATGTGATTCGTGTAAGACCATGTCT
10998730 AGAACAGTGG
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
41 15 0.26
42 9 0.16
43 33 0.57
44 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (41 bp):
ATATGTGATTCGTGTAAGACCATGTCTGGGACATTGGCATC
Found at i:10998729 original size:41 final size:43
Alignment explanation
Indices: 10998645--10998729 Score: 111
Period size: 41 Copynumber: 2.0 Consensus size: 43
10998635 AGACCACACT
* *
10998645 TGGGACGTTGGCATCAATATGTGATTATGTGTAAGACCATGTC
1 TGGGACATTGGCATCAATATGTGATTACGTGTAAGACCATGTC
* * *
10998688 TGGGACATTGGCATC-GTATTTGATT-CGTGTAAGACCTTGTC
1 TGGGACATTGGCATCAATATGTGATTACGTGTAAGACCATGTC
10998729 T
1 T
10998730 AGAACAGTGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 15 0.41
42 8 0.22
43 14 0.38
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.35
Consensus pattern (43 bp):
TGGGACATTGGCATCAATATGTGATTACGTGTAAGACCATGTC
Found at i:10998872 original size:19 final size:19
Alignment explanation
Indices: 10998848--10998888 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
10998838 TGGGCAATGA
10998848 TAAGTTGTGATCGAATGTG
1 TAAGTTGTGATCGAATGTG
10998867 TAAGTTGTGATCGAATGTG
1 TAAGTTGTGATCGAATGTG
10998886 TAA
1 TAA
10998889 ATCGAGCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.37
Consensus pattern (19 bp):
TAAGTTGTGATCGAATGTG
Found at i:11001582 original size:22 final size:20
Alignment explanation
Indices: 11001545--11001584 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11001535 AACTTGATCA
11001545 TTTTAATAAAATATTTTGAT
1 TTTTAATAAAATATTTTGAT
*
11001565 TTTTTATAACAATGATTTTG
1 TTTTAATAA-AAT-ATTTTG
11001585 GTCTACGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTTAATAAAATATTTTGAT
Found at i:11002356 original size:9 final size:9
Alignment explanation
Indices: 11002342--11002412 Score: 70
Period size: 9 Copynumber: 7.9 Consensus size: 9
11002332 ACTAACATAG
*
11002342 AATAATAAC
1 AATAACAAC
*
11002351 AATAATAAC
1 AATAACAAC
11002360 AATAACAAC
1 AATAACAAC
*
11002369 AACAACAAC
1 AATAACAAC
* *
11002378 GACAACAAC
1 AATAACAAC
*
11002387 AACAACAAC
1 AATAACAAC
* *
11002396 AATAATAAT
1 AATAACAAC
11002405 AATAACAA
1 AATAACAA
11002413 AAAAATCTGA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 54 1.00
ACGTcount: A:0.66, C:0.20, G:0.01, T:0.13
Consensus pattern (9 bp):
AATAACAAC
Found at i:11002369 original size:3 final size:3
Alignment explanation
Indices: 11002357--11002397 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
11002347 TAACAATAAT
* *
11002357 AAC AAT AAC AAC AAC AAC AAC GAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
11002398 TAATAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.66, C:0.29, G:0.02, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:11003426 original size:6 final size:6
Alignment explanation
Indices: 11003415--11003455 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
11003405 TCAAACAAGA
* *
11003415 AAAAAT AAAAAT AAAAAT GAAAAT AAAAAT -AGAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
11003456 GCAACCTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:11004154 original size:44 final size:44
Alignment explanation
Indices: 11004091--11004262 Score: 193
Period size: 44 Copynumber: 3.9 Consensus size: 44
11004081 AGGAATTGTT
* * * * * *
11004091 GCTTCAATCTACTCTACTGCAACTTTATGGAGATAAGA-TCTGTA
1 GCTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTC-GTG
*
11004135 GCTTTAATCCACTCCACTGCAACTTTAGGGAGATAAGATTCGTG
1 GCTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTCGTG
* ** * * *
11004179 GCTTTAATTCGTTCCACTGTAACTTCAAGGAGATAAGGTTCGTG
1 GCTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTCGTG
**
11004223 GCTTTAATATACTCCACTGCAACTTCAGGGAGATAAGATT
1 GCTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATT
11004263 TGCCATGATA
Statistics
Matches: 108, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
44 106 0.98
45 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (44 bp):
GCTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTCGTG
Found at i:11004521 original size:45 final size:45
Alignment explanation
Indices: 11004469--11004587 Score: 145
Period size: 44 Copynumber: 2.7 Consensus size: 45
11004459 ATCTGTTGTT
*
11004469 CTGCAACTTTAGAGAGATAAGATTTTCCATCTTCGATCTACTCCA
1 CTGCAACTTCAGAGAGATAAGATTTTCCATCTTCGATCTACTCCA
* * *
11004514 CTGCAACTTCA-AGGAGATAAGATCTAT--AACTTCTATCTACTCCA
1 CTGCAACTTCAGA-GAGATAAGAT-TTTCCATCTTCGATCTACTCCA
* *
11004558 CTGCAACTTCAGGGAGATAAGATTTGCCAT
1 CTGCAACTTCAGAGAGATAAGATTTTCCAT
11004588 GGTAGATTCA
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.02
44 37 0.61
45 21 0.34
46 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (45 bp):
CTGCAACTTCAGAGAGATAAGATTTTCCATCTTCGATCTACTCCA
Found at i:11022537 original size:16 final size:17
Alignment explanation
Indices: 11022516--11022552 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
11022506 AATATATTGG
11022516 AAATTAAAAAAAAT-TA
1 AAATTAAAAAAAATATA
*
11022532 AAATTATAAAAAATATA
1 AAATTAAAAAAAATATA
11022549 AAAT
1 AAAT
11022553 ATTGACAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATTAAAAAAAATATA
Found at i:11023448 original size:19 final size:20
Alignment explanation
Indices: 11023424--11023461 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11023414 TAATAATAAT
11023424 AATAGTTGA-ATATTTAAAA
1 AATAGTTGATATATTTAAAA
*
11023443 AATAGTTTATATATTTAAA
1 AATAGTTGATATATTTAAA
11023462 TTAAAGCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (20 bp):
AATAGTTGATATATTTAAAA
Found at i:11029335 original size:41 final size:41
Alignment explanation
Indices: 11029282--11029395 Score: 165
Period size: 41 Copynumber: 2.8 Consensus size: 41
11029272 TTTCCAAATC
**
11029282 AATGAAGAGGTTGAAAAGGATGTTATCTGAAAAGGATATCA
1 AATGAAGAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
*
11029323 AATGAAGAGGTTGAAAAGGATGTTATCCAAAAAGGGTATCA
1 AATGAAGAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
* * **
11029364 AATGAAAAGGTTGAAAATGACATTATCCAAAA
1 AATGAAGAGGTTGAAAAGGATGTTATCCAAAA
11029396 GAGACAACAA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.46, C:0.07, G:0.24, T:0.23
Consensus pattern (41 bp):
AATGAAGAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
Found at i:11029407 original size:41 final size:41
Alignment explanation
Indices: 11029282--11029412 Score: 120
Period size: 41 Copynumber: 3.2 Consensus size: 41
11029272 TTTCCAAATC
* ** ** * *
11029282 AATGAAGAGGTTGAAAAGGATGTTATCTGAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGACATTATCCAAAAAGGACAACA
* ** ** *
11029323 AATGAAGAGGTTGAAAAGGATGTTATCCAAAAAGGGTATCA
1 AATGAAAAGGTTGAAAAGGACATTATCCAAAAAGGACAACA
*
11029364 AATGAAAAGGTTGAAAATGACATTATCC-AAAAGAGACAACA
1 AATGAAAAGGTTGAAAAGGACATTATCCAAAAAG-GACAACA
11029405 AATGAAAA
1 AATGAAAA
11029413 AGGTCAGTAT
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 5 0.06
41 74 0.94
ACGTcount: A:0.49, C:0.08, G:0.23, T:0.21
Consensus pattern (41 bp):
AATGAAAAGGTTGAAAAGGACATTATCCAAAAAGGACAACA
Found at i:11031235 original size:18 final size:19
Alignment explanation
Indices: 11031200--11031238 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
11031190 GTGACCCTTG
* *
11031200 TTTCCCAAATTTTCATGTT
1 TTTCCAAAAATTTCATGTT
11031219 TTTCCAAAAATTT-ATGTT
1 TTTCCAAAAATTTCATGTT
11031237 TT
1 TT
11031239 GTTTCAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.26, C:0.15, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTCCAAAAATTTCATGTT
Found at i:11032547 original size:22 final size:22
Alignment explanation
Indices: 11032515--11032562 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
11032505 TGTCCAGTAC
11032515 AATTTAATATAAAATTAATCAA
1 AATTTAATATAAAATTAATCAA
* *
11032537 AATTTATTATAAAATTAATTAA
1 AATTTAATATAAAATTAATCAA
11032559 AATT
1 AATT
11032563 CAACAAGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTTAATATAAAATTAATCAA
Found at i:11033027 original size:16 final size:16
Alignment explanation
Indices: 11032961--11033034 Score: 71
Period size: 16 Copynumber: 4.6 Consensus size: 16
11032951 GATTCACTTG
*
11032961 AATGGAATAG-GACTGT
1 AATGGAATAGAG-CTAT
*
11032977 AATGGAATAGGGCTAT
1 AATGGAATAGAGCTAT
* *
11032993 AATGGAAT-GAAGTTGT
1 AATGGAATAG-AGCTAT
11033009 AATGGAATAGAGCTAT
1 AATGGAATAGAGCTAT
*
11033025 AATAGAATAG
1 AATGGAATAG
11033035 GGTTGTAATC
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
15 1 0.02
16 45 0.94
17 2 0.04
ACGTcount: A:0.42, C:0.04, G:0.28, T:0.26
Consensus pattern (16 bp):
AATGGAATAGAGCTAT
Found at i:11033040 original size:32 final size:32
Alignment explanation
Indices: 11032965--11033043 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
11032955 CACTTGAATG
** * *
11032965 GAATAGGACTGTAATGGAATAGGGCTATAATG
1 GAATAGGGTTGTAATGGAATAGAGCTATAATA
*
11032997 GAAT-GAAGTTGTAATGGAATAGAGCTATAATA
1 GAATAG-GGTTGTAATGGAATAGAGCTATAATA
11033029 GAATAGGGTTGTAAT
1 GAATAGGGTTGTAAT
11033044 CAGTAATTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
31 1 0.03
32 37 0.95
33 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.29, T:0.28
Consensus pattern (32 bp):
GAATAGGGTTGTAATGGAATAGAGCTATAATA
Found at i:11036094 original size:15 final size:15
Alignment explanation
Indices: 11036074--11036106 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
11036064 GTCTTGCTCG
11036074 TTCTTTCTCCATTTT
1 TTCTTTCTCCATTTT
11036089 TTCTTTCTCCATTTT
1 TTCTTTCTCCATTTT
11036104 TTC
1 TTC
11036107 CTTGCTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.27, G:0.00, T:0.67
Consensus pattern (15 bp):
TTCTTTCTCCATTTT
Found at i:11047279 original size:12 final size:12
Alignment explanation
Indices: 11047262--11047287 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11047252 GTAACAGGTG
11047262 CATTACACAAAC
1 CATTACACAAAC
11047274 CATTACACAAAC
1 CATTACACAAAC
11047286 CA
1 CA
11047288 AATGGTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (12 bp):
CATTACACAAAC
Found at i:11055931 original size:25 final size:25
Alignment explanation
Indices: 11055902--11055949 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
11055892 TTATAGTATG
* * *
11055902 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACTATTATACCCCTAGGTA
11055927 AAAATGACTATTATACCCCTAGG
1 AAAATGACTATTATACCCCTAGG
11055950 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACTATTATACCCCTAGGTA
Found at i:11056116 original size:26 final size:26
Alignment explanation
Indices: 11056081--11056216 Score: 199
Period size: 26 Copynumber: 5.3 Consensus size: 26
11056071 GAGGAAGTGA
11056081 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
11056107 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
11056133 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
11056159 AAAAGGGCTTATGCCCCAGATTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
11056185 -AAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
11056207 AAAAGAGGCT
1 AAAAG-GGCT
11056217 AGGCCTCCAG
Statistics
Matches: 101, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
23 8 0.08
24 12 0.12
25 9 0.09
26 72 0.71
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:11063168 original size:43 final size:43
Alignment explanation
Indices: 11063120--11063201 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
11063110 ATTACCGAAA
* *
11063120 TGTGATTATATGTAAGACCGTGTATGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTATGGGACATTGGCATTGTAT
*
11063163 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATT
1 TGTGATTACATGTAAGACCATGTATGGGACATTGGCATT
11063202 ATTATATGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.35
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTATGGGACATTGGCATTGTAT
Found at i:11063212 original size:43 final size:43
Alignment explanation
Indices: 11063122--11063288 Score: 126
Period size: 43 Copynumber: 3.9 Consensus size: 43
11063112 TACCGAAATG
* * * * *
11063122 TGATTATATGTAAGACCGTGTATGGGACATTGGCATT-GTATTG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTATTA-TA
11063165 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTATTATA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTATTATA
* * * * * * *
11063208 TGATTTCGTGTAAGAATC-TGTCTGAGATAGTGGCATCGA-TATA
1 TGATTACATGTAAG-ACCATGTCTGGGACATTGGCAT-TATTATA
* * * * *
11063251 TGATAACATATAAGACCATATCTAGGATA-TGGCATTAT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTAT
11063289 ATAAGCTTTA
Statistics
Matches: 98, Mismatches: 21, Indels: 11
0.75 0.16 0.08
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 84 0.86
44 5 0.05
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.35
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATTATTATA
Found at i:11067367 original size:17 final size:17
Alignment explanation
Indices: 11067345--11067377 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11067335 CAGCCAAAGG
11067345 GGTATTCATAGGTTGAA
1 GGTATTCATAGGTTGAA
*
11067362 GGTATTTATAGGTTGA
1 GGTATTCATAGGTTGA
11067378 CAAGGCTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.03, G:0.30, T:0.39
Consensus pattern (17 bp):
GGTATTCATAGGTTGAA
Found at i:11078271 original size:20 final size:21
Alignment explanation
Indices: 11078228--11078272 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
11078218 CAAAGGTATC
11078228 GATATTCAGGTTTTAAAAATT
1 GATATTCAGGTTTTAAAAATT
*
11078249 GATATTCGGGTTTTAAAAA-T
1 GATATTCAGGTTTTAAAAATT
11078269 GATA
1 GATA
11078273 CATTTGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (21 bp):
GATATTCAGGTTTTAAAAATT
Found at i:11088282 original size:22 final size:22
Alignment explanation
Indices: 11088240--11088283 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
11088230 AATTATTTAC
* *
11088240 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
11088262 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
11088284 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:11088584 original size:40 final size:40
Alignment explanation
Indices: 11088510--11088731 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
11088500 AACCCAAGTA
* * *
11088510 CCTTCGAGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
11088549 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
11088589 CCTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
11088629 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
11088669 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
11088709 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
11088732 CATTCGAATA
Statistics
Matches: 168, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 11 0.07
40 154 0.92
41 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:11092120 original size:96 final size:96
Alignment explanation
Indices: 11091949--11092125 Score: 218
Period size: 96 Copynumber: 1.8 Consensus size: 96
11091939 TGATATGTGT
* * * * *
11091949 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAGTTTAAGATCATG
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGACCACATCATGAGAGCCAGTGTAACACCATG
11092014 TATGAGACATGGCATCGGCGTTGAGACGAGA
66 TATGAGACATGGCATCGGCGTTGAGACGAGA
* *
11092045 GCTAGTGTAAGACCATG-CTTAGGACATGGCATCCG-CCTCGA-CATGTGAGCCAGTGTAACACC
1 GCTAGTGTAAGACCATGTC-TAGGACATGGCAT-CGACCAC-ATCATGAGAGCCAGTGTAACACC
*
11092107 ATGTTTCGA-ACATGGCATC
63 ATGTAT-GAGACATGGCATC
11092126 AGCAATTCAC
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
95 1 0.01
96 63 0.91
97 5 0.07
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTAGGACATGGCATCGACCACATCATGAGAGCCAGTGTAACACCATG
TATGAGACATGGCATCGGCGTTGAGACGAGA
Found at i:11094667 original size:25 final size:23
Alignment explanation
Indices: 11094639--11094729 Score: 78
Period size: 23 Copynumber: 3.9 Consensus size: 23
11094629 TAAGTCCTCC
* *
11094639 TGAGCTGATGAACGGTAAGCTCTGT
1 TGAGCTGA--AACAGTAAGCTCTGA
*
11094664 TGAGTTGAAACAGTAAGCTCTGA
1 TGAGCTGAAACAGTAAGCTCTGA
* *
11094687 TGAGTTG-AACAGTAAACTCAT-A
1 TGAGCTGAAACAGTAAGCTC-TGA
*
11094709 CGAGCTGAGAACAGTAAGCTC
1 TGAGCTGA-AACAGTAAGCTC
11094730 ATACAAGTTG
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
22 17 0.30
23 21 0.38
24 11 0.20
25 7 0.12
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.24
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTGA
Found at i:11094700 original size:22 final size:22
Alignment explanation
Indices: 11094647--11094701 Score: 83
Period size: 23 Copynumber: 2.5 Consensus size: 22
11094637 CCTGAGCTGA
* *
11094647 TGAACGGTAAGCTCTGTTGAGT
1 TGAACAGTAAGCTCTGATGAGT
11094669 TGAAACAGTAAGCTCTGATGAGT
1 TG-AACAGTAAGCTCTGATGAGT
11094692 TGAACAGTAA
1 TGAACAGTAA
11094702 ACTCATACGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 10 0.33
23 20 0.67
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (22 bp):
TGAACAGTAAGCTCTGATGAGT
Found at i:11094925 original size:17 final size:19
Alignment explanation
Indices: 11094899--11094945 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
11094889 GCATCCATAT
*
11094899 TTCAAGTATATCA-ATT-A
1 TTCAAATATATCACATTCA
11094916 TTCAAATATA-CACATTCA
1 TTCAAATATATCACATTCA
11094934 TTACAAATATAT
1 TT-CAAATATAT
11094946 ACAAGTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 2 0.08
17 12 0.48
18 3 0.12
19 8 0.32
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (19 bp):
TTCAAATATATCACATTCA
Found at i:11098148 original size:42 final size:44
Alignment explanation
Indices: 11098079--11098169 Score: 132
Period size: 42 Copynumber: 2.1 Consensus size: 44
11098069 TCTTAGATGT
* *
11098079 AATCAAATATCGATGCCACTATCCCAAACAGGGTCTTACACG-A
1 AATCAAATATCGATGCAAATATCCCAAACAGGGTCTTACACGTA
* *
11098122 AATCAAATA-CGATGCAAATGTCCCAAACATGGTCTTACACGTA
1 AATCAAATATCGATGCAAATATCCCAAACAGGGTCTTACACGTA
11098165 AATCA
1 AATCA
11098170 TAAGTCGATG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 28 0.65
43 15 0.35
ACGTcount: A:0.40, C:0.25, G:0.13, T:0.22
Consensus pattern (44 bp):
AATCAAATATCGATGCAAATATCCCAAACAGGGTCTTACACGTA
Found at i:11102402 original size:29 final size:29
Alignment explanation
Indices: 11102360--11102416 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
11102350 AAAGTAAGCT
11102360 TCACACCCTTTTCTCACAATACTCAAAGA
1 TCACACCCTTTTCTCACAATACTCAAAGA
*
11102389 TCACACCCTTTTCTCATAATACTCAAAG
1 TCACACCCTTTTCTCACAATACTCAAAG
11102417 CTTTCATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.04, T:0.30
Consensus pattern (29 bp):
TCACACCCTTTTCTCACAATACTCAAAGA
Found at i:11110302 original size:42 final size:42
Alignment explanation
Indices: 11110241--11110323 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
11110231 AATATCCCGA
11110241 ATTAGGGCCTAATCAGAATAGTGGTTTCGTGACCACAAATCC
1 ATTAGGGCCTAATCAGAATAGTGGTTTCGTGACCACAAATCC
* *
11110283 ATTAGGGCCTAATCGGAATAGTGGTTTGGTGACCACAAATC
1 ATTAGGGCCTAATCAGAATAGTGGTTTCGTGACCACAAATC
11110324 TGAGATAGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (42 bp):
ATTAGGGCCTAATCAGAATAGTGGTTTCGTGACCACAAATCC
Found at i:11118110 original size:26 final size:26
Alignment explanation
Indices: 11118081--11118133 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
11118071 CACTCAATTG
* *
11118081 TCATCCATTGTTCTCATTTCCCTAGT
1 TCATCAATTGTTCTCATCTCCCTAGT
*
11118107 TCATCAATTGTTCTCCTCTCCCTAGT
1 TCATCAATTGTTCTCATCTCCCTAGT
11118133 T
1 T
11118134 TTTCTTCCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.32, G:0.08, T:0.45
Consensus pattern (26 bp):
TCATCAATTGTTCTCATCTCCCTAGT
Found at i:11120906 original size:25 final size:25
Alignment explanation
Indices: 11120853--11120933 Score: 72
Period size: 24 Copynumber: 3.6 Consensus size: 25
11120843 CTTTTTTTAT
*
11120853 TAAATCAAA-AAATTTAAAATATAA
1 TAAATCAAATAAATTTAAAACATAA
*
11120877 TAAATCAAATACATTTAAAAACATAA
1 TAAATCAAATAAATTT-AAAACATAA
11120903 -AAAT-AAAT--A-TTAAAACA-AA
1 TAAATCAAATAAATTTAAAACATAA
11120922 -AAAT-AAATAAAT
1 TAAATCAAATAAAT
11120934 AATGAGACTA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
19 10 0.20
20 6 0.12
21 3 0.06
22 1 0.02
24 13 0.26
25 9 0.18
26 8 0.16
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (25 bp):
TAAATCAAATAAATTTAAAACATAA
Found at i:11122959 original size:17 final size:18
Alignment explanation
Indices: 11122928--11122966 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
11122918 ATCTCATTAG
* *
11122928 TTTTATATCTATAAATAT
1 TTTTATATATATAAACAT
11122946 TTTTATATAT-TAAACAT
1 TTTTATATATATAAACAT
11122963 TTTT
1 TTTT
11122967 TAAAAATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTATATATATAAACAT
Found at i:11125001 original size:43 final size:42
Alignment explanation
Indices: 11124954--11125101 Score: 138
Period size: 43 Copynumber: 3.5 Consensus size: 42
11124944 GTTTTCGTGC
* * *
11124954 AAGACAATGTTTGGGACGTTGGCATTGATATGTGGTTACATGT
1 AAGACCATGTTTGGGACGTTGGCATCGATATGTGATT-CATGT
* * *
11124997 AAGACCATGTCTGGGACATTGGCATCG-TATTTGATTCATGT
1 AAGACCATGTTTGGGACGTTGGCATCGATATGTGATTCATGT
* * **
11125038 AAGACCCTGTTTGGGACAG-TGGCATCGATATGAGATAGGATGT
1 AAGACCATGTTTGGGAC-GTTGGCATCGATATGTGAT-TCATGT
* * *
11125081 AAGATCACGTCTGGGACGTTG
1 AAGACCATGTTTGGGACGTTG
11125102 CCATTGTATG
Statistics
Matches: 84, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 28 0.33
42 14 0.17
43 42 0.50
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (42 bp):
AAGACCATGTTTGGGACGTTGGCATCGATATGTGATTCATGT
Found at i:11125053 original size:41 final size:43
Alignment explanation
Indices: 11124954--11125069 Score: 146
Period size: 41 Copynumber: 2.7 Consensus size: 43
11124944 GTTTTCGTGC
* * * *
11124954 AAGACAATGTTTGGGACGTTGGCATTGATATGTGGTTACATGT
1 AAGACCATGTTTGGGACATTGGCATCGATATGTGATTACATGT
* *
11124997 AAGACCATGTCTGGGACATTGGCATCG-TATTTGATT-CATGT
1 AAGACCATGTTTGGGACATTGGCATCGATATGTGATTACATGT
* *
11125038 AAGACCCTGTTTGGGACAGTGGCATCGATATG
1 AAGACCATGTTTGGGACATTGGCATCGATATG
11125070 AGATAGGATG
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 29 0.47
42 10 0.16
43 23 0.37
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (43 bp):
AAGACCATGTTTGGGACATTGGCATCGATATGTGATTACATGT
Found at i:11126171 original size:20 final size:22
Alignment explanation
Indices: 11126142--11126189 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
11126132 GATGTATATA
*
11126142 TATATATTGGTTTATTA-AATG
1 TATATATTGGCTTATTACAATG
*
11126163 -ATATTTTGGCTTATTACAATG
1 TATATATTGGCTTATTACAATG
11126184 TATATA
1 TATATA
11126190 AAATTTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 14 0.64
21 4 0.18
22 4 0.18
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.50
Consensus pattern (22 bp):
TATATATTGGCTTATTACAATG
Found at i:11130567 original size:13 final size:14
Alignment explanation
Indices: 11130543--11130571 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11130533 ATTTTCTAGT
11130543 TTACTAAATTAACC
1 TTACTAAATTAACC
11130557 TTACT-AATTAACC
1 TTACTAAATTAACC
11130570 TT
1 TT
11130572 TAAATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (14 bp):
TTACTAAATTAACC
Found at i:11144827 original size:25 final size:25
Alignment explanation
Indices: 11144793--11144871 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
11144783 CTCTTTTAAT
11144793 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* * *
11144818 AACTAGGGCAAAGTCC-TTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTTGA-TA
* *
11144843 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
11144868 AACT
1 AACT
11144872 TTTAGCACTT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 5 0.11
25 36 0.82
26 3 0.07
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:11145136 original size:27 final size:27
Alignment explanation
Indices: 11145103--11145346 Score: 271
Period size: 27 Copynumber: 9.1 Consensus size: 27
11145093 GGTATCTCAG
11145103 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
11145130 TATTTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
11145157 TAATTCTATCCTACAGGGGTCTTTC-A
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
11145183 GTAATTCTACCCTATA-GGGTATTT-TA
1 -TAATTCTACCCTACAGGGGTATTTCGA
* *
11145209 GTAATTCTACCCTATAGGGGTATTTCGG
1 -TAATTCTACCCTACAGGGGTATTTCGA
* *
11145237 TAATTTTACCCTACAGGGTTATTTC-A
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
11145263 GTAATTCTACCCTATAAGGGTATTTCGG
1 -TAATTCTACCCTACAGGGGTATTTCGA
* * * *
11145291 TAATTCTACCCTATAAGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCGA
11145318 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
11145345 TA
1 TA
11145347 TTTTACAAAT
Statistics
Matches: 184, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
26 24 0.13
27 160 0.87
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:11145160 original size:54 final size:54
Alignment explanation
Indices: 11145089--11145349 Score: 323
Period size: 54 Copynumber: 4.9 Consensus size: 54
11145079 TAATTTTACC
*
11145089 CAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTA
* * * *
11145143 CAAGGGTATTTCGGTAATTCTATCCTACAGGGGTCTTTC-AGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGA-TATTTCTACCCTA
* * * *
11145197 -TAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGGTAATTT-TACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGAT-ATTTCTACCCTA
* * * *
11145250 C-AGGGTTATTTCAGTAATTCTACCCTATAAGGGTATTTCGGTAATTCTACCCTA
1 CAAGGG-TATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTA
* **
11145304 TAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCGATATTT
1 CAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTT
11145350 TACAAATTGA
Statistics
Matches: 177, Mismatches: 23, Indels: 14
0.83 0.11 0.07
Matches are distributed among these distances:
53 48 0.27
54 125 0.71
55 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTA
Found at i:11145228 original size:107 final size:106
Alignment explanation
Indices: 11145078--11145352 Score: 385
Period size: 107 Copynumber: 2.6 Consensus size: 106
11145068 GGGCAAAATG
* * *
11145078 GTAATTTTACCC-A-AGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCC
1 GTAATTCTACCCTATAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATATTT-TACCC
* * * *
11145141 TACAAGGG-TATTTCGGTAATTCTATCCTACAGGGGTCTTTCA
65 TAC-AGGGTTATTTCAGTAATTCTACCCTACAAGGGTATTTCA
* *
11145183 GTAATTCTACCCTATAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGGTAATTTTACCC
1 GTAATTCTACCCTATAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGAT-ATTTTACCC
* *
11145248 TACAGGGTTATTTCAGTAATTCTACCCTATAAGGGTATTTCG
65 TACAGGGTTATTTCAGTAATTCTACCCTACAAGGGTATTTCA
*
11145290 GTAATTCTACCCTATAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCGATATTTTAC
1 GTAATTCTACCCTAT-AGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATATTTTAC
11145353 AAATTGAGAG
Statistics
Matches: 151, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
105 11 0.07
106 5 0.03
107 94 0.62
108 41 0.27
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (106 bp):
GTAATTCTACCCTATAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATATTTTACCCT
ACAGGGTTATTTCAGTAATTCTACCCTACAAGGGTATTTCA
Found at i:11145375 original size:134 final size:134
Alignment explanation
Indices: 11145103--11145376 Score: 313
Period size: 134 Copynumber: 2.0 Consensus size: 134
11145093 GGTATCTCAG
* * *
11145103 TAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCC
1 TAATTTTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCC
* * * * ** *
11145168 TACAGGGGTCTTTCAGTAATTCTACCCTATAGGGTATTTTAGTAATTCTACCCTATAGGGGTATT
66 TACAAGGGTATTTCAGTAATTCTACCCTACAGGGTATTTGAGTAATTCTACCAAATAGGAGTATT
*
11145233 TCGG
131 TCGA
* *
11145237 TAATTTTACCCTACAGGGTTATTTC-AGTAATTCTACCCTATAAGGGTATTTCGGTAATTCTACC
1 TAATTTTACCCTACAGGGGTATTTCGA-TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACC
* ** * *
11145301 CTATAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCGA-T-ATTTTA-CAAATTGAGAG
65 CTACAAGGGTATTTCAGTAATTCTACCCTACA-GGGTATTT-GAGTAATTCTACCAAATAG-GAG
*
11145363 TATTTTGA
127 TATTTCGA
11145371 TAATTT
1 TAATTT
11145377 CACAAATCAG
Statistics
Matches: 117, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
133 5 0.04
134 102 0.87
135 9 0.08
136 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.39
Consensus pattern (134 bp):
TAATTTTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCC
TACAAGGGTATTTCAGTAATTCTACCCTACAGGGTATTTGAGTAATTCTACCAAATAGGAGTATT
TCGA
Found at i:11145544 original size:27 final size:27
Alignment explanation
Indices: 11145362--11145540 Score: 225
Period size: 27 Copynumber: 6.6 Consensus size: 27
11145352 CAAATTGAGA
* * *
11145362 GTATTTTGATAATTTCACAAATCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
11145389 GTATTTTGGTAATTTTACAAGCCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
11145416 GTATTTTGGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
11145443 GTATTTTAGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
** *
11145470 GTATTTTGGTAATTTTACTGATC-GAGG
1 GTATTTTGGTAATTTTACAAACCAG-GG
** * *
11145497 GTATTTTGGTAATTTTTTAAACCAAGA
1 GTATTTTGGTAATTTTACAAACCAGGG
*
11145524 GTATTTTAGTAATTTTA
1 GTATTTTGGTAATTTTA
11145541 TAAATCGAGG
Statistics
Matches: 131, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 130 0.99
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACCAGGG
Found at i:11145553 original size:54 final size:55
Alignment explanation
Indices: 11145332--11145551 Score: 232
Period size: 54 Copynumber: 4.1 Consensus size: 55
11145322 TCTACCCTAC
* * *** * *
11145332 AGGGGTATTTCGAT-ATTTTACAAATTGAGAGTATTTTGATAATTTCACAAATC-
1 AGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTGGTAATTTTACAAATCG
* * * *
11145385 AGGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAA-CC
1 AGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTGGTAATTTTACAAATCG
* * * **
11145439 AGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACTGATCG
1 AGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTGGTAATTTTACAAATCG
** * *
11145494 A-GGGTATTTTGGTAATTTTTTAAACCAAGAGTATTTTAGTAATTTTATAAATCG
1 AGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTGGTAATTTTACAAATCG
11145548 AGGG
1 AGGG
11145552 TAAAACGGTA
Statistics
Matches: 139, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
53 13 0.09
54 122 0.88
55 4 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (55 bp):
AGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTGGTAATTTTACAAATCG
Found at i:11145553 original size:81 final size:81
Alignment explanation
Indices: 11145307--11145551 Score: 262
Period size: 81 Copynumber: 3.0 Consensus size: 81
11145297 TACCCTATAA
* **** * * ***
11145307 GGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCGAT-ATTTTACAAATTGAGAGTATTTT-G
1 GGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTAG
*
11145370 ATAATTTCACAAATCAG
66 -TAATTTTACAAATCAG
* *
11145387 GGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTAG
*
11145452 TAATTTTACAAACCAG
66 TAATTTTACAAATCAG
* * * **
11145468 GGGTATTTTGGTAATTTTACTGATCGA-GGGTATTTTGGTAATTTTTTAAACCAAGAGTATTTTA
1 GGGTATTTTGGTAATTTTAC-AAGCCAGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTA
*
11145532 GTAATTTTATAAATCGAG
65 GTAATTTTACAAATC-AG
11145550 GG
1 GG
11145552 TAAAACGGTA
Statistics
Matches: 138, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
80 32 0.23
81 98 0.71
82 8 0.06
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTAG
TAATTTTACAAATCAG
Found at i:11145562 original size:27 final size:27
Alignment explanation
Indices: 11145532--11145848 Score: 445
Period size: 27 Copynumber: 11.7 Consensus size: 27
11145522 GAGTATTTTA
*
11145532 GTAATTTTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
**
11145559 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
11145586 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
11145613 GTAATTCTATAAATCGAGGGTCAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
11145640 GTAATTATATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
11145667 GTAATTTTTTAAATCGAGTGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
11145694 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
11145721 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
11145748 ATAATTCTGTAGATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
11145775 ATAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
11145802 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
11145829 GTAATTTTACAAATCGAGGG
1 GTAATTCTATAAATCGAGGG
11145849 CATTTCAGTA
Statistics
Matches: 261, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 261 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:11147844 original size:15 final size:15
Alignment explanation
Indices: 11147795--11147846 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
11147785 TAATGAGTGC
*
11147795 TCGTGGTACGAAAGG
1 TCGTGGTACGTAAGG
* * *
11147810 TCATGGTATGTGAGG
1 TCGTGGTACGTAAGG
11147825 TCGTGGTACGTAAGG
1 TCGTGGTACGTAAGG
*
11147840 GCGTGGT
1 TCGTGGT
11147847 GGACGTCGTA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.19, C:0.12, G:0.42, T:0.27
Consensus pattern (15 bp):
TCGTGGTACGTAAGG
Found at i:11150952 original size:29 final size:29
Alignment explanation
Indices: 11150910--11151087 Score: 248
Period size: 29 Copynumber: 6.1 Consensus size: 29
11150900 TGTGCTAAAT
*
11150910 GATGGTCGAAATCATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
* *
11150939 GATGGTTGAAATCATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
*
11150968 GATGGTCAAAACCATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
** *
11150997 GATGGTCGTCACCATCCCTTTTCATATCC
1 GATGGTCGAAACCATCCCTTTTCATATTC
** * *
11151026 GATGGTCGTCACCATCCCTTTTCGTATTT
1 GATGGTCGAAACCATCCCTTTTCATATTC
*
11151055 GATGGTCGAAACTATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
11151084 GATG
1 GATG
11151088 AGCGTTGATA
Statistics
Matches: 133, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 133 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.38
Consensus pattern (29 bp):
GATGGTCGAAACCATCCCTTTTCATATTC
Found at i:11153100 original size:24 final size:24
Alignment explanation
Indices: 11153073--11153118 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
11153063 TCCTTTACTC
*
11153073 TCCTAATCAAT-TTTTACTTCTAAT
1 TCCTAAT-AATCTTTGACTTCTAAT
11153097 TCCTAATAATCTTTGACTTCTA
1 TCCTAATAATCTTTGACTTCTA
11153119 TAACCCTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.28, C:0.22, G:0.02, T:0.48
Consensus pattern (24 bp):
TCCTAATAATCTTTGACTTCTAAT
Found at i:11155706 original size:5 final size:5
Alignment explanation
Indices: 11155696--11155990 Score: 590
Period size: 5 Copynumber: 59.0 Consensus size: 5
11155686 ATTGTGAATA
11155696 GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT
1 GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT
11155746 GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT
1 GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT
11155796 GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT
1 GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT
11155846 GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT
1 GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT
11155896 GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT
1 GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT
11155946 GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT
1 GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT
11155991 ATGGGTATAT
Statistics
Matches: 290, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 290 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
GTATT
Found at i:11158481 original size:72 final size:72
Alignment explanation
Indices: 11158364--11158577 Score: 410
Period size: 72 Copynumber: 3.0 Consensus size: 72
11158354 GAAGGGTTGT
11158364 GAAACATACTTAGCTTATGTGCATTACATGAGTATTGAAAGTATTGCAGTTGAGGGCATTCAAAC
1 GAAACATACTTAGCTTATGTGCATTACATGAGTATTGAAAGTATTGCAGTTGAGGGCATTCAAAC
11158429 AATTAGG
66 AATTAGG
11158436 GAAACATACTTAGCTTATGTGCATTACATGAGTATTGAAAGTATTGCAGTTGAGGGCATTCAAAC
1 GAAACATACTTAGCTTATGTGCATTACATGAGTATTGAAAGTATTGCAGTTGAGGGCATTCAAAC
11158501 AATTAGG
66 AATTAGG
* *
11158508 GAAACATACTTAGCTTATGTGCATTACATGAGTATTGAAAGTATTGTAGTTGAAGGCATTCAAAC
1 GAAACATACTTAGCTTATGTGCATTACATGAGTATTGAAAGTATTGCAGTTGAGGGCATTCAAAC
11158573 AATTA
66 AATTA
11158578 AGGATTTTCC
Statistics
Matches: 140, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 140 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (72 bp):
GAAACATACTTAGCTTATGTGCATTACATGAGTATTGAAAGTATTGCAGTTGAGGGCATTCAAAC
AATTAGG
Found at i:11172957 original size:24 final size:24
Alignment explanation
Indices: 11172927--11172972 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
11172917 TCAATTTTAT
11172927 AAAAATAACTAAAAATA-TATAATA
1 AAAAAT-ACTAAAAATATTATAATA
*
11172951 AAAAATAGTAAAAATATTATAA
1 AAAAATACTAAAAATATTATAA
11172973 AGTATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAAATACTAAAAATATTATAATA
Found at i:11175013 original size:1 final size:1
Alignment explanation
Indices: 11175007--11175064 Score: 62
Period size: 1 Copynumber: 58.0 Consensus size: 1
11174997 AGCAAAGAGC
* * * ** *
11175007 AAAAAAAAAAAAAAAAATAAAAGAAATAAACGAGAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11175065 GATAGAAAGA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.90, C:0.02, G:0.05, T:0.03
Consensus pattern (1 bp):
A
Found at i:11177093 original size:28 final size:28
Alignment explanation
Indices: 11177040--11177093 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
11177030 AACATTTGAT
* * *
11177040 AAGTTTAGGTACCAATTTGGACAAAAAA
1 AAGTTTAGGTACCAAATTAGAAAAAAAA
*
11177068 AAGTTTAGGTACTAAATTAGAAAAAA
1 AAGTTTAGGTACCAAATTAGAAAAAA
11177094 TTCCAAGTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.26
Consensus pattern (28 bp):
AAGTTTAGGTACCAAATTAGAAAAAAAA
Done.