Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 90 of 255
Found at i:27579615 original size:46 final size:47
Alignment explanation
Indices: 27579487--27579701 Score: 205
Period size: 46 Copynumber: 4.6 Consensus size: 47
27579477 AGGCCGACGC
* *
27579487 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT-GCCGATG
1 CATGTCCTAGACATGGTCTTACACTAGCT-T-ACATCT-CGTAGCCGATG
* * *
27579536 CCATGTCCCAGACATGGTCTTACACTAAC--ACATCTCGTAGCTGATG
1 -CATGTCCTAGACATGGTCTTACACTAGCTTACATCTCGTAGCCGATG
* *
27579582 CATATCCTAGACAT-GTCTTACACTGGCTTACATCTCG-AGGCCGATG
1 CATGTCCTAGACATGGTCTTACACTAGCTTACATCTCGTA-GCCGATG
* *
27579628 CATGTCCTAGACAT-GTCTTACACTAGCACT-CATCTC-AATG-CGATG
1 CATGTCCTAGACATGGTCTTACACTAGC-TTACATCTCGTA-GCCGATG
*
27579673 CCATGTCCCAGACATGGTCTTACACTAGC
1 -CATGTCCTAGACATGGTCTTACACTAGC
27579702 CCACTATAAC
Statistics
Matches: 144, Mismatches: 13, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
44 11 0.08
45 21 0.15
46 71 0.49
47 14 0.10
50 27 0.19
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (47 bp):
CATGTCCTAGACATGGTCTTACACTAGCTTACATCTCGTAGCCGATG
Found at i:27579663 original size:92 final size:93
Alignment explanation
Indices: 27579389--27579698 Score: 262
Period size: 94 Copynumber: 3.3 Consensus size: 93
27579379 TATAATGCCA
* * * * * *
27579389 ATGCCATGTCCCAGACATGGCCTTACACTGGC-T-CATCCATC-AAGTCAATGCCATGTCTCAGA
1 ATGCCATATCCCAGACATGGTCTTACACTGGCTTACAT-C-TCGAGGCCGATGCCATGTCCCAGA
** * *
27579451 CATGGTCTT-CACTAACTATCAAATCGAGGCCG
64 CATGGTCTTACACTAAC-A-CATCTCAATG-CG
* * * * *
27579483 ACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCG-TGCCGATGCCATGTCCCAG
1 ATGCCATATCCCAGACATGGTCTTACACTGGCT-T-ACATCT-CGAGGCCGATGCCATGTCCCAG
*
27579547 ACATGGTCTTACACTAACACATCTC-GTAGCTG
63 ACATGGTCTTACACTAACACATCTCAAT-GC-G
* *
27579579 ATG-CATATCCTAGACAT-GTCTTACACTGGCTTACATCTCGAGGCCGATG-CATGTCCTAGACA
1 ATGCCATATCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCCGATGCCATGTCCCAGACA
*
27579641 T-GTCTTACACTAGCACTCATCTCAATGCG
66 TGGTCTTACACTA--ACACATCTCAATGCG
*
27579670 ATGCCATGTCCCAGACATGGTCTTACACT
1 ATGCCATATCCCAGACATGGTCTTACACT
27579699 AGCCCACTAT
Statistics
Matches: 178, Mismatches: 23, Indels: 31
0.77 0.10 0.13
Matches are distributed among these distances:
90 11 0.06
91 19 0.11
92 34 0.19
93 12 0.07
94 42 0.24
95 13 0.07
96 10 0.06
97 27 0.15
98 10 0.06
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (93 bp):
ATGCCATATCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCCGATGCCATGTCCCAGACA
TGGTCTTACACTAACACATCTCAATGCG
Found at i:27582106 original size:28 final size:27
Alignment explanation
Indices: 27582038--27582153 Score: 145
Period size: 24 Copynumber: 4.4 Consensus size: 27
27582028 GATATGACAT
*
27582038 TGTGCTAAGTGAAATAAGACCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
27582065 --T-CTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGC-A
*
27582090 TGTGCTAAGTGAAATAAGTCCATGACA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
*
27582117 --T-CTAAGTGAAATAAGTCCACGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
27582141 TTGTGCTAAGTGA
1 -TGTGCTAAGTGA
27582154 GAAATTTCCC
Statistics
Matches: 77, Mismatches: 4, Indels: 15
0.80 0.04 0.16
Matches are distributed among these distances:
24 42 0.55
25 3 0.04
27 3 0.04
28 29 0.38
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGCA
Found at i:27582107 original size:52 final size:52
Alignment explanation
Indices: 27582038--27582153 Score: 196
Period size: 52 Copynumber: 2.2 Consensus size: 52
27582028 GATATGACAT
* *
27582038 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGACCATGACATCTAAGTGAAATAAGTCCACGGCAA
* *
27582090 TGTGCTAAGTGAAATAAGTCCATGACATCTAAGTGAAATAAGTCCACGGCAT
1 TGTGCTAAGTGAAATAAGACCATGACATCTAAGTGAAATAAGTCCACGGCAA
27582142 TGTGCTAAGTGA
1 TGTGCTAAGTGA
27582154 GAAATTTCCC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (52 bp):
TGTGCTAAGTGAAATAAGACCATGACATCTAAGTGAAATAAGTCCACGGCAA
Found at i:27582257 original size:51 final size:51
Alignment explanation
Indices: 27582177--27582324 Score: 244
Period size: 51 Copynumber: 2.9 Consensus size: 51
27582167 TGAACCTTAG
27582177 GAATAAAATAGCTTTGGACACAAGGGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGGGTGGTACTATGTGAAGGCCACTTTGT
* * *
27582228 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAGGGCTACTTTGT
1 GAATAAAATAGCTTTGGACACAAGGGTGGTACTATGTGAAGGCCACTTTGT
*
27582279 GAATCAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGGGTGGTACTATGTGAAGGCCAC
27582325 CGTGTATCTG
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 1 0.01
51 88 0.99
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGGGTGGTACTATGTGAAGGCCACTTTGT
Found at i:27584160 original size:12 final size:11
Alignment explanation
Indices: 27584129--27584162 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
27584119 TCTCTTGGCC
*
27584129 AAAAGAAAAAG
1 AAAAGAGAAAG
27584140 AAAAGAGAAAG
1 AAAAGAGAAAG
27584151 AAATAGAGAAAG
1 AAA-AGAGAAAG
27584163 CTTGGGGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.03
Consensus pattern (11 bp):
AAAAGAGAAAG
Found at i:27587692 original size:32 final size:32
Alignment explanation
Indices: 27587651--27587714 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
27587641 TTTTTGTCAA
27587651 ATAAATAGTACATCCAATCCTTAAATTGTACC
1 ATAAATAGTACATCCAATCCTTAAATTGTACC
*
27587683 ATAAATAGTACATCCAGTCCTTAAATTGTACC
1 ATAAATAGTACATCCAATCCTTAAATTGTACC
27587715 TGATTTTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (32 bp):
ATAAATAGTACATCCAATCCTTAAATTGTACC
Found at i:27592279 original size:31 final size:31
Alignment explanation
Indices: 27592236--27592297 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
27592226 TCATTCTCGA
*
27592236 CATATACTGGGCCGAAGCCTTTTC-ATAAAT
1 CATATACTGGGCCGAAGCCTTTACTATAAAT
27592266 CATATCACTGGGCCGAAGCCTTTACTATAAAT
1 CATAT-ACTGGGCCGAAGCCTTTACTATAAAT
27592298 GGTATGGCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 5 0.17
31 18 0.62
32 6 0.21
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATACTGGGCCGAAGCCTTTACTATAAAT
Found at i:27592537 original size:25 final size:25
Alignment explanation
Indices: 27592509--27592578 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
27592499 CTCTTTTAAT
*
27592509 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
27592534 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
27592559 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
27592579 AACACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:27592812 original size:27 final size:27
Alignment explanation
Indices: 27592782--27592969 Score: 207
Period size: 27 Copynumber: 7.0 Consensus size: 27
27592772 GGGCAAAATG
* * *
27592782 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
27592809 GTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
27592836 GTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
27592862 GATAATTCTACCCTATAGGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCA
* * *
27592890 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* * * *
27592917 GTAATTCTACCTTATAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
27592944 GTAATTCTACCCTACAGGGGTATTTC
1 GTAATTCTACCCTACAAGGGTATTTC
27592970 GATATTTTAC
Statistics
Matches: 139, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 137 0.99
28 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:27592925 original size:81 final size:81
Alignment explanation
Indices: 27592782--27592969 Score: 252
Period size: 81 Copynumber: 2.3 Consensus size: 81
27592772 GGGCAAAATG
* * * * * *
27592782 GTAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTATAGGGGTATTTTAGTATTTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACC
27592847 CTACAAGGGTATTTCGA
66 CTACAAGGGTATTT-GA
* *
27592864 -TAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACC
* * * *
27592928 TTATAGGGGTATTTTA
66 CTACAAGGGTATTTGA
27592944 GTAATTCTACCCTACAGGGGTATTTC
1 GTAATTCTACCCTACAGGGGTATTTC
27592970 GATATTTTAC
Statistics
Matches: 92, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
80 1 0.01
81 91 0.99
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (81 bp):
GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACC
CTACAAGGGTATTTGA
Found at i:27593156 original size:27 final size:27
Alignment explanation
Indices: 27592932--27593139 Score: 199
Period size: 27 Copynumber: 7.7 Consensus size: 27
27592922 TCTACCTTAT
* * **
27592932 AGGGGTATTTTAGTAATTCTACCCTA-C
1 AGGGGTATTTTGGTAATTTTA-CAAACC
* * *
27592959 AGGGGTATTTCGAT-ATTTTACAAATC
1 AGGGGTATTTTGGTAATTTTACAAACC
* * * * **
27592985 -GAGAGTATTTCGATAATTTCACAAATT
1 AG-GGGTATTTTGGTAATTTTACAAACC
*
27593012 AGGGGTATTTTGGTAATTTTACAAGCC
1 AGGGGTATTTTGGTAATTTTACAAACC
27593039 AGGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
*
27593066 AGGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
** *
27593093 AGGGGTATTTTGGTAATTTTACTGATC
1 AGGGGTATTTTGGTAATTTTACAAACC
27593120 -GAGGGTATTTTGGTAATTTT
1 AG-GGGTATTTTGGTAATTTT
27593140 GTAAACCAAG
Statistics
Matches: 154, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
25 3 0.02
26 18 0.12
27 132 0.86
28 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:27593180 original size:81 final size:81
Alignment explanation
Indices: 27592958--27593166 Score: 242
Period size: 81 Copynumber: 2.6 Consensus size: 81
27592948 TTCTACCCTA
* * * * * * **
27592958 CAGGGGTATTTCGAT-ATTTTACAAATCGAGAGTATTTCGATAATTTCACAAATTAGGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTCAATAATTTTACAAACCAGGGGTATTT
27593022 TGGTAATTTTACAAGC
66 TGGTAATTTTACAAGC
* * * *
27593038 CAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTCAATAATTTTACAAACCAGGGGTATTT
* *
27593103 TGGTAATTTTACTGATC
66 TGGTAATTTTAC-AAGC
* **
27593120 GA-GGGTATTTTGGTAATTTTGTAAACCAAGAGTATTTCAATAATTTT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTCAATAATTTT
27593167 GTAAATCGAG
Statistics
Matches: 106, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
80 13 0.12
81 90 0.85
82 3 0.03
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (81 bp):
CAGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTCAATAATTTTACAAACCAGGGGTATTT
TGGTAATTTTACAAGC
Found at i:27593189 original size:54 final size:54
Alignment explanation
Indices: 27593131--27593306 Score: 154
Period size: 54 Copynumber: 3.3 Consensus size: 54
27593121 AGGGTATTTT
* *** *
27593131 GGTAATTTTGTAAACCAAGAGTATTTCAATAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAACCAAGAGTAAGACAATAATTCTGTAAATCGAGGGTAAAAC
* * * * *
27593185 GGTAATTCTGTAAATCGAGGGTAAGACGATAATTCTGTAAATCGAGGGTAAAAT
1 GGTAATTCTGTAAACCAAGAGTAAGACAATAATTCTGTAAATCGAGGGTAAAAC
* *** * * *** *
27593239 GGTAATTCTATAAATTGAGGGTAAAATTGTAATTCTGTAAATCGAGGGTAAAAT
1 GGTAATTCTGTAAACCAAGAGTAAGACAATAATTCTGTAAATCGAGGGTAAAAC
* *
27593293 AGTAATTCTATAAA
1 GGTAATTCTGTAAA
27593307 TCGAGGGTAC
Statistics
Matches: 105, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 105 1.00
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (54 bp):
GGTAATTCTGTAAACCAAGAGTAAGACAATAATTCTGTAAATCGAGGGTAAAAC
Found at i:27593190 original size:27 final size:27
Alignment explanation
Indices: 27593160--27593315 Score: 222
Period size: 27 Copynumber: 5.8 Consensus size: 27
27593150 AGTATTTCAA
* *
27593160 TAATTTTGTAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* * *
27593187 TAATTCTGTAAATCGAGGGTAAGACGA
1 TAATTCTGTAAATCGAGGGTAAAATGG
27593214 TAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* * *
27593241 TAATTCTATAAATTGAGGGTAAAATTG
1 TAATTCTGTAAATCGAGGGTAAAATGG
*
27593268 TAATTCTGTAAATCGAGGGTAAAATAG
1 TAATTCTGTAAATCGAGGGTAAAATGG
*
27593295 TAATTCTATAAATCGAGGGTA
1 TAATTCTGTAAATCGAGGGTA
27593316 CTTTGGTAAT
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAATGG
Found at i:27593218 original size:81 final size:81
Alignment explanation
Indices: 27593133--27593289 Score: 181
Period size: 81 Copynumber: 1.9 Consensus size: 81
27593123 GGTATTTTGG
* ** * *
27593133 TAATTTTGTAAACCAAGAGT-ATTTCAATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 TAATTCTGTAAACCAAGAGTAAAAT-AATAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTA
27593197 AATCGAGGGTAAGACGA
65 AATCGAGGGTAAGACGA
* * * ** * **
27593214 TAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATTGTAATTCTGTAA
1 TAATTCTGTAAACCAAGAGTAAAATAATAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAA
27593279 ATCGAGGGTAA
66 ATCGAGGGTAA
27593290 AATAGTAATT
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
81 60 0.97
82 2 0.03
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (81 bp):
TAATTCTGTAAACCAAGAGTAAAATAATAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAA
ATCGAGGGTAAGACGA
Found at i:27593299 original size:81 final size:81
Alignment explanation
Indices: 27593168--27593342 Score: 235
Period size: 81 Copynumber: 2.2 Consensus size: 81
27593158 AATAATTTTG
* * * *
27593168 TAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAGACGATAATTCTGTAAATCGAGGG
1 TAAATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAAGATAATTCTATAAATCGAGGG
27593233 TAAAATGGTAATTCTA
66 TAAAATGGTAATTCTA
**
27593249 TAAATTGAGGGTAAAATTGTAATTCTGTAAATCGAGGGTAAAATAG-TAATTCTATAAATCGAGG
1 TAAATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA-AGATAATTCTATAAATCGAGG
*** *
27593313 GTACTTTGGTAATTTTA
65 GTAAAATGGTAATTCTA
*
27593330 CAAATTGAGGGTA
1 TAAATTGAGGGTA
27593343 TTTCAATAAT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 81 0.99
82 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (81 bp):
TAAATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAAGATAATTCTATAAATCGAGGG
TAAAATGGTAATTCTA
Found at i:27593324 original size:27 final size:27
Alignment explanation
Indices: 27593168--27593342 Score: 206
Period size: 27 Copynumber: 6.5 Consensus size: 27
27593158 AATAATTTTG
* *
27593168 TAAATCGAGGGTAAAACGGTAATTCTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
* * * *
27593195 TAAATCGAGGGTAAGACGATAATTCTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
27593222 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
* * *
27593249 TAAATTGAGGGTAAAATTGTAATTCTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
*
27593276 TAAATCGAGGGTAAAATAGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
*** *
27593303 TAAATCGAGGGTACTTTGGTAATTTTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
* *
27593330 CAAATTGAGGGTA
1 TAAATCGAGGGTA
27593343 TTTCAATAAT
Statistics
Matches: 129, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (27 bp):
TAAATCGAGGGTAAAATGGTAATTCTA
Found at i:27599643 original size:42 final size:42
Alignment explanation
Indices: 27599529--27599661 Score: 133
Period size: 42 Copynumber: 3.1 Consensus size: 42
27599519 TAGATGCTCA
* * *
27599529 TAAATAAATACAATGCCGACGTCCCAGACTTGGTCTTACATG
1 TAAATCAATACAATGCCGATGTCCCAGACATGGTCTTACATG
* * * ** *
27599571 TGATTCAATATCTATGCCTCTGTCCCAGACAAGGTCTTACATG
1 TAAATCAATA-CAATGCCGATGTCCCAGACATGGTCTTACATG
* * *
27599614 -AAATCAGATACGATGCCGATGTCCCAGACATGGTCTTATACG
1 TAAATCA-ATACAATGCCGATGTCCCAGACATGGTCTTACATG
27599656 TAAATC
1 TAAATC
27599662 TCAATCGAGG
Statistics
Matches: 71, Mismatches: 17, Indels: 5
0.76 0.18 0.05
Matches are distributed among these distances:
42 37 0.52
43 34 0.48
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (42 bp):
TAAATCAATACAATGCCGATGTCCCAGACATGGTCTTACATG
Found at i:27602696 original size:30 final size:30
Alignment explanation
Indices: 27602662--27602758 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
27602652 AGCTCACTCC
*
27602662 TAGCTCATA-TTTAGCTCATGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
27602692 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
27602722 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
27602752 TAGCTCA
1 TAGCTCA
27602759 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:27605350 original size:5 final size:5
Alignment explanation
Indices: 27605340--27605401 Score: 56
Period size: 5 Copynumber: 12.0 Consensus size: 5
27605330 AAGAGAAAAC
* *
27605340 AAAGA AAAGA AAAGA AAAGA AAA-A GCAAGA GAAGAA AAAGA AAATGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA -AAAGA AAAG-A AAAGA AAA-GA
27605387 AATA-A AAAGA AAAGA
1 AA-AGA AAAGA AAAGA
27605402 GAGGCAAGAG
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
4 2 0.04
5 36 0.75
6 9 0.19
7 1 0.02
ACGTcount: A:0.76, C:0.02, G:0.19, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:27605380 original size:36 final size:37
Alignment explanation
Indices: 27605330--27605399 Score: 101
Period size: 36 Copynumber: 1.9 Consensus size: 37
27605320 CATTCTTGTA
27605330 AAGAGAAAACAAAGAAAA-GAAA-AGAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATGAAATA-AAAAGAAAAAGC
27605366 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAATAAAAAGAAAA
27605400 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
36 15 0.48
37 15 0.48
38 1 0.03
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAATAAAAAGAAAAAGC
Found at i:27605481 original size:11 final size:12
Alignment explanation
Indices: 27605449--27605479 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
27605439 TTGAGAGAAC
27605449 TTGAAAAAGCCT
1 TTGAAAAAGCCT
27605461 TTGAAAAAGCCT
1 TTGAAAAAGCCT
27605473 TTGAAAA
1 TTGAAAA
27605480 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:27607693 original size:30 final size:30
Alignment explanation
Indices: 27607659--27607755 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
27607649 AGCTCACTCC
*
27607659 TAGCTCATA-TTTAGCTCATGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
27607689 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
27607719 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
27607749 TAGCTCA
1 TAGCTCA
27607756 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:27613614 original size:43 final size:43
Alignment explanation
Indices: 27613553--27613700 Score: 151
Period size: 43 Copynumber: 3.5 Consensus size: 43
27613543 CAATGCTGAC
*
27613553 GTCCCAGACATGGTCTTACATGTAATTCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACATGTAATTCAATATCGATGCCTAT
* * * *
27613596 GTCCCAGACAGGGTCTTACACG-AAATCAGATAT-GATGCCGAT
1 GTCCCAGACATGGTCTTACATGTAATTCA-ATATCGATGCCTAT
* * * *
27613638 GTCCCAGACATGATCTTATATGTAAATCTC-A-ATCGAGGCCTGT
1 GTCCCAGACATGGTCTTACATGT-AAT-TCAATATCGATGCCTAT
*
27613681 GTCCCAGACACGGTCTTACA
1 GTCCCAGACATGGTCTTACA
27613701 CGATGTCTCA
Statistics
Matches: 84, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
42 32 0.38
43 48 0.57
44 2 0.02
45 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGTAATTCAATATCGATGCCTAT
Found at i:27620739 original size:40 final size:39
Alignment explanation
Indices: 27620644--27620741 Score: 108
Period size: 40 Copynumber: 2.5 Consensus size: 39
27620634 CACACCAGCT
* *
27620644 CCATCCAACCCAACACACC-ATGTGGGGATAAAATCGAC
1 CCATCCAACCCTACACACCAATATGGGGATAAAATCGAC
* * ** *
27620682 CCACCCATCTTTGCACACCAAATATGGGGATAAAATCGAC
1 CCATCCAACCCTACACACC-AATATGGGGATAAAATCGAC
*
27620722 CTATCCAACCCTACACACCA
1 CCATCCAACCCTACACACCA
27620742 TAAAGTACTG
Statistics
Matches: 45, Mismatches: 13, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
38 13 0.29
39 1 0.02
40 31 0.69
ACGTcount: A:0.36, C:0.36, G:0.12, T:0.16
Consensus pattern (39 bp):
CCATCCAACCCTACACACCAATATGGGGATAAAATCGAC
Found at i:27621730 original size:13 final size:13
Alignment explanation
Indices: 27621712--27621737 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27621702 GGAAGGAAAG
27621712 AAAGAAAATAAAT
1 AAAGAAAATAAAT
27621725 AAAGAAAATAAAT
1 AAAGAAAATAAAT
27621738 GTGGAGAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
AAAGAAAATAAAT
Found at i:27630609 original size:38 final size:38
Alignment explanation
Indices: 27630559--27630652 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 38
27630549 AACTCCGTCT
* * *
27630559 AACCCAACACACCATGTGGGGAAAAAATCAACCCACCC
1 AACCCTACACACCATATGAGGAAAAAATCAACCCACCC
* * * *
27630597 ATCCCTGCACACCAAATATGAGGATAAAATCAACCCATCC
1 AACCCTACACACC--ATATGAGGAAAAAATCAACCCACCC
27630637 AACCCTACACACCATA
1 AACCCTACACACCATA
27630653 AAGAATTGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
38 13 0.29
40 32 0.71
ACGTcount: A:0.41, C:0.36, G:0.10, T:0.13
Consensus pattern (38 bp):
AACCCTACACACCATATGAGGAAAAAATCAACCCACCC
Found at i:27638634 original size:146 final size:147
Alignment explanation
Indices: 27638426--27638705 Score: 445
Period size: 146 Copynumber: 1.9 Consensus size: 147
27638416 AAATCTGGGG
*
27638426 AACAGTGGTACGGACCTTGACGCACAAGTAAAATTCCAAATAGGATTACTGGAAAAACTATTGTT
1 AACAGTGGTACGGACCTTGACACACAAGTAAAATTCCAAATAGGATTACTGGAAAAACTATTGTT
* *
27638491 CCTTATCGAAAATTCCAATAAGCTAACTGTTAACTTCAATGAAAACCCCACTGCTCCTAAACATA
66 CCCTATCGAAAATTCCAATAAGCTAAATGTTAACTTCAATGAAAACCCCACTGCTCCTAAACATA
27638556 TTCGCCCCTAATAAGTT
131 TTCGCCCCTAATAAGTT
* * * * *
27638573 AACAGTGGTA-GGACGTTGTCACACAAGTAAAATTTCGAATAGGATTATTGGAAAAACTATTGTT
1 AACAGTGGTACGGACCTTGACACACAAGTAAAATTCCAAATAGGATTACTGGAAAAACTATTGTT
* * * *
27638637 CCCTATTGAAAATTCCAATAAGTTAAATGTTAACTTTAATGAAAACCTCACTGCTCCTAAACATA
66 CCCTATCGAAAATTCCAATAAGCTAAATGTTAACTTCAATGAAAACCCCACTGCTCCTAAACATA
27638702 TTCG
131 TTCG
27638706 TTAACCCCTA
Statistics
Matches: 121, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
146 111 0.92
147 10 0.08
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (147 bp):
AACAGTGGTACGGACCTTGACACACAAGTAAAATTCCAAATAGGATTACTGGAAAAACTATTGTT
CCCTATCGAAAATTCCAATAAGCTAAATGTTAACTTCAATGAAAACCCCACTGCTCCTAAACATA
TTCGCCCCTAATAAGTT
Found at i:27643325 original size:50 final size:47
Alignment explanation
Indices: 27643250--27643522 Score: 233
Period size: 46 Copynumber: 5.9 Consensus size: 47
27643240 AGGTGTAATA
27643250 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCCCACATCTCCGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCT--CACATCT-CGTG
*
27643300 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCGT-G
** * * *
27643346 TAGATG-CATATCCCAGACAT-GTCTTACACTAGCTTACATCTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCG-TG
* * * * * *
27643392 CTGATG-TATGTCTCAGACAT-GTCTTACACTAGCTCTCGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTC-GTG
* * * *
27643438 CTGATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCATAAT-GTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-CTCGT-G
* * *
27643485 CCGATG-CATGTCCCAAACAT-GTCTTATACTAGCGCACA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACA
27643523 AATGACCCAA
Statistics
Matches: 184, Mismatches: 29, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
44 10 0.05
45 17 0.09
46 89 0.48
47 34 0.18
48 1 0.01
49 1 0.01
50 32 0.17
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCGTG
Found at i:27643877 original size:30 final size:30
Alignment explanation
Indices: 27643841--27643903 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
27643831 CTCAATAATT
* *
27643841 TAAAATTGGGCAAAATGACCATTTTGCCCC
1 TAAAATTGGACAAAATGACCATTTTACCCC
** *
27643871 TAAAATTTTACAAAATTACCATTTTACCCC
1 TAAAATTGGACAAAATGACCATTTTACCCC
27643901 TAA
1 TAA
27643904 GTCTGAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (30 bp):
TAAAATTGGACAAAATGACCATTTTACCCC
Found at i:27647155 original size:55 final size:55
Alignment explanation
Indices: 27647041--27647193 Score: 236
Period size: 55 Copynumber: 2.7 Consensus size: 55
27647031 TCCCAGATAG
27647041 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACATATAAAATAT
1 GGTCTTACTCGCACACATATATCG-AGTCACATATCGATGCCAACATATAAAATAT
* * * *
27647097 GGTCTTACTCGTACACATATATCGAGTCACATATCGATGCTAACGTAT-AAATCGT
1 GGTCTTACTCGCACACATATATCGAGTCACATATCGATGCCAACATATAAAAT-AT
27647152 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCC
1 GGTCTTACTCGCACACATATATC-GAGTCACATATCGATGCC
27647194 TCATATACAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
54 4 0.04
55 45 0.51
56 40 0.45
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (55 bp):
GGTCTTACTCGCACACATATATCGAGTCACATATCGATGCCAACATATAAAATAT
Found at i:27649652 original size:9 final size:9
Alignment explanation
Indices: 27649635--27649673 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
27649625 TTTAGTTCCT
*
27649635 AATTTACAA
1 AATTCACAA
27649644 AATTCACAA
1 AATTCACAA
27649653 AA-TCACAA
1 AATTCACAA
*
27649661 AATACACAA
1 AATTCACAA
27649670 AATT
1 AATT
27649674 TGCTTATACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
8 8 0.31
9 18 0.69
ACGTcount: A:0.59, C:0.18, G:0.00, T:0.23
Consensus pattern (9 bp):
AATTCACAA
Found at i:27649662 original size:17 final size:17
Alignment explanation
Indices: 27649640--27649672 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27649630 TTCCTAATTT
*
27649640 ACAAAATTCACAAAATC
1 ACAAAATACACAAAATC
27649657 ACAAAATACACAAAAT
1 ACAAAATACACAAAAT
27649673 TTGCTTATAC
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:0.64, C:0.21, G:0.00, T:0.15
Consensus pattern (17 bp):
ACAAAATACACAAAATC
Found at i:27659906 original size:22 final size:22
Alignment explanation
Indices: 27659881--27659924 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
27659871 ACGCGAAGTC
27659881 AGTTTTCTGGGCCATGTTGTAT
1 AGTTTTCTGGGCCATGTTGTAT
27659903 AGTTTTCTGGGCCATGTTGTAT
1 AGTTTTCTGGGCCATGTTGTAT
27659925 CAGTATCGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.27, T:0.45
Consensus pattern (22 bp):
AGTTTTCTGGGCCATGTTGTAT
Found at i:27664760 original size:21 final size:22
Alignment explanation
Indices: 27664714--27664763 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
27664704 TGTAGGGCTC
**
27664714 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGACCCAAGGG
*
27664736 ACACGCCCGTGTGACCCTA-GG
1 ACACGCCCGTGTGACCCAAGGG
27664757 ACACGCC
1 ACACGCC
27664764 TGTGCTAGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.20, C:0.38, G:0.30, T:0.12
Consensus pattern (22 bp):
ACACGCCCGTGTGACCCAAGGG
Found at i:27667133 original size:21 final size:21
Alignment explanation
Indices: 27667092--27667130 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
27667082 TAAGTATAAT
* *
27667092 TTATTTATTTATAATAATTAA
1 TTATTTATTTACAAGAATTAA
27667113 TTATTT-TTTACAAGAATT
1 TTATTTATTTACAAGAATT
27667131 TAACCGAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (21 bp):
TTATTTATTTACAAGAATTAA
Found at i:27670238 original size:23 final size:22
Alignment explanation
Indices: 27670212--27670264 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
27670202 TGACAATTGC
*
27670212 AATAAAA-ATATTGGTACATTTGT
1 AATAAAAGATA-T-GTACACTTGT
27670235 AATAAATAGATATGTACACTTGT
1 AATAAA-AGATATGTACACTTGT
27670258 AATAAAA
1 AATAAAA
27670265 TAACTAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 1 0.04
23 21 0.78
24 2 0.07
25 3 0.11
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (22 bp):
AATAAAAGATATGTACACTTGT
Found at i:27671447 original size:21 final size:21
Alignment explanation
Indices: 27671423--27671470 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
27671413 GTCGTATTTT
27671423 AGGCACCTCGTGTGTCGTGTC
1 AGGCACCTCGTGTGTCGTGTC
*
27671444 AGGCACCTCGTGTGTCGTTTC
1 AGGCACCTCGTGTGTCGTGTC
*
27671465 AAGCAC
1 AGGCAC
27671471 TTTATGTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.29, G:0.29, T:0.27
Consensus pattern (21 bp):
AGGCACCTCGTGTGTCGTGTC
Found at i:27673967 original size:46 final size:46
Alignment explanation
Indices: 27673792--27673967 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
27673782 TGTAACCCGC
* * * *
27673792 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTAGCAT
* * * *
27673838 CCATAAGTGAACTCGGGCTCAACTCAACGAGCTCGGATACCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACA-TTAGCAT
* *** * * *
27673884 ACATCTCTCGAACTTGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTAGCAT
*
27673931 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
27673968 TGCCCAAATA
Statistics
Matches: 103, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 69 0.67
47 34 0.33
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTAGCAT
Found at i:27677490 original size:21 final size:18
Alignment explanation
Indices: 27677447--27677491 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
27677437 ACTAAAGTAT
27677447 ATACATAATATATATGAA
1 ATACATAATATATATGAA
27677465 A-ACATAATATAGTATTAGAA
1 ATACATAATATA-TA-T-GAA
27677485 ATACATA
1 ATACATA
27677492 TTAGAAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.43
18 3 0.13
19 1 0.04
20 4 0.17
21 5 0.22
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (18 bp):
ATACATAATATATATGAA
Found at i:27677573 original size:13 final size:14
Alignment explanation
Indices: 27677536--27677576 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
27677526 ATATATATAC
27677536 ATAAATAATAAT-A
1 ATAAATAATAATGA
27677549 AT-AATAAGTAATGA
1 ATAAATAA-TAATGA
27677563 ATAAAT-ATAATGA
1 ATAAATAATAATGA
27677576 A
1 A
27677577 AATAGTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 5 0.20
13 13 0.52
14 4 0.16
15 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
ATAAATAATAATGA
Found at i:27677746 original size:3 final size:3
Alignment explanation
Indices: 27677728--27677761 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
27677718 CTATACGTAT
27677728 ATA ATA A-A ATA TATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA A
27677762 GGATAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:27677758 original size:24 final size:24
Alignment explanation
Indices: 27677728--27677992 Score: 64
Period size: 24 Copynumber: 11.0 Consensus size: 24
27677718 CTATACGTAT
27677728 ATAATAAAATATATAATAATAATA
1 ATAATAAAATATATAATAATAATA
*
27677752 ATAATAATAAGGATA-ATATAAGT-ATA
1 ATAATAA-AA-TATATA-ATAA-TAATA
** *
27677778 TATACACGAAATAGTATAA-AAAATATA
1 -ATA-ATAAAATA-TATAATAATA-ATA
27677805 TATAACTAATAATAT-TAA-AATATATA
1 -ATAA-TAA-AATATATAATAATA-ATA
* * *
27677831 CATGATAATATATA-AAAAATAAT-
1 -ATAATAAAATATATAATAATAATA
* * *
27677854 ATTAGAAAATATAT-GTACATAAT-
1 ATAATAAAATATATAATA-ATAATA
27677877 ATATATAAAAATATATACATAAT-ATA
1 ATA-AT-AAAATATATA-ATAATAATA
* * *
27677903 GTATTAAAATATA-GA-AAT-ATA
1 ATAATAAAATATATAATAATAATA
*
27677924 ATATTAAAA-ATAT-AT-ATAAT-
1 ATAATAAAATATATAATAATAATA
*
27677944 ATATATAAAATATATACACAAT-ATA
1 ATA-ATAAAATATATA-ATAATAATA
* *
27677969 GTATTAAAATATAT-ATACATAATA
1 ATAATAAAATATATAATA-ATAATA
27677993 TATACTTATT
Statistics
Matches: 181, Mismatches: 28, Indels: 64
0.66 0.10 0.23
Matches are distributed among these distances:
20 9 0.05
21 21 0.12
22 18 0.10
23 9 0.05
24 40 0.22
25 26 0.14
26 31 0.17
27 20 0.11
28 7 0.04
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (24 bp):
ATAATAAAATATATAATAATAATA
Found at i:27677804 original size:25 final size:24
Alignment explanation
Indices: 27677775--27677851 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 24
27677765 TAATATAAGT
27677775 ATATATACACGAAATAGTATAAAAA
1 ATATATACACGAAATA-TATAAAAA
* * *
27677800 ATATATATAAC-TAATA-ATATTAAA
1 ATATATA-CACGAAATATATA-AAAA
*
27677824 ATATATACATGATAATATATAAAAA
1 ATATATACACGA-AATATATAAAAA
27677849 ATA
1 ATA
27677852 ATATTAGAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
23 4 0.10
24 10 0.25
25 21 0.52
26 5 0.12
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (24 bp):
ATATATACACGAAATATATAAAAA
Found at i:27677830 original size:22 final size:23
Alignment explanation
Indices: 27677787--27677996 Score: 130
Period size: 24 Copynumber: 9.5 Consensus size: 23
27677777 ATATACACGA
* * *
27677787 AATAGTATAAAAAATATATATAACT
1 AATAATATATAAAATATATA-CA-T
27677812 AATAATAT-TAAAATATATACAT
1 AATAATATATAAAATATATACAT
*
27677834 GATAATATATAAAA-A-ATA-AT
1 AATAATATATAAAATATATACAT
* *
27677854 -AT--TAGA-AAATATATGTACAT
1 AATAATATATAAA-ATATATACAT
27677874 AAT-ATATATAAAAATATATACAT
1 AATAATATAT-AAAATATATACAT
* *
27677897 AAT-ATAGTATTAAAATATAGAAAT
1 AATAATA-TA-TAAAATATATACAT
*
27677921 -ATAATAT-TAAAA-ATATATAT
1 AATAATATATAAAATATATACAT
*
27677941 AAT-ATATATAAAATATATACAC
1 AATAATATATAAAATATATACAT
27677963 AAT-ATAGTATTAAAATATAT--AT
1 AATAATA-TA-TAAAATATATACAT
27677985 ACATAATATATA
1 A-ATAATATATA
27677997 CTTATTAGAG
Statistics
Matches: 151, Mismatches: 15, Indels: 41
0.73 0.07 0.20
Matches are distributed among these distances:
16 3 0.02
17 4 0.03
18 1 0.01
19 4 0.03
20 14 0.09
21 17 0.11
22 28 0.19
23 30 0.20
24 42 0.28
25 8 0.05
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (23 bp):
AATAATATATAAAATATATACAT
Found at i:27677842 original size:36 final size:37
Alignment explanation
Indices: 27677799--27677953 Score: 134
Period size: 36 Copynumber: 4.4 Consensus size: 37
27677789 TAGTATAAAA
**
27677799 AATATATATAACTAATAATATT-AAAATATA-TACAT
1 AATATATATAAAAAATAATATTAAAAATATAGTACAT
*
27677834 GATAATATATAAAAAATAATATTAGAAAATATATGTACAT
1 AAT-ATATATAAAAAATAATATTA-AAAATATA-GTACAT
* *
27677874 AATATATAT-AAAAAT-ATA-TACATAATATAGTA-TT
1 AATATATATAAAAAATAATATTA-AAAATATAGTACAT
*
27677908 AA-A-ATATAGAAATATAATATTAAAAATATA-T--AT
1 AATATATATA-AAAAATAATATTAAAAATATAGTACAT
27677941 AATATATATAAAA
1 AATATATATAAAA
27677954 TATATACACA
Statistics
Matches: 99, Mismatches: 10, Indels: 23
0.75 0.08 0.17
Matches are distributed among these distances:
32 4 0.04
33 4 0.04
34 13 0.13
35 20 0.20
36 28 0.28
37 3 0.03
38 14 0.14
39 6 0.06
40 7 0.07
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (37 bp):
AATATATATAAAAAATAATATTAAAAATATAGTACAT
Found at i:27677915 original size:13 final size:11
Alignment explanation
Indices: 27677786--27677996 Score: 117
Period size: 11 Copynumber: 17.8 Consensus size: 11
27677776 TATATACACG
*
27677786 AAATAGTATAAA
1 AAATA-TATATA
27677798 AAATATATATA
1 AAATATATATA
27677809 ACTAATA-ATATTA
1 A--AATATATA-TA
27677822 AAATATATACATGA
1 AAATATAT--AT-A
* *
27677836 TAATATATAAA
1 AAATATATATA
*
27677847 AAATAATATTAGA
1 AAAT-ATA-TATA
*
27677860 AAATATATGTA
1 AAATATATATA
27677871 CATAATATATATA
1 -A-AATATATATA
27677884 AAA-ATATATA
1 AAATATATATA
*
27677894 CATAATATAGTATT
1 -A-AATATA-TATA
*
27677908 AAA-ATATA-G
1 AAATATATATA
27677917 AAATATAATATTA
1 AAATAT-ATA-TA
27677930 AAA-ATATATA
1 AAATATATATA
*
27677940 TAATATATATA
1 AAATATATATA
*
27677951 AAATATATACA
1 AAATATATATA
*
27677962 CAATATAGTATTA
1 AAATATA-TA-TA
27677975 AAATATATATA
1 AAATATATATA
27677986 CATAATATATA
1 -A-AATATATA
27677997 CTTATTAGAG
Statistics
Matches: 158, Mismatches: 17, Indels: 47
0.71 0.08 0.21
Matches are distributed among these distances:
9 3 0.02
10 15 0.09
11 52 0.33
12 30 0.19
13 46 0.29
14 12 0.08
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (11 bp):
AAATATATATA
Found at i:27677943 original size:44 final size:45
Alignment explanation
Indices: 27677775--27677996 Score: 157
Period size: 44 Copynumber: 5.0 Consensus size: 45
27677765 TAATATAAGT
* *
27677775 ATATATACACGAA-ATAGTATAAAAAATATATATAACTAATAATATTAAA
1 ATATATACAC-AATATAATATTAAAAATATATATAA-T-AT-ATA-TAAA
*
27677824 ATATAT--AC-ATGATAATATATAAAAA-ATA-AT-AT-TAGA-AAA
1 ATATATACACAAT-ATAATAT-TAAAAATATATATAATATATATAAA
* * *
27677863 TATATGTACATAATAT-ATA-TAAAAATATATACATAATATAGTATTAA
1 -ATATATACACAATATAATATTAAAAATATAT--ATAATATA-TATAAA
*
27677910 A-ATATAGA-AATATAATATTAAAAATATATATAATATATATAAA
1 ATATATACACAATATAATATTAAAAATATATATAATATATATAAA
*
27677953 ATATATACACAATATAGTATT-AAAATATATATACATAATATATA
1 ATATATACACAATATAATATTAAAAATATATATA-AT-ATATATA
27677997 CTTATTAGAG
Statistics
Matches: 140, Mismatches: 12, Indels: 45
0.71 0.06 0.23
Matches are distributed among these distances:
39 9 0.06
40 8 0.06
41 5 0.04
42 4 0.03
43 10 0.07
44 34 0.24
45 24 0.17
46 22 0.16
47 13 0.09
48 5 0.04
49 6 0.04
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (45 bp):
ATATATACACAATATAATATTAAAAATATATATAATATATATAAA
Found at i:27677970 original size:66 final size:69
Alignment explanation
Indices: 27677840--27677981 Score: 211
Period size: 66 Copynumber: 2.1 Consensus size: 69
27677830 ACATGATAAT
*
27677840 ATATAAAAAATAATATTAGAAAATATATGTACATAATATATATAAAAATATATACATAATATAGT
1 ATATAAAAAATAATATTAGAAAATATA-GTA-ATAATATATATAAAAATATATACACAATATAGT
27677905 ATTAAA
64 ATTAAA
*
27677911 ATATAGAAATATAATATTA-AAAATATA-T-ATAATATATAT-AAAATATATACACAATATAGTA
1 ATATA-AAAAATAATATTAGAAAATATAGTAATAATATATATAAAAATATATACACAATATAGTA
27677972 TTAAA
65 TTAAA
27677977 ATATA
1 ATATA
27677982 TATACATAAT
Statistics
Matches: 68, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
66 31 0.46
67 11 0.16
69 1 0.01
71 13 0.19
72 12 0.18
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.35
Consensus pattern (69 bp):
ATATAAAAAATAATATTAGAAAATATAGTAATAATATATATAAAAATATATACACAATATAGTAT
TAAA
Found at i:27678933 original size:15 final size:15
Alignment explanation
Indices: 27678913--27678966 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
27678903 TGTTTTGACG
27678913 TTGTTCTTGTATATT
1 TTGTTCTTGTATATT
* * *
27678928 TTGTTCCTTCTTTTGATG
1 TTGTT-CTT-GTAT-ATT
27678946 TTGTTCTTGTATATT
1 TTGTTCTTGTATATT
27678961 TTGTTC
1 TTGTTC
27678967 CTTCAGATCA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
15 13 0.43
16 5 0.17
17 5 0.17
18 7 0.23
ACGTcount: A:0.09, C:0.11, G:0.15, T:0.65
Consensus pattern (15 bp):
TTGTTCTTGTATATT
Found at i:27678942 original size:33 final size:33
Alignment explanation
Indices: 27678905--27678970 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
27678895 GGGGTATCTG
27678905 TTTTGACGTTGTTCTTGTATATTTTGTTCCTTC
1 TTTTGACGTTGTTCTTGTATATTTTGTTCCTTC
*
27678938 TTTTGATGTTGTTCTTGTATATTTTGTTCCTTC
1 TTTTGACGTTGTTCTTGTATATTTTGTTCCTTC
27678971 AGATCATTGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.09, C:0.14, G:0.15, T:0.62
Consensus pattern (33 bp):
TTTTGACGTTGTTCTTGTATATTTTGTTCCTTC
Found at i:27691767 original size:6 final size:7
Alignment explanation
Indices: 27691745--27691769 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27691735 TACAAACCAG
27691745 AAATCAA
1 AAATCAA
27691752 AAATCAA
1 AAATCAA
27691759 AAATCAA
1 AAATCAA
27691766 AAAT
1 AAAT
27691770 ACAAGTAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.16
Consensus pattern (7 bp):
AAATCAA
Found at i:27692356 original size:27 final size:27
Alignment explanation
Indices: 27692326--27692398 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 27
27692316 ATATAATTGG
* *
27692326 CACACAGCCATGGGTAAATATGATCGA
1 CACACAGCCATCGGTAAATATGATAGA
* * *
27692353 CACAGAGCC-TCGATAAATATGATAGG
1 CACACAGCCATCGGTAAATATGATAGA
* *
27692379 CACATAGCCATTGGTAAATA
1 CACACAGCCATCGGTAAATA
27692399 CAATTTGCAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
26 21 0.57
27 16 0.43
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (27 bp):
CACACAGCCATCGGTAAATATGATAGA
Found at i:27701350 original size:38 final size:38
Alignment explanation
Indices: 27701308--27701440 Score: 171
Period size: 38 Copynumber: 3.5 Consensus size: 38
27701298 GCAGGCTATA
27701308 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCG
* * *
27701346 TGCTGGTAATATATTCGGGTTAAATACTGCAGGCTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
* * *
27701384 TGCTGGTAATATATCCGGGTTAAATCCCGTAGGCCTAG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
*
27701422 TGCTGG-AATTATATTCGGG
1 TGCTGGTAA-TATATCCGGG
27701441 CCTTCGTGCC
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
37 2 0.02
38 79 0.95
39 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.32
Consensus pattern (38 bp):
TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:27701531 original size:43 final size:43
Alignment explanation
Indices: 27701433--27701536 Score: 163
Period size: 43 Copynumber: 2.4 Consensus size: 43
27701423 GCTGGAATTA
*
27701433 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTG
*** *
27701476 TATTCAATCCTTCGTGCCTAGTAGGCTTCGTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTG
27701519 TATTCGGGCCTTCGTGCC
1 TATTCGGGCCTTCGTGCC
27701537 AATGATGTGT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.12, C:0.26, G:0.30, T:0.33
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTG
Found at i:27701561 original size:26 final size:27
Alignment explanation
Indices: 27701501--27701562 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
27701491 GCCTAGTAGG
*
27701501 CTTCGTGCCGATGATGTGTATTCGGGC
1 CTTCGTGCCAATGATGTGTATTCGGGC
27701528 CTTCGTGCCAATGATGTGTATTC-GGC
1 CTTCGTGCCAATGATGTGTATTCGGGC
27701554 CTTCGTGCC
1 CTTCGTGCC
27701563 TAGCAAGCGT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 12 0.35
27 22 0.65
ACGTcount: A:0.11, C:0.26, G:0.29, T:0.34
Consensus pattern (27 bp):
CTTCGTGCCAATGATGTGTATTCGGGC
Found at i:27704571 original size:39 final size:40
Alignment explanation
Indices: 27704367--27704589 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
27704357 TTGAATGCTG
* * * * * *
27704367 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
27704407 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
27704447 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
27704487 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
27704527 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
27704566 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
27704590 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:27704609 original size:79 final size:80
Alignment explanation
Indices: 27704442--27704624 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
27704432 GTGCGAGATA
* * *
27704442 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
27704507 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
27704522 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
27704586 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
27704601 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
27704625 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:27719087 original size:66 final size:67
Alignment explanation
Indices: 27718984--27719110 Score: 204
Period size: 66 Copynumber: 1.9 Consensus size: 67
27718974 AAATTTTTTC
* *
27718984 TCTCATTTTCTCTCTTGCCAAACACCACTTTTTTTCTTCAAAATACATGGTTTGC-CATTTTCTT
1 TCTCATTTTCTCTCTTGCCAAACACCACTTTTTTTCTTCAAAACACATGGTTCGCTCATTTTCTT
27719048 TA
66 TA
*
27719050 TCTCATTTTCTCTCTTGCCAAACACCA-TTTTTCTTCTTCAAAACATATGGTTCGCTCATTT
1 TCTCATTTTCTCTCTTGCCAAACACCACTTTTT-TTCTTCAAAACACATGGTTCGCTCATTT
27719111 CATCTACAAG
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
65 5 0.09
66 46 0.82
67 5 0.09
ACGTcount: A:0.21, C:0.27, G:0.06, T:0.46
Consensus pattern (67 bp):
TCTCATTTTCTCTCTTGCCAAACACCACTTTTTTTCTTCAAAACACATGGTTCGCTCATTTTCTT
TA
Found at i:27720220 original size:22 final size:21
Alignment explanation
Indices: 27720182--27720224 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
27720172 GGCAGACCAT
*
27720182 GTGTTTTGAAGAAAAAAAATG
1 GTGTTTGGAAGAAAAAAAATG
*
27720203 GTGTTTGGCAAGAGAAAAAATG
1 GTGTTTGG-AAGAAAAAAAATG
27720225 AGAGAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.44, C:0.02, G:0.28, T:0.26
Consensus pattern (21 bp):
GTGTTTGGAAGAAAAAAAATG
Found at i:27724476 original size:27 final size:28
Alignment explanation
Indices: 27724414--27724476 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 28
27724404 AATAAATTTA
*
27724414 TATATTTTAATTTCTTAAAATTATAAAAT
1 TATA-TTTAAATTCTTAAAATTATAAAAT
27724443 T-TAATTTAAATT-TTAAAA-TATTAAAAT
1 TAT-ATTTAAATTCTTAAAATTA-TAAAAT
27724470 TATATTT
1 TATATTT
27724477 TTTATCATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
26 2 0.07
27 17 0.57
28 9 0.30
29 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
TATATTTAAATTCTTAAAATTATAAAAT
Found at i:27725880 original size:17 final size:19
Alignment explanation
Indices: 27725858--27725893 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
27725848 AAATGTCTCT
27725858 AAACAAA-ATTA-ACAATA
1 AAACAAATATTATACAATA
27725875 AAACAAATATTATACAATA
1 AAACAAATATTATACAATA
27725894 TCCAAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 4 0.24
19 6 0.35
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (19 bp):
AAACAAATATTATACAATA
Found at i:27729898 original size:16 final size:16
Alignment explanation
Indices: 27729855--27729901 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
27729845 TATATATATA
*
27729855 TTTATATGTATTTTTA-
1 TTTATAT-TATTATTAT
*
27729871 TTTACA-TATTATTAT
1 TTTATATTATTATTAT
27729886 TTTATATTATTATTAT
1 TTTATATTATTATTAT
27729902 CAAATATATC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 7 0.27
15 5 0.19
16 14 0.54
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (16 bp):
TTTATATTATTATTAT
Found at i:27740089 original size:73 final size:73
Alignment explanation
Indices: 27739969--27740135 Score: 235
Period size: 73 Copynumber: 2.3 Consensus size: 73
27739959 ATTTCCGTTT
* *
27739969 TTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTCAATTTATGCTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACG
* *
27740034 CTGAGGTAA
65 CCGAGGCAA
* *
27740043 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACGC
1 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGC
*
27740108 CGAGGCAT
66 CGAGGCAA
* * *
27740116 TTTTAATTTCTGTTTTTCAA
1 TTTCAATTTATGCTTTTCAA
27740136 TTTCTACTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
73 65 0.78
74 18 0.22
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (73 bp):
TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGC
CGAGGCAA
Found at i:27740159 original size:13 final size:13
Alignment explanation
Indices: 27740114--27740159 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
27740104 ACGCCGAGGC
27740114 ATTTTTAATTTCT
1 ATTTTTAATTTCT
*
27740127 GTTTTTCAATTTCT
1 ATTTTT-AATTTCT
*
27740141 ACTTTTAATTTCT
1 ATTTTTAATTTCT
27740154 ATTTTT
1 ATTTTT
27740160 CAAAAATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.20, C:0.11, G:0.02, T:0.67
Consensus pattern (13 bp):
ATTTTTAATTTCT
Found at i:27740413 original size:77 final size:75
Alignment explanation
Indices: 27740243--27740545 Score: 350
Period size: 77 Copynumber: 4.0 Consensus size: 75
27740233 TTAATTTATG
* * * * *
27740243 TTTCAAAAAAATCAACTCATATTGCGAGAAGCGAGTTGAGCCTCA--AGATGCTGAGGTAATTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
27740306 -AATT-TTTGT
66 AAATTCTTT-T
*
27740315 TTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTT
1 TT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
27740378 CAAATTCTATTT
65 CAAATTCT-TTT
*
27740390 TTATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTT
1 TT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
* **
27740455 CAATTTCTGCT
65 CAAATTCTTTT
* * * **
27740466 TTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACACG-TCGAGGTCCT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCT-GAGGTATT
*
27740530 TTCAAATTCTGTT
63 TTCAAATTCTTTT
27740543 TTT
1 TTT
27740546 AATTTCTTTT
Statistics
Matches: 202, Mismatches: 18, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
71 37 0.18
72 2 0.01
73 16 0.08
74 4 0.02
75 49 0.24
76 6 0.03
77 88 0.44
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (75 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
AAATTCTTTT
Found at i:27740751 original size:415 final size:412
Alignment explanation
Indices: 27739987--27740926 Score: 1129
Period size: 415 Copynumber: 2.3 Consensus size: 412
27739977 TATGCTTTTC
* *
27739987 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTCAATTT
* * * *
27740052 ATGCTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACGCCGAGGCAT
65 CTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCCGAGGCAC
* * * **
27740116 TTTTAATTTCTGTTTTTCAATTTCTACTTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCG
130 TTTCAAATTCTGTTTTTCAATTTCTACTTTTAATTTATATTTTAAAAAAATCAACTCATATTGCG
* * *
27740181 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTATTTTTTTAATTTATGTTT
195 AGAGGTGAGTTGAACCTCA-GACACGCTGAGGTATTTTCAATTTCTA-TTTTTCAATTTATGTTT
* * * *
27740246 CAAAAAAATCAACTCATATTGCGAGAAGCGAGTTGAGCCTCAAGATGCTGAGGTAATTTCAATTT
258 AAAAAAAATCAACTCATATTGCGAGAAGCGAGTTGAACCTCAAGATACTGAGGCAATTTCAA-TT
* ** * *
27740311 TTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATT
322 TTGATCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGATATT
27740376 TTCAA-AT-T-CT-ATTT-T-TATCA
387 TTCAATATCTGCTAATTTATGTATCA
27740396 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTCAATTT
* *
27740461 CTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACACGTCGAGG
65 CTGCTTTTCAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCCGAGG
** * *
27740526 TC-CTTTCAAATTCTGTTTTT-AATTTCTTTTTTTTTAATTTATGTGTTTAAAAAAATCAGCTCA
127 -CACTTTCAAATTCTGTTTTTCAATTTC--TACTTTTAATTTATAT-TTTAAAAAAATCAACTCA
* * * *
27740589 TATTGCGAGAGGTGAGTTGAACCTCA-AGACGCTGAGGTGTTTTCCATTTCTA-TTTTCAATTTC
188 TATTGCGAGAGGTGAGTTGAACCTCAGACACGCTGAGGTATTTTCAATTTCTATTTTTCAATTTA
* *
27740652 TGTTTTAATTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAG-TCACATTGAGG
253 TG-TTTAA---AAAAAATCAACTCATATTGCGAGAAGCGAGTTGAACCTCAAGAT-AC--TGAGG
* *
27740716 CATTTTCAA-TTT-ATCATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACC
311 CAATTTCAATTTTGATCATC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * * **
27740779 CATTGAGGTATTTTCAATTTCTGCTCAATTTATGTTTTT
375 CACTGAGATATTTTCAATATCTGCT-AATTTATGTATCA
* * * *
27740818 CAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTC--ACATGCTGAGGTGTTTTCAATTTC
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTCAATTTC
* * *
27740881 TGTTTTTCAAAAAATCAACTTATATTGCGAGAGATGAGTTGAGCCT
66 TGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
27740927 TGGCTTACAC
Statistics
Matches: 456, Mismatches: 52, Indels: 37
0.84 0.10 0.07
Matches are distributed among these distances:
409 70 0.15
410 3 0.01
411 47 0.10
412 10 0.02
413 46 0.10
414 17 0.04
415 139 0.30
416 1 0.00
417 13 0.03
418 33 0.07
419 33 0.07
420 4 0.01
421 1 0.00
422 39 0.09
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (412 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTCAATTTC
TGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCCGAGGCACT
TTCAAATTCTGTTTTTCAATTTCTACTTTTAATTTATATTTTAAAAAAATCAACTCATATTGCGA
GAGGTGAGTTGAACCTCAGACACGCTGAGGTATTTTCAATTTCTATTTTTCAATTTATGTTTAAA
AAAAATCAACTCATATTGCGAGAAGCGAGTTGAACCTCAAGATACTGAGGCAATTTCAATTTTGA
TCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGATATTTTCA
ATATCTGCTAATTTATGTATCA
Found at i:27740762 original size:71 final size:71
Alignment explanation
Indices: 27740663--27740798 Score: 236
Period size: 71 Copynumber: 1.9 Consensus size: 71
27740653 GTTTTAATTT
*
27740663 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGTCACATTGAGGCATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACATTGAGGCATTTTCAATTT
27740728 ATCATC
66 ATCATC
* * *
27740734 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACCCATTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACATTGAGGCATTTTCAATTT
27740799 CTGCTCAATT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (71 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACATTGAGGCATTTTCAATTT
ATCATC
Found at i:27740906 original size:155 final size:151
Alignment explanation
Indices: 27740556--27741105 Score: 510
Period size: 155 Copynumber: 3.5 Consensus size: 151
27740546 AATTTCTTTT
* * * * * *
27740556 TTTTTAATTTATGTGTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGC
* * *
27740621 TGAGGTGTTTTCCATTTCTATTTTCAATTTCTGTTTTAATTTAAAAAATCAACTCATATTGCGAG
66 TGAGGTATTTTCAATTTC---TGTCAATTT-TG--TT--TTTAAAAAATCAACTCATATTGCGAG
* * **
27740686 AGGTGAGTTGAACCTCA-AGTCACATTGAGGCA
123 AGGTGAGTTGAGCCTCACA-T-GC--TGAGGTG
* ** *
27740718 TTTTCAA-TT-T-ATCATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACCC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGC
*
27740780 ATTGAGGTATTTTCAATTTCTGCTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGT
66 --TGAGGTATTTTCAATTTCTG-TCAATTT-TGTTTTTAAAAAATCAACTCATATTGCGAGAGGT
*
27740845 AAGTTGAGCCTCACATGCTGAGGTG
127 GAGTTGAGCCTCACATGCTGAGGTG
* * * *
27740870 TTTTCAATTTCTGTTTTTCAAAAAATCAACTTATATTGCGAGAGATGAGTTGAGCCTTGGCTTAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--C-AAG
**
27740935 ACGCTGAGGTATTTTTCAATTTCTG-----TTTG--TCAAAAAAATCAACTCATATTGCGAGAGG
62 ACGCTGAGGTA-TTTTCAATTTCTGTCAATTTTGTTTTTAAAAAATCAACTCATATTGCGAGAGG
*
27740993 TGAGTTGAGCCTCAGGTCACACGCTGAGGTG
126 TGAGTTGAG-C-C---TCACATGCTGAGGTG
* *
27741024 TTTTCAACTTCTGTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACG
1 TTTTCAATTTCTGTTTTTCAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA--
27741089 CGCTGAGGTATTTTCAA
63 CGCTGAGGTATTTTCAA
27741106 AAAAATTCAA
Statistics
Matches: 330, Mismatches: 38, Indels: 50
0.79 0.09 0.12
Matches are distributed among these distances:
149 34 0.10
150 1 0.00
151 4 0.01
152 22 0.07
153 12 0.04
154 41 0.12
155 108 0.33
156 2 0.01
157 9 0.03
158 15 0.05
159 57 0.17
160 1 0.00
161 18 0.05
162 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (151 bp):
TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGC
TGAGGTATTTTCAATTTCTGTCAATTTTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCACATGCTGAGGTG
Found at i:27740921 original size:71 final size:72
Alignment explanation
Indices: 27740803--27741080 Score: 362
Period size: 77 Copynumber: 3.7 Consensus size: 72
27740793 CAATTTCTGC
* * *
27740803 TCAATTTATGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCC-TCACATGCTGA
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCGTCACACGCTGA
27740866 GGTGTTT
66 GGTGTTT
* * *
27740873 TCAATTTCTGTTTTTCAAAAAATCAACTTATATTGCGAGAGATGAGTTGAGCCTTGGCTTACACG
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC---G-TCACACG
*
27740938 CTGAGGTATTTT
62 CTGAGGT-GTTT
*
27740950 TCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACAC
1 TCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-C-C--GTCACAC
27741015 GCTGAGGTGTTT
61 GCTGAGGTGTTT
*
27741027 TCAACTTCTGTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TCAATTTCTGTTTTTCAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCC
27741081 TCAGGACGCG
Statistics
Matches: 182, Mismatches: 15, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
70 15 0.08
71 33 0.18
75 1 0.01
76 19 0.10
77 64 0.35
78 46 0.25
79 3 0.02
80 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (72 bp):
TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCGTCACACGCTGA
GGTGTTT
Found at i:27740991 original size:78 final size:75
Alignment explanation
Indices: 27740803--27741345 Score: 400
Period size: 62 Copynumber: 7.7 Consensus size: 75
27740793 CAATTTCTGC
* * *
27740803 TCAATTTATGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCC-T--C-ACATGC
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTACACGC
27740863 TGAGGTGTTT
66 TGAGGTGTTT
* *
27740873 TCAATTTCTGTTTTTCAAAAAATCAACTTATATTGCGAGAGATGAGTTGAGCCTTGGCTTACACG
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TACACG
*
27740938 CTGAGGTATTTT
65 CTGAGGT-GTTT
* *
27740950 TCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACA
1 TCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCT-ACA
27741014 CGCTGAGGTGTTT
63 CGCTGAGGTGTTT
* * *
27741027 TCAACTTCTGTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACGC
1 TCAATTTCTGTTTTTCAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTACAC
*
27741090 GCTGAGGTATTT
64 GCTGAGGTGTTT
* * *
27741102 TCAA------------AAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GACACGC
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTACACGC
* *
27741154 TGAGGTATTG
66 TGAGGTGTTT
* *** * *
27741164 TCAA-TT-T-TTTGT---ATGTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACGCG
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTACACG
*
27741221 CTGAGGTATTT
65 CTGAGGTGTTT
* * * * *
27741232 T-AA-----------AAAAAAATCAACTCATATTACGAGATGTGAGTTGAGCCTCGG-GACACGC
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTACACGC
**
27741284 TGAGGTAATT
66 TGAGGTGTTT
* **
27741294 TCAATTTCTG-TTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
27741346 CAAGACACGT
Statistics
Matches: 400, Mismatches: 37, Indels: 70
0.79 0.07 0.14
Matches are distributed among these distances:
61 4 0.01
62 96 0.24
63 7 0.02
67 2 0.00
68 49 0.12
69 2 0.00
70 15 0.04
71 33 0.08
72 34 0.09
74 1 0.00
75 18 0.05
76 17 0.04
77 72 0.18
78 48 0.12
79 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (75 bp):
TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTACACGC
TGAGGTGTTT
Found at i:27741134 original size:62 final size:62
Alignment explanation
Indices: 27741038--27741433 Score: 389
Period size: 62 Copynumber: 6.1 Consensus size: 62
27741028 CAACTTCTGT
*
27741038 TTTTC-AAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCGCTGAGGTA
1 TTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
*
27741099 TTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA
1 TTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
* ** ** *
27741161 TTGTCAATTTTTTGTATGTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCGCTGAG
1 TTTTCAA------AAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
27741226 GTA
60 GTA
* * * * *
27741229 TTTTAAAAAAAAATCAACTCATATTACGAGATGTGAGTTGAGCCTCGGGACACGCTGAGGTA
1 TTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
* * ** * *
27741291 ATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 TTTTCAA----------AAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
27741356 TGAGGTA
56 TGAGGTA
* * * ** * *
27741363 TTTTCAAAAAAAATCAACCCGTATTGCGAGAGGCAAGTTGAGTCTCAGGTCACACGCCGAGGTA
1 TTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTA
27741427 TTTTCAA
1 TTTTCAA
27741434 TTTTCGTTTT
Statistics
Matches: 273, Mismatches: 43, Indels: 35
0.78 0.12 0.10
Matches are distributed among these distances:
61 5 0.02
62 143 0.52
64 18 0.07
68 54 0.20
72 53 0.19
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (62 bp):
TTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
Found at i:27741205 original size:130 final size:134
Alignment explanation
Indices: 27740966--27741436 Score: 621
Period size: 130 Copynumber: 3.5 Consensus size: 134
27740956 TCTGTTTGTC
*
27740966 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTGTTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAA
*
27741031 CTTCTGTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCGCTGAG
66 -TT-TCTTTTT---AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCGCTGAG
27741096 GTATTTTCA
126 GTATTTTCA
* * *
27741105 AAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GACACGCTGAGGTATTGTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAA
* **
27741168 TTT-TTTGT-ATGTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCGCTGAGGTATT
66 TTTCTTTTTAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCGCTGAGGTATT
*
27741231 TTAA
131 TTCA
* * * *
27741235 AAAAAAATCAACTCATATTACGAGATGTGAGTTGAGCCTC-GG-GACACGCTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAA
** * * *
27741298 TTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
66 TTTCT-TTTT-AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCGCTGAGGTA
27741363 TTTTCA
129 TTTTCA
* * ** * *
27741369 AAAAAAATCAACCCGTATTGCGAGAGGCAAGTTGAGTCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAA
27741434 TTT
66 TTT
27741437 TCGTTTTTCA
Statistics
Matches: 294, Mismatches: 32, Indels: 15
0.86 0.09 0.04
Matches are distributed among these distances:
130 117 0.40
131 1 0.00
132 3 0.01
134 88 0.30
135 3 0.01
136 23 0.08
137 18 0.06
138 2 0.01
139 39 0.13
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (134 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAA
TTTCTTTTTAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCGCTGAGGTATT
TTCA
Found at i:27741568 original size:74 final size:75
Alignment explanation
Indices: 27741462--27741604 Score: 216
Period size: 74 Copynumber: 1.9 Consensus size: 75
27741452 TGCCTTTCAA
* *
27741462 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACACTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACACCGAGGTAATTTCAAT
27741526 TTCTGTTGTC
66 TTCTGTTGTC
* * * *
27741536 AAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACACCGAGGTAATTTCAA
27741601 TTTC
65 TTTC
27741605 CGTTTTTCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 40 0.66
76 21 0.34
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACACCGAGGTAATTTCAAT
TTCTGTTGTC
Found at i:27741714 original size:166 final size:167
Alignment explanation
Indices: 27741369--27741934 Score: 857
Period size: 166 Copynumber: 3.4 Consensus size: 167
27741359 GGTATTTTCA
* * *
27741369 AAAAAAATCAACCCGTATTGCGAGAGGCAAGTTGAGTCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
*
27741434 TTTTCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
66 TTTTCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGC
*
27741499 CTCAGGACACACTGAGGTAATTTCAATTTCTGTTGTC
131 CTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC
*
27741536 AAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
* * *
27741601 TTTCCGTTTTTCAATTTCTACCTTT-TAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGC
66 TTTTCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGC
* *
27741665 CTCAGGACACGCAGAGGTAATTTCAATTTTTGTTGTC
131 CTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC
27741702 AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
*
27741767 TTTTCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGC
66 TTTTCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGC
* * * * *
27741832 CT-TGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTC
131 CTCAGG---ACACGCTGAGGTAATTTCAATTTCTGT-TGTC
* * * * * * *
27741872 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACACACGGAGGTATTTT
1 -AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTT
27741935 TTTCAATTTA
Statistics
Matches: 363, Mismatches: 30, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
166 160 0.44
167 123 0.34
169 22 0.06
170 3 0.01
171 55 0.15
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (167 bp):
AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
TTTTCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGC
CTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC
Found at i:27741734 original size:74 final size:75
Alignment explanation
Indices: 27741628--27741770 Score: 225
Period size: 74 Copynumber: 1.9 Consensus size: 75
27741618 CTACCTTTTA
* *
27741628 AAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCAGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCAGAGGTAATTTCAAT
27741692 TTTTGTTGTC
66 TTTTGTTGTC
* * *
27741702 AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCAGAGGTAATTTCAA
27741767 TTTT
65 TTTT
27741771 CGTTTTTCAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 40 0.65
76 22 0.35
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCAGAGGTAATTTCAAT
TTTTGTTGTC
Found at i:27741872 original size:93 final size:93
Alignment explanation
Indices: 27741702--27741873 Score: 231
Period size: 93 Copynumber: 1.8 Consensus size: 93
27741692 TTTTGTTGTC
* *
27741702 AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAA
*
27741767 TTTTCGTTTTTCAATTTCTGCCTTTCAA
66 TTTTCGTCTTTCAATTTCTGCCTTTCAA
** * * * *
27741795 AAAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-TCACACGCCGAGCTATTTTCA
27741859 A-TTTCTGTCTTTCAA
65 ATTTTC-GTCTTTCAA
27741874 AAAAAATCAA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
92 6 0.09
93 62 0.91
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (93 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAA
TTTTCGTCTTTCAATTTCTGCCTTTCAA
Found at i:27741904 original size:78 final size:79
Alignment explanation
Indices: 27741774--27742107 Score: 299
Period size: 78 Copynumber: 4.2 Consensus size: 79
27741764 CAATTTTCGT
* **
27741774 TTTTCAATTTCTGCCTTTCAAAAAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
27741839 CACGCGCTGAGCTA
66 CACGCGCTGAGCTA
* *
27741853 TTTTCAATTTCTGTCTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGA
1 TTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGC
* * * * *
27741916 TTACACACGGAGGTA
65 TCACGCGCTGAGCTA
* * *
27741931 TTTTTTTCAATTTATATTTTTC---AAAAAA-CAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
1 ---TTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
*** *
27741992 AG-TCAC-ATATCGAGGTA
63 -GCTCACGCGCT-GAGCTA
**
27742009 TTTTCAAAATCTG-CTTTTCAAGTTAAGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTCTGTC-TTTCAA---AA-----AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
27742073 GCCTTGGCTCACGCGCTGAGCTA
57 GCCTTGGCTCACGCGCTGAGCTA
27742096 TTTTCAATTTCT
1 TTTTCAATTTCT
27742108 ATTTTTAATG
Statistics
Matches: 203, Mismatches: 30, Indels: 36
0.75 0.11 0.13
Matches are distributed among these distances:
75 13 0.06
77 3 0.01
78 83 0.41
79 28 0.14
81 17 0.08
86 6 0.03
87 52 0.26
88 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (79 bp):
TTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
CACGCGCTGAGCTA
Found at i:27742096 original size:243 final size:241
Alignment explanation
Indices: 27741608--27742108 Score: 620
Period size: 243 Copynumber: 2.1 Consensus size: 241
27741598 CAATTTCCGT
* *
27741608 TTTTCAATTTCTACCTTTTAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAATTTCTACCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* *
27741673 ACGCAGAGGTAATTTCAATTTTTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAG
66 ACACAGAGGTAATTTCAATTTTTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAG
* * * * * **
27741738 CCTCAGGTCACACGCCGAGGTATTTTCAATTTTCGTTTTTCAATTTCTGCCTTTCAAAAAAAAAT
131 CCTCAGGTCACACACCGAGGTATTTTCAAATCTCGCTTTTCAAGTTAAG-CTTTC---AAAAAAT
**
27741803 TGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTA
192 CAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTA
** * *
27741853 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATT
1 TTTTCAATTTCTACCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--G
* * * *
27741918 ACACACGGAGGTATTTTTTTCAATTTATAT-TTTTC-AAAAAA-CAACTCATATTGCGAGAGGTG
64 ACACACAGAGGTA---ATTTCAATTT-T-TGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCG
* * *
27741980 AGTTGAGCCT-TGAGTCACATATCGAGGTATTTTCAAAATCT-GCTTTTCAAGTTAAG-TTTC-A
124 AGTTGAGCCTCAG-GTCACACACCGAGGTATTTTC-AAATCTCGCTTTTCAAGTTAAGCTTTCAA
27742041 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTA
187 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTA
27742096 TTTTCAATTTCTA
1 TTTTCAATTTCTA
27742109 TTTTTAATGT
Statistics
Matches: 222, Mismatches: 25, Indels: 20
0.83 0.09 0.07
Matches are distributed among these distances:
243 66 0.30
245 57 0.26
247 15 0.07
248 1 0.00
249 58 0.26
250 19 0.09
251 5 0.02
252 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (241 bp):
TTTTCAATTTCTACCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
ACACAGAGGTAATTTCAATTTTTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAG
CCTCAGGTCACACACCGAGGTATTTTCAAATCTCGCTTTTCAAGTTAAGCTTTCAAAAAATCAAC
TCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTA
Found at i:27742789 original size:16 final size:17
Alignment explanation
Indices: 27742764--27742807 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
27742754 CATTAAGCCC
27742764 CCCCCAAAAAAACCTAA
1 CCCCCAAAAAAACCTAA
*
27742781 CCCCCAAAAAAAACTAA
1 CCCCCAAAAAAACCTAA
27742798 -CCCCAAAAAA
1 CCCCCAAAAAA
27742808 CAAACCAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.57, C:0.39, G:0.00, T:0.05
Consensus pattern (17 bp):
CCCCCAAAAAAACCTAA
Found at i:27742790 original size:18 final size:18
Alignment explanation
Indices: 27742763--27742813 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
27742753 CCATTAAGCC
*
27742763 CCCCCCAAAAAAACCTAA
1 CCCCCAAAAAAAACCTAA
27742781 CCCCCAAAAAAAA-CTAA
1 CCCCCAAAAAAAACCTAA
*
27742798 CCCCAAAAAACAAACC
1 CCCCCAAAAA-AAACC
27742814 AAGAAACCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 13 0.45
18 15 0.52
19 1 0.03
ACGTcount: A:0.55, C:0.41, G:0.00, T:0.04
Consensus pattern (18 bp):
CCCCCAAAAAAAACCTAA
Found at i:27743273 original size:59 final size:59
Alignment explanation
Indices: 27743173--27743286 Score: 203
Period size: 59 Copynumber: 1.9 Consensus size: 59
27743163 TACCTTTTCC
27743173 GGCCACCGTAGGCGGCGACCGACGATCGACTGGTGACCGG-CCCCCCTTGGCCGGCGGT
1 GGCCACCGTAGGCGGCGACCGACGATCGACTGGTGACCGGCCCCCCCTTGGCCGGCGGT
*
27743231 GGCCAGCGATAGGCGGCGACCGACGATCGACTGGTGACCGGCCCCCCCTTGGCCGG
1 GGCCACCG-TAGGCGGCGACCGACGATCGACTGGTGACCGGCCCCCCCTTGGCCGG
27743287 ATTTTCTTTC
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
58 7 0.13
59 32 0.60
60 14 0.26
ACGTcount: A:0.13, C:0.38, G:0.38, T:0.11
Consensus pattern (59 bp):
GGCCACCGTAGGCGGCGACCGACGATCGACTGGTGACCGGCCCCCCCTTGGCCGGCGGT
Found at i:27743999 original size:19 final size:19
Alignment explanation
Indices: 27743919--27744003 Score: 75
Period size: 19 Copynumber: 4.3 Consensus size: 19
27743909 TAATATTATC
*
27743919 TTTTATTGTAGATATTATTA
1 TTTTA-TGTACATATTATTA
27743939 TTATTAT-TACATACTT-TTA
1 TT-TTATGTACATA-TTATTA
* * *
27743958 TTATATGCATATATATATGTA
1 TTTTATGTACATAT-TAT-TA
27743979 TTTTATGTACATATTATTA
1 TTTTATGTACATATTATTA
27743998 TTTTAT
1 TTTTAT
27744004 ATTATTATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
19 23 0.44
20 9 0.17
21 16 0.31
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.58
Consensus pattern (19 bp):
TTTTATGTACATATTATTA
Found at i:27749851 original size:6 final size:6
Alignment explanation
Indices: 27749840--27749871 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
27749830 GAAGTGAGCT
27749840 TATGTA TATGTA TATGTA TATGTA TATGTA TA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TA
27749872 GGAGAGAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (6 bp):
TATGTA
Found at i:27754002 original size:22 final size:22
Alignment explanation
Indices: 27753977--27754041 Score: 58
Period size: 25 Copynumber: 2.8 Consensus size: 22
27753967 ACTTTTTTTC
27753977 ATTATTCTATTTTAATTTTAAT
1 ATTATTCTATTTTAATTTTAAT
* *
27753999 ATTATTCATAGTATTATATTTTAGT
1 ATTATTC-TA-TTTTA-ATTTTAAT
* * *
27754024 ATTGTTATATTTTTATTT
1 ATTATTCTATTTTAATTT
27754042 ATTAACCCTC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
22 11 0.32
23 5 0.15
24 6 0.18
25 12 0.35
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (22 bp):
ATTATTCTATTTTAATTTTAAT
Found at i:27755276 original size:18 final size:17
Alignment explanation
Indices: 27755232--27755277 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
27755222 AGAATGACAG
*
27755232 TATAGTAATGGTAATAA
1 TATAGTAATAGTAATAA
*
27755249 TAATATTAATAGTAATAA
1 T-ATAGTAATAGTAATAA
27755267 TATAGGTAATA
1 TATA-GTAATA
27755278 ACTTAGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (17 bp):
TATAGTAATAGTAATAA
Found at i:27755477 original size:2 final size:2
Alignment explanation
Indices: 27755465--27755503 Score: 53
Period size: 2 Copynumber: 19.5 Consensus size: 2
27755455 AAGTACCATA
*
27755465 AT AT AT GAT AT AT AT AT -T AT AT AT AT TT AT AT AT AT AT A
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27755504 AAATAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 30 0.91
3 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:27756124 original size:22 final size:22
Alignment explanation
Indices: 27756063--27756127 Score: 58
Period size: 25 Copynumber: 2.8 Consensus size: 22
27756053 AGGTGTTAAT
* * *
27756063 AAATAAAAATATAACAATACTA
1 AAATTAAAATAGAATAATACTA
* *
27756085 AAATATAATACTATGAATAATATTA
1 AAAT-TAA-AATA-GAATAATACTA
27756110 AAATTAAAATAGAATAAT
1 AAATTAAAATAGAATAAT
27756128 GAAAAAAAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
22 11 0.32
23 5 0.15
24 6 0.18
25 12 0.35
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (22 bp):
AAATTAAAATAGAATAATACTA
Found at i:27759008 original size:47 final size:47
Alignment explanation
Indices: 27758864--27759336 Score: 750
Period size: 47 Copynumber: 10.1 Consensus size: 47
27758854 CCCTTCGGGA
* * * * * * *
27758864 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27758911 CCTGTCACATATATACACTTTCACATACA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27758957 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27759004 CTTATCACCTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27759051 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27759098 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27759145 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27759192 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27759239 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27759286 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27759333 CTTA
1 CTTA
27759337 CTATCATTTC
Statistics
Matches: 399, Mismatches: 26, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
46 39 0.10
47 360 0.90
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27771972 original size:29 final size:28
Alignment explanation
Indices: 27771939--27771995 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
27771929 CGAGTTATAC
27771939 TGATTTGGCTTCAGGCCATGAATATCAGT
1 TGATTTGGCTTCAGGCCATG-ATATCAGT
*
27771968 TGATTTGGCTTCGGGCCATGATATCAGT
1 TGATTTGGCTTCAGGCCATGATATCAGT
27771996 ACTTCGGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (28 bp):
TGATTTGGCTTCAGGCCATGATATCAGT
Found at i:27773958 original size:93 final size:93
Alignment explanation
Indices: 27773846--27774017 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
27773836 CGCCCATAAG
* *
27773846 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
27773911 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
27773939 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
27774004 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
27774018 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:27774014 original size:46 final size:46
Alignment explanation
Indices: 27773839--27774014 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
27773829 TGTAACCCGC
* * *
27773839 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
27773885 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
27773935 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
27773978 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
27774015 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:27777450 original size:37 final size:37
Alignment explanation
Indices: 27777400--27777478 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
27777390 TTATTACGAA
* *
27777400 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
27777437 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
27777474 GTCTT
1 GTCTT
27777479 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:27777675 original size:47 final size:47
Alignment explanation
Indices: 27777597--27778038 Score: 713
Period size: 47 Copynumber: 9.4 Consensus size: 47
27777587 CCCTTCGGGA
* * * * * * *
27777597 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27777644 CCTGTCACATATCTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27777691 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27777738 CTTATTACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27777785 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27777832 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27777879 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27777926 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27777973 CTTATCACATCTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27778020 CTTATCACATATATACACT
1 CTTATCACATATATACACT
27778039 GTCTTGGCTG
Statistics
Matches: 368, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 368 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27782694 original size:27 final size:27
Alignment explanation
Indices: 27782664--27782787 Score: 149
Period size: 27 Copynumber: 4.6 Consensus size: 27
27782654 AAATTGTACA
*
27782664 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTT
* * *
27782691 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGTT
* **
27782718 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTT
* *
27782745 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-ATTGACTATGTT
*
27782773 GCACTAAATGTGCGA
1 GCACTAAGTGTGCGA
27782788 GCTGATTATA
Statistics
Matches: 82, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 60 0.73
28 22 0.27
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTT
Found at i:27782777 original size:82 final size:81
Alignment explanation
Indices: 27782664--27782813 Score: 221
Period size: 82 Copynumber: 1.8 Consensus size: 81
27782654 AAATTGTACA
* *
27782664 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAATGTGCGAAATGAATAT-ATAGCACTAAGTG
27782728 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** * *
27782745 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAATGTGCGAGCTGATTATATAGCACTGAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAATGTGCGAAATGAATATATAGCACTAAGTG
27782810 TGCG
65 TGCG
27782814 GACTCAATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 17 0.28
82 44 0.72
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAATGTGCGAAATGAATATATAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:27782811 original size:27 final size:28
Alignment explanation
Indices: 27782663--27782813 Score: 114
Period size: 27 Copynumber: 5.5 Consensus size: 28
27782653 TAAATTGTAC
* *
27782663 AGCACTAAGTGTGCGA-TTTGACTATGT
1 AGCACTAAGTGTGCGAGTCTGACTATAT
* ** *
27782690 TGCACTAAGTGTGCGA-AATGAATATGAT
1 AGCACTAAGTGTGCGAGTCTGACTAT-AT
* * **
27782718 -GCACTAAGTGTGCGAAT-TGACCATGC
1 AGCACTAAGTGTGCGAGTCTGACTATAT
* * *
27782744 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTCTGACTATAT
* *
27782772 AGCACTAAATGTGCGAG-CTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGACTATAT
*
27782799 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27782814 GACTCAATAT
Statistics
Matches: 100, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
27 77 0.77
28 23 0.23
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGACTATAT
Found at i:27790665 original size:27 final size:27
Alignment explanation
Indices: 27790634--27790811 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
27790624 TAAATTGTAC
27790634 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
27790661 TGCACTAAGTGTGTGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27790687 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
27790715 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
27790743 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27790770 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
27790797 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27790812 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:27790748 original size:82 final size:81
Alignment explanation
Indices: 27790635--27790790 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
27790625 AAATTGTACA
* * *
27790635 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGTGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
27790699 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
27790716 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
27790781 TGCGAGTTGA
65 TGCGAATTGA
27790791 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:27790802 original size:82 final size:81
Alignment explanation
Indices: 27790631--27790811 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
27790621 GATTAAATTG
* * *
27790631 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGTGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
27790696 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
27790712 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
27790776 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
27790794 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
27790812 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:27792718 original size:24 final size:24
Alignment explanation
Indices: 27792691--27792768 Score: 102
Period size: 24 Copynumber: 3.2 Consensus size: 24
27792681 AAGGCTATCA
**
27792691 GGAGAAGATTTAAAAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
27792715 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * *
27792739 GGAGAGGATTTAGGAGTTGATTAG
1 GGAGAAGATTTAGGAGCTGATAAG
27792763 GGAGAA
1 GGAGAA
27792769 CGGTGTTGGC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.37, C:0.03, G:0.38, T:0.22
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:27793934 original size:65 final size:65
Alignment explanation
Indices: 27793830--27793959 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
27793820 AAGATAAGTG
27793830 GGTTAATATTTTTGGTAATCTAAATTGATAAAACTGCAGTACGTTCAAATTTGTGCATTAATGAT
1 GGTTAATATTTTTGGTAATCTAAATTGATAAAACTGCAGTACGTTCAAATTTGTGCATTAATGAT
27793895 GGTTAATATTTTTGGTAATCTAAATTGATAAAACTGCAGTACGTTCAAATTTGTGCATTAATGAT
1 GGTTAATATTTTTGGTAATCTAAATTGATAAAACTGCAGTACGTTCAAATTTGTGCATTAATGAT
27793960 ATTTTGGGCT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (65 bp):
GGTTAATATTTTTGGTAATCTAAATTGATAAAACTGCAGTACGTTCAAATTTGTGCATTAATGAT
Found at i:27794350 original size:54 final size:53
Alignment explanation
Indices: 27794265--27794374 Score: 130
Period size: 54 Copynumber: 2.1 Consensus size: 53
27794255 GGAAGCGTCT
* * *
27794265 TGGTGGCTATGCCATAATTATCTGATCTGGTGAATTTGCCACATATATCTATTC
1 TGGTGGCTATGCCACAATTATCTGATATGGTGAATCTGCCACAT-TATCTATTC
* * * * * *
27794319 TGGTGGCTCTGCCACGATTATCTGTTATGGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATATGGTGAATCTGCCACATTATCTATTC
27794372 TGG
1 TGG
27794375 CAGCCATGCT
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 11 0.23
54 36 0.77
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (53 bp):
TGGTGGCTATGCCACAATTATCTGATATGGTGAATCTGCCACATTATCTATTC
Found at i:27794370 original size:26 final size:26
Alignment explanation
Indices: 27794281--27794374 Score: 107
Period size: 27 Copynumber: 3.5 Consensus size: 26
27794271 CTATGCCATA
* * *
27794281 ATTATCTGATCTGGTGAATTTGCCAC
1 ATTATCTGTTCTGGTGACTCTGCCAC
* *
27794307 ATATATCTATTCTGGTGGCTCTGCCAC
1 AT-TATCTGTTCTGGTGACTCTGCCAC
* *
27794334 GATTATCTGTTATGGTGACTCTGTCAC
1 -ATTATCTGTTCTGGTGACTCTGCCAC
27794361 ATTATCTGTTCTGG
1 ATTATCTGTTCTGG
27794375 CAGCCATGCT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 15 0.27
27 39 0.70
28 2 0.04
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.40
Consensus pattern (26 bp):
ATTATCTGTTCTGGTGACTCTGCCAC
Found at i:27795377 original size:16 final size:17
Alignment explanation
Indices: 27795335--27795376 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
27795325 GTGGAATGAG
27795335 TTTTACAAAAACAAAGA
1 TTTTACAAAAACAAAGA
*
27795352 TTTT-CGAAAACAAA-A
1 TTTTACAAAAACAAAGA
27795367 TTTTA-AAAAA
1 TTTTACAAAAA
27795377 AACTCAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 9 0.41
17 4 0.18
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.29
Consensus pattern (17 bp):
TTTTACAAAAACAAAGA
Found at i:27800658 original size:24 final size:24
Alignment explanation
Indices: 27800625--27800701 Score: 127
Period size: 24 Copynumber: 3.2 Consensus size: 24
27800615 AAGGCTATCA
*
27800625 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
27800649 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
27800673 GGAGAGAATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
27800697 GGAGA
1 GGAGA
27800702 ACGGTGTTGG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.35, C:0.04, G:0.40, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:27802174 original size:27 final size:26
Alignment explanation
Indices: 27802136--27802243 Score: 137
Period size: 27 Copynumber: 4.0 Consensus size: 26
27802126 AAGCGTCCTA
*
27802136 GTGGCTATGCCACAATTATCTGA-TCTG
1 GTGGCTCTGCCAC-ATTATCT-ATTCTG
27802163 GTGGCTCTGCCACATATATCTATTCTG
1 GTGGCTCTGCCACAT-TATCTATTCTG
27802190 GTGGCTCTGCCACGATTATCTATTCTG
1 GTGGCTCTGCCAC-ATTATCTATTCTG
* * *
27802217 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTATTCTG
27802243 G
1 G
27802244 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
26 16 0.22
27 56 0.76
28 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTATTCTG
Found at i:27810233 original size:14 final size:14
Alignment explanation
Indices: 27810216--27810250 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
27810206 AATGGTTTAC
*
27810216 GCAAATGGATGTAT
1 GCAAATGGATGAAT
*
27810230 GCAAATGTATGAAT
1 GCAAATGGATGAAT
27810244 GCAAATG
1 GCAAATG
27810251 CACCAACTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (14 bp):
GCAAATGGATGAAT
Found at i:27810701 original size:22 final size:22
Alignment explanation
Indices: 27810676--27810722 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
27810666 GGCCATCAGT
* *
27810676 CACGGCCGTGTATCCCATAACA
1 CACGACCGTGTATCCCAAAACA
* *
27810698 CACGACCGTGTGTCTCAAAACA
1 CACGACCGTGTATCCCAAAACA
27810720 CAC
1 CAC
27810723 ACTCGTATGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.36, G:0.17, T:0.17
Consensus pattern (22 bp):
CACGACCGTGTATCCCAAAACA
Found at i:27811780 original size:15 final size:15
Alignment explanation
Indices: 27811760--27811791 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27811750 CATTTCACTA
*
27811760 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
27811775 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
27811790 TT
1 TT
27811792 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:27815887 original size:43 final size:42
Alignment explanation
Indices: 27815809--27815963 Score: 184
Period size: 42 Copynumber: 3.7 Consensus size: 42
27815799 TACCACACCA
* * ** *
27815809 ATGCCATATCCCAGATATGGTCTTATATGGGATCTCATTTTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
* * *
27815851 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATTG
* * *
27815894 ATACCATATCCCAGATATGGTCTTACACAAAATCTCATAATG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
* *
27815936 ATGTCATATCTCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
27815964 ATAGTCTCGG
Statistics
Matches: 95, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 62 0.65
43 33 0.35
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
Found at i:27819213 original size:47 final size:47
Alignment explanation
Indices: 27819142--27819872 Score: 1215
Period size: 47 Copynumber: 15.6 Consensus size: 47
27819132 CCCTTCGGGA
* * * * * *
27819142 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27819189 CCTATCACATATATACACTTTCACATTCATCACATCGGCC---A---
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27819230 -TTATCACATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27819276 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27819323 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27819372 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27819419 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27819466 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27819513 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27819560 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27819609 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27819656 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27819703 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27819750 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27819799 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27819846 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
27819873 TATTCAAATA
Statistics
Matches: 646, Mismatches: 25, Indels: 26
0.93 0.04 0.04
Matches are distributed among these distances:
40 37 0.06
43 1 0.00
47 474 0.73
49 134 0.21
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27819484 original size:190 final size:189
Alignment explanation
Indices: 27819142--27819872 Score: 1219
Period size: 190 Copynumber: 3.9 Consensus size: 189
27819132 CCCTTCGGGA
* * * * * * *
27819142 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCAC-ATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
27819206 CTTTCACATTCATCACATCGGCC---A----TTATCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
* *
27819264 CGGTCATTAGGCCTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
131 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27819323 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-ATATATA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATA
27819387 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
64 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
27819452 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27819513 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
* *
27819578 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
27819643 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
130 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27819703 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
* *
27819768 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
27819833 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
130 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
27819873 TATTCAAATA
Statistics
Matches: 527, Mismatches: 12, Indels: 13
0.95 0.02 0.02
Matches are distributed among these distances:
181 8 0.02
183 74 0.14
186 1 0.00
188 45 0.09
190 399 0.76
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (189 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27824240 original size:21 final size:21
Alignment explanation
Indices: 27824214--27824260 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
27824204 GATAGATGGT
*
27824214 TGCCTAGGCACGACCTTTCGG
1 TGCCTAGGCACAACCTTTCGG
* *
27824235 TGCCTAGGCACAATCTTTTGG
1 TGCCTAGGCACAACCTTTCGG
27824256 TGCCT
1 TGCCT
27824261 GTACTTACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.30, G:0.26, T:0.30
Consensus pattern (21 bp):
TGCCTAGGCACAACCTTTCGG
Found at i:27830047 original size:34 final size:34
Alignment explanation
Indices: 27830009--27830110 Score: 105
Period size: 34 Copynumber: 3.2 Consensus size: 34
27829999 TCTAGTACCA
27830009 GAAAGAAACTGAGAATATTTATTGAAAGTACACT
1 GAAAGAAACTGAGAATATTTATTGAAAGTACACT
* *
27830043 GAAAG-AA---AGAA-ATTAATCT---AGTAC-CA
1 GAAAGAAACTGAGAATATTTAT-TGAAAGTACACT
*
27830069 GAAAGAAACTGAGAATATTTATTGAAACTACACT
1 GAAAGAAACTGAGAATATTTATTGAAAGTACACT
27830103 GAAAGAAA
1 GAAAGAAA
27830111 GAAATTAACA
Statistics
Matches: 53, Mismatches: 5, Indels: 20
0.68 0.06 0.26
Matches are distributed among these distances:
26 6 0.11
27 7 0.13
29 5 0.09
30 10 0.19
31 5 0.09
33 6 0.11
34 14 0.26
ACGTcount: A:0.51, C:0.10, G:0.17, T:0.23
Consensus pattern (34 bp):
GAAAGAAACTGAGAATATTTATTGAAAGTACACT
Found at i:27830090 original size:60 final size:60
Alignment explanation
Indices: 27829997--27830118 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
27829987 TGAAAAAAAA
*
27829997 AATCTAGTACCAGAAAGAAACTGAGAATATTTATTGAAAGTACACTGAAAGAAAGAAATT
1 AATCTAGTACCAGAAAGAAACTGAGAATATTTATTGAAACTACACTGAAAGAAAGAAATT
27830057 AATCTAGTACCAGAAAGAAACTGAGAATATTTATTGAAACTACACTGAAAGAAAGAAATT
1 AATCTAGTACCAGAAAGAAACTGAGAATATTTATTGAAACTACACTGAAAGAAAGAAATT
27830117 AA
1 AA
27830119 CATGTGAAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.23
Consensus pattern (60 bp):
AATCTAGTACCAGAAAGAAACTGAGAATATTTATTGAAACTACACTGAAAGAAAGAAATT
Found at i:27839963 original size:30 final size:31
Alignment explanation
Indices: 27839917--27839981 Score: 105
Period size: 30 Copynumber: 2.1 Consensus size: 31
27839907 AAAAAAAATC
*
27839917 AATTCAACTCTTTTTAAATAATTGATAGTCA
1 AATTCAACTCTTTTTAAAAAATTGATAGTCA
*
27839948 AATTCAACT-TTTTTAAAAAATTGATGGTCA
1 AATTCAACTCTTTTTAAAAAATTGATAGTCA
27839978 AATT
1 AATT
27839982 TAATTCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 23 0.72
31 9 0.28
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.42
Consensus pattern (31 bp):
AATTCAACTCTTTTTAAAAAATTGATAGTCA
Found at i:27840040 original size:27 final size:25
Alignment explanation
Indices: 27839993--27840042 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
27839983 AATTCAAAAT
* *
27839993 AAAAAATATATATATGAAATTAACA
1 AAAAAATATAAATATAAAATTAACA
27840018 AAAAAATATAAATATCAATAATTAA
1 AAAAAATATAAATAT-AA-AATTAA
27840043 ATTTATCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
26 1 0.05
27 6 0.29
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (25 bp):
AAAAAATATAAATATAAAATTAACA
Found at i:27843206 original size:30 final size:30
Alignment explanation
Indices: 27843172--27843231 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
27843162 ACTTAACAAG
27843172 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
27843202 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
27843232 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Done.