Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 263 of 345
Found at i:77959335 original size:27 final size:26
Alignment explanation
Indices: 77959300--77959400 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 26
77959290 GGGCATATTC
* *
77959300 GTCATTTTACCATATAGGGGTATTACG
1 GTCACTTTACCATAAAGGGGT-TTACG
* *
77959327 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATAAAGGGG-TTTACG
* *
77959354 GTCACTTTACCTTACAAGGGCTTTACG
1 GTCACTTTACCATA-AAGGGGTTTACG
*
77959381 GTCACTTTACCTTACAAGGG
1 GTCACTTTACCATA-AAGGG
77959401 TATTTTAGTC
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
27 61 0.92
28 5 0.08
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.33
Consensus pattern (26 bp):
GTCACTTTACCATAAAGGGGTTTACG
Found at i:77959411 original size:27 final size:27
Alignment explanation
Indices: 77959322--77959433 Score: 90
Period size: 27 Copynumber: 4.1 Consensus size: 27
77959312 TATAGGGGTA
* **
77959322 TTACGGTCACTTTACCCTAC-AGGGGCT
1 TTAC-GTCACTTTACCTTACAAGGGTTT
*
77959349 TTACGGTCACTTTACCTTACAAGGG-CT
1 TTAC-GTCACTTTACCTTACAAGGGTTT
77959376 TTACGGTCACTTTACCTTACAAGGGTATT
1 TTAC-GTCACTTTACCTTACAAGGGT-TT
77959405 TTA-GTCA-TTTCATCC-TACAAGGGTGTT
1 TTACGTCACTTT-A-CCTTACAAGGGT-TT
77959432 TT
1 TT
77959434 GGTAAATCTA
Statistics
Matches: 77, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
26 3 0.04
27 64 0.83
28 6 0.08
29 4 0.05
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (27 bp):
TTACGTCACTTTACCTTACAAGGGTTT
Found at i:77959558 original size:27 final size:27
Alignment explanation
Indices: 77959533--77959740 Score: 215
Period size: 27 Copynumber: 7.7 Consensus size: 27
77959523 TTTGTAAATT
* *
77959533 AGGGGCATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACC
* * * *
77959559 TGAAGGTATTTCGGTAATTTCACAAACC
1 AG-GGGTATTTTGGTAATTTTACAAACC
* *
77959587 AGTGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
77959614 AGGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* * *
77959641 AGGGGTATTTTAGCAATTTTACAGACC
1 AGGGGTATTTTGGTAATTTTACAAACC
** *
77959668 A-GGGTATTTTGGTAATTTTACTGATC
1 AGGGGTATTTTGGTAATTTTACAAACC
**
77959694 -GAGGGTATTTTGGTAATTTTGTAAACC
1 AG-GGGTATTTTGGTAATTTTACAAACC
* *
77959721 AAGGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTT
77959741 GTAAATCGAG
Statistics
Matches: 150, Mismatches: 27, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
26 22 0.15
27 127 0.85
28 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:77959626 original size:81 final size:79
Alignment explanation
Indices: 77959507--77959739 Score: 213
Period size: 80 Copynumber: 2.9 Consensus size: 79
77959497 TAGAAAGTCA
* * **
77959507 AGGGTATTTCT-GTAACTTTGTA-AATTAGGGGCATTTTGGTAATTTTACAAA-TTGAAGGTATT
1 AGGGTATTT-TGGTAA-TTT-TACAAATAGGGGTATTTTGGTAATTTTACAAACCAG-AGGTATT
* *
77959569 TCGGTAATTTCACAAACC
62 TCAGCAATTTCACAAACC
* *
77959587 AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
1 AG-GGTATTTTGGTAATTTTACAAA-TAGGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTC
* *
77959652 AGCAATTTTACAGACC
64 AGCAATTTCACAAACC
** * ** *
77959668 AGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCA-AGGGTATTTT
1 AGGGTATTTTGGTAATTTTACAAATAG-GGGTATTTTGGTAATTTTACAAACCAGA-GGTATTTC
*
77959732 AGTAATTT
64 AGCAATTT
77959740 TGTAAATCGA
Statistics
Matches: 129, Mismatches: 17, Indels: 14
0.81 0.11 0.09
Matches are distributed among these distances:
79 4 0.03
80 67 0.52
81 57 0.44
82 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.40
Consensus pattern (79 bp):
AGGGTATTTTGGTAATTTTACAAATAGGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTCAG
CAATTTCACAAACC
Found at i:77959712 original size:80 final size:81
Alignment explanation
Indices: 77959533--77959740 Score: 242
Period size: 80 Copynumber: 2.6 Consensus size: 81
77959523 TTTGTAAATT
* ** * ** *
77959533 AGGGGCATTTTGGTAATTTTACAAA-TTGAAGGTATTTCGGTAATTTCACAAACCAGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTAGTAATTTTACAAACCAGTGGTATTT
*
77959597 TGGTAATTTTACAAACT
65 TGGTAATTTTACAAACG
* *
77959614 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGCAATTTTACAGACCAG-GGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGTGGTATTTT
* *
77959678 GGTAATTTTACTGATCG
66 GGTAATTTTAC-AAACG
** *
77959695 A-GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTT
77959741 GTAAATCGAG
Statistics
Matches: 109, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
80 60 0.55
81 48 0.44
82 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.40
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGTGGTATTTT
GGTAATTTTACAAACG
Found at i:77959741 original size:27 final size:27
Alignment explanation
Indices: 77959422--77959754 Score: 199
Period size: 27 Copynumber: 12.3 Consensus size: 27
77959412 TTTCATCCTA
* * * *
77959422 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*** *
77959449 CAAGGGTATTTCAATAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* ** * *
77959476 CAATGGTATTTTTATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTATAAA-C
* * *
77959505 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAC
* * * * *
77959532 TAGGGGCATTTTGGTAATTTTACAAATT
1 CAAGGGTATTTTGGTAATTTTATAAA-C
* * * *
77959560 GAA-GGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
77959586 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * *
77959613 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * * *
77959640 CAGGGGTATTTTAGCAATTTTACAGAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
77959667 C-AGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAC
* *
77959693 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
77959720 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
77959747 CGAGGGTA
1 CAAGGGTA
77959755 AAACAGTAAT
Statistics
Matches: 243, Mismatches: 52, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
25 1 0.00
26 22 0.09
27 190 0.78
28 16 0.07
29 13 0.05
30 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:77959749 original size:54 final size:54
Alignment explanation
Indices: 77959424--77959754 Score: 219
Period size: 54 Copynumber: 6.1 Consensus size: 54
77959414 TCATCCTACA
* * * ***
77959424 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAATAATTTTGTAAA-CC
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAATCC
* ** * * * *
77959477 AATGGTATTTTTATAATTTTTAGAAAGTCAAGGGTATTTCT-GTAACTTTGTAAAT-T
1 -AGGGTATTTTGGTAA-TTTTACAAA-CCAAGGGTATTT-TGGTAATTTTGTAAATCC
* ** * ***
77959533 AGGGGCATTTTGGTAATTTTACAAATTGAA-GGTATTTCGGTAATTTCACAAA-CC
1 A-GGGTATTTTGGTAATTTTACAAA-CCAAGGGTATTTTGGTAATTTTGTAAATCC
* * **
77959587 AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-CC
1 AG-GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAATCC
* * * * * *
77959641 AGGGGTATTTTAGCAATTTTACAGACC-AGGGTATTTTGGTAATTTTACT-GATCG
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTT-GTAAATCC
** * *
77959695 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAATCC
77959749 AGGGTA
1 AGGGTA
77959755 AAACAGTAAT
Statistics
Matches: 215, Mismatches: 48, Indels: 28
0.74 0.16 0.10
Matches are distributed among these distances:
53 42 0.20
54 122 0.57
55 19 0.09
56 32 0.15
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAATCC
Found at i:77959762 original size:27 final size:27
Alignment explanation
Indices: 77959732--77959889 Score: 226
Period size: 27 Copynumber: 5.9 Consensus size: 27
77959722 AGGGTATTTT
*
77959732 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
77959759 AGTAATTCTGTAAATCAATGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
77959786 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
77959813 AGTAATTCTGTAAATCGATGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
77959840 GGTAATTCTGTAAGTCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
77959867 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
77959890 CTTTGGTAAT
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:77959764 original size:54 final size:54
Alignment explanation
Indices: 77959706--77959889 Score: 188
Period size: 54 Copynumber: 3.4 Consensus size: 54
77959696 GGGTATTTTG
* **** * *
77959706 GTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
* *
77959760 GTAATTCTGTAAATCAATGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
* * * * * * **
77959814 GTAATTCTGTAAATCGATGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAATG
1 GTAATTCTGTAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
* * *
77959868 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAACCAAGGGTA
77959890 CTTTGGTAAT
Statistics
Matches: 113, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 113 1.00
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (54 bp):
GTAATTCTGTAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
Found at i:77959807 original size:81 final size:81
Alignment explanation
Indices: 77959722--77959902 Score: 236
Period size: 81 Copynumber: 2.2 Consensus size: 81
77959712 TTGTAAACCA
* *
77959722 AGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAATGGTAAAACA
1 AGGGTAATTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
77959787 GTAATTCTATAAATCG
66 GTAATTCTATAAATCG
*** * * * * * **
77959803 AGGGTAAAACAGTAATTCTGTAAATCGATGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAATG
1 AGGGTAATTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
77959868 GTAATTCTATAAATCG
66 GTAATTCTATAAATCG
* *
77959884 AGGGTACTTTGGTAATTTT
1 AGGGTAATTTAGTAATTTT
77959903 ACAATTTGAG
Statistics
Matches: 82, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.33
Consensus pattern (81 bp):
AGGGTAATTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
GTAATTCTATAAATCG
Found at i:77962481 original size:30 final size:30
Alignment explanation
Indices: 77962426--77962585 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
77962416 ATAGTGAATC
77962426 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
77962455 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
77962485 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
77962514 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
77962542 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
77962572 CGCACACTTAGTGC
1 CGCACACTTAGTGC
77962586 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:77962518 original size:59 final size:57
Alignment explanation
Indices: 77962426--77962585 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
77962416 ATAGTGAATC
*
77962426 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
77962485 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
77962542 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
77962586 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:77964181 original size:43 final size:43
Alignment explanation
Indices: 77964133--77964340 Score: 249
Period size: 43 Copynumber: 4.8 Consensus size: 43
77964123 GGATGTCACA
* *
77964133 TGATTATGTGTAAGACCACGTCTGGGACGTTGGCATCCATATG
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATG
* * *
77964176 TGATTACATGTAAGACCAGGTCTGGGGCGTTGGCATCGATATG
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATG
* *
77964219 TGATTACGTGTAAGACCATGTCTGGGATGTTGGCATCGATATG
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATG
* * * *
77964262 TGTTTACGAGTAAGACC-CTGTCTGGGACAG-TGGCATTGATATA
1 TGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATG
* * * *
77964305 AGGTTACATGTAAGACCACGTCTGGGACATTGGCAT
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
77964341 TGTACGATAT
Statistics
Matches: 141, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
43 139 0.99
44 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATG
Found at i:77968544 original size:61 final size:61
Alignment explanation
Indices: 77968386--77968653 Score: 238
Period size: 61 Copynumber: 4.4 Consensus size: 61
77968376 TCTTGTTTAG
* ** * ** * *
77968386 AGTTTTGCCACAAAGGTGTTCTTTTACATACAATACTCACCACAAATGCTTTCCTATCCAA
1 AGTTTTTCCACAAAGGCATTCCTTTACATTTAATACTCACCAAAAAGGCTTTCCTATCCAA
* * * *
77968447 ACTTTTTTCCACAACGGCATTCATTTACA-TTAAGTACTCACCAAAAAGGTTTTCCTATCCAA
1 A-GTTTTTCCACAAAGGCATTCCTTTACATTTAA-TACTCACCAAAAAGGCTTTCCTATCCAA
* * * * *
77968509 AGTTTTTCCACAAAGGCATTCCTTTACATTTAGTACTCACCACAAAGGCATTCCTGT-TAA
1 AGTTTTTCCACAAAGGCATTCCTTTACATTTAATACTCACCAAAAAGGCTTTCCTATCCAA
* * * * * *
77968569 GAGTTTTGCCAC-AAGGCCTGTCTTTTACGTTTAATACTCACCAAAAAGGCTTTCCT-TTCAG
1 -AGTTTTTCCACAAAGGCAT-TCCTTTACATTTAATACTCACCAAAAAGGCTTTCCTATCCAA
* * *
77968630 AGTTTTTCCTCGAAGGCTTTCCTT
1 AGTTTTTCCACAAAGGCATTCCTT
77968654 CAGAGTTTTT
Statistics
Matches: 167, Mismatches: 33, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
60 22 0.13
61 95 0.57
62 50 0.30
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (61 bp):
AGTTTTTCCACAAAGGCATTCCTTTACATTTAATACTCACCAAAAAGGCTTTCCTATCCAA
Found at i:77968646 original size:28 final size:28
Alignment explanation
Indices: 77968614--77968681 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
77968604 ACTCACCAAA
77968614 AAGGCTTTCCTTTCAGAGTTTTTCC-TCG
1 AAGGCTTTCCTTTCAGAGTTTTTCCAT-G
77968642 AAGGCTTTCC-TTCAGAGTTTTTCCATG
1 AAGGCTTTCCTTTCAGAGTTTTTCCATG
77968669 AAGGCTTTCCTTT
1 AAGGCTTTCCTTT
77968682 ACATCCACTA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
27 25 0.66
28 13 0.34
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.43
Consensus pattern (28 bp):
AAGGCTTTCCTTTCAGAGTTTTTCCATG
Found at i:77969067 original size:53 final size:52
Alignment explanation
Indices: 77968970--77969128 Score: 171
Period size: 53 Copynumber: 3.0 Consensus size: 52
77968960 CTTAAATTTT
77968970 TCCATATGATGCTATAACCCACCAGTTACAATCTTACACT-ATATGGTCTTCTTG
1 TCCATATGATGC-ATAACCCACCAGTTAC-ATCTTACA-TGATATGGTCTTCTTG
* * * *
77969024 T-CATATGATGTCATAACCCACCAGTTACGATCCTATATGATATGATCTT-TTT
1 TCCATATGATG-CATAACCCACCAGTTAC-ATCTTACATGATATGGTCTTCTTG
* * *
77969076 TCCATATGATGCCATAACCCTCCAATTACAGTCTTACACGATATGGTCTTCTT
1 TCCATATGATG-CATAACCCACCAGTTACA-TCTTACATGATATGGTCTTCTT
77969129 CAGTGCCATG
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
52 5 0.06
53 79 0.90
54 4 0.05
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (52 bp):
TCCATATGATGCATAACCCACCAGTTACATCTTACATGATATGGTCTTCTTG
Found at i:77971100 original size:14 final size:14
Alignment explanation
Indices: 77971081--77971107 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
77971071 TAGGAATGTC
77971081 ATAAGAAAATTTTG
1 ATAAGAAAATTTTG
77971095 ATAAGAAAATTTT
1 ATAAGAAAATTTT
77971108 ATTGATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
ATAAGAAAATTTTG
Found at i:77982943 original size:46 final size:46
Alignment explanation
Indices: 77982764--77983071 Score: 185
Period size: 46 Copynumber: 6.5 Consensus size: 46
77982754 TTTGTGTGCC
* * ** *
77982764 AGTGTAAGACATATCTGGGACATGCATTGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCAACAAGATGAGAGCT
* * * *** *
77982810 AGTGTAAGATCATGACTGGGATATGGCATTGACATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCAACAAGATGAGAGCT
* * * ** *
77982858 AGTGTAATACTTTTCTGGGACATGCATTGGCCTCGAGATGTA-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGGCAACAAGATG-AGAGCT
* * * *
77982904 AGTGTAAGACATGTCTGGGACATGCATTAGCAACAAGATGTG-TCA
1 AGTGTAAGACATGTCTGGGACATGCATTGGCAACAAGATGAGAGCT
* * * *
77982949 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATATAGAGGTGA-C-
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCA-ACA-AGATGAGAGCT
* ** * *
77982997 AGTGCAAGACCATGTCTATGACATGGCATCGGC-ACAGATATGTAAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCAACA-AGATG--AGAGCT
77983047 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
77983072 GCGTCAGACT
Statistics
Matches: 203, Mismatches: 46, Indels: 23
0.75 0.17 0.08
Matches are distributed among these distances:
45 10 0.05
46 78 0.38
47 29 0.14
48 56 0.28
49 9 0.04
50 21 0.10
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCAACAAGATGAGAGCT
Found at i:77984322 original size:21 final size:20
Alignment explanation
Indices: 77984298--77984337 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
77984288 GTTATAATGA
77984298 CCACACGGGCGTGTCGCCCTT
1 CCACACGGGCGTGT-GCCCTT
77984319 CCACACGGGCGTGTGCCCT
1 CCACACGGGCGTGTGCCCT
77984338 GTTTCTAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.10, C:0.42, G:0.30, T:0.17
Consensus pattern (20 bp):
CCACACGGGCGTGTGCCCTT
Found at i:77988193 original size:21 final size:20
Alignment explanation
Indices: 77988165--77988203 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
77988155 TATTTCTTGT
77988165 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
77988185 ATAATCTATCATCAAACAT
1 ATAA-CTATCATCAAACAT
77988204 CAAAAAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:77994671 original size:42 final size:42
Alignment explanation
Indices: 77994568--77994715 Score: 124
Period size: 42 Copynumber: 3.5 Consensus size: 42
77994558 GTCTGTAACA
* *
77994568 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGAATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAATT-AGATT
* * *
77994611 TACGTATAAGACCATGTCTGGGACTTC-GGCATCGTATCT-GATT
1 T-CGTGTAAGACCATGTCTGGGAC-ACAGGCATCGAAT-TAGATT
* * *
77994654 TCGTGTAAGACCCTGTCTGGGAAAAAGGCATCGATATT-GAATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGA-ATTAG-ATT
* *
77994697 ACATGTAAGACCATG-CTGG
1 TCGTGTAAGACCATGTCTGG
77994716 TACTTCGACA
Statistics
Matches: 85, Mismatches: 14, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
42 32 0.38
43 23 0.27
44 28 0.33
45 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGAATTAGATT
Found at i:77997629 original size:5 final size:5
Alignment explanation
Indices: 77997619--77997713 Score: 190
Period size: 5 Copynumber: 19.0 Consensus size: 5
77997609 ATGTAATACT
77997619 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
77997669 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
77997714 AATAATAAAC
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 90 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:77997798 original size:12 final size:12
Alignment explanation
Indices: 77997783--77997818 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
77997773 AAACGAAAAA
*
77997783 AAAAAGAGAAGG
1 AAAAAGAGAAAG
77997795 AAAAAGAGAAAG
1 AAAAAGAGAAAG
77997807 AAAAAGGAGAAA
1 AAAAA-GAGAAA
77997819 AAGCTAAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAAG
Found at i:77997811 original size:13 final size:13
Alignment explanation
Indices: 77997777--77997818 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
77997767 TAAGTAAAAC
*
77997777 GAAAAAAAAAAGA
1 GAAAGAAAAAAGA
*
77997790 G-AAGGAAAAAGA
1 GAAAGAAAAAAGA
*
77997802 GAAAGAAAAAGGA
1 GAAAGAAAAAAGA
77997815 GAAA
1 GAAA
77997819 AAGCTAAGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
GAAAGAAAAAAGA
Found at i:78003356 original size:2 final size:2
Alignment explanation
Indices: 78003351--78003378 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
78003341 TTACACACAC
78003351 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78003379 GCAGATAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78007978 original size:2 final size:2
Alignment explanation
Indices: 78007971--78007999 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
78007961 GTCGATATGT
78007971 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
78008000 TTTCTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:78011785 original size:58 final size:60
Alignment explanation
Indices: 78011666--78011790 Score: 150
Period size: 58 Copynumber: 2.1 Consensus size: 60
78011656 TTTTTTTTAA
* * * *
78011666 TTTTTAGAGTTAGGACTAAATTGATAGATTTTATAAATATTGAGGGTAAAATTTATTAAAT
1 TTTTTAGAATTAGAACTAAAATGATA-ATTTTATAAACATTGAGGGTAAAATTTATTAAAT
*
78011727 TTTTTAGAATTAGAACTAAAATGAT-A-TTTGTAAACATTGAGGGCT-AAATTT-TTAAAAT
1 TTTTTAGAATTAGAACTAAAATGATAATTTTATAAACATTGAGGG-TAAAATTTATT-AAAT
78011785 TTTTTA
1 TTTTTA
78011791 TATTTAGGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
57 2 0.04
58 31 0.54
59 2 0.04
61 22 0.39
ACGTcount: A:0.39, C:0.03, G:0.14, T:0.43
Consensus pattern (60 bp):
TTTTTAGAATTAGAACTAAAATGATAATTTTATAAACATTGAGGGTAAAATTTATTAAAT
Found at i:78013067 original size:42 final size:42
Alignment explanation
Indices: 78013015--78013099 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
78013005 AAACAAACAG
78013015 TTAATTCTTCCCAGCCTAGCTATTTGATGTTTGCCAAAACTT
1 TTAATTCTTCCCAGCCTAGCTATTTGATGTTTGCCAAAACTT
78013057 TTAATTCTTCCCAGCCTAGCTATTTGATGTTTGCCAAAACTT
1 TTAATTCTTCCCAGCCTAGCTATTTGATGTTTGCCAAAACTT
78013099 T
1 T
78013100 CTTTTAATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (42 bp):
TTAATTCTTCCCAGCCTAGCTATTTGATGTTTGCCAAAACTT
Found at i:78017047 original size:8 final size:9
Alignment explanation
Indices: 78016972--78017048 Score: 75
Period size: 9 Copynumber: 8.3 Consensus size: 9
78016962 TACTTTTAAT
78016972 TTTTTATAA
1 TTTTTATAA
*
78016981 TATTTAATAA
1 T-TTTTATAA
*
78016991 TTTATATAA
1 TTTTTATAA
* *
78017000 TTTTTCTAT
1 TTTTTATAA
*
78017009 TTTTTATCA
1 TTTTTATAA
78017018 TTTTTATAA
1 TTTTTATAA
78017027 TATTTTAATAA
1 T-TTTT-ATAA
78017038 TTTTTA-AA
1 TTTTTATAA
78017046 TTT
1 TTT
78017049 AAAACTTTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
8 5 0.09
9 29 0.53
10 16 0.29
11 5 0.09
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:78017570 original size:9 final size:9
Alignment explanation
Indices: 78017558--78017696 Score: 67
Period size: 9 Copynumber: 15.4 Consensus size: 9
78017548 AAAATTTCCC
78017558 TTTTATAAT
1 TTTTATAAT
78017567 TTTTATAAT
1 TTTTATAAT
*
78017576 ATTTA-ATAT
1 TTTTATA-AT
78017585 TTTTAACTAAT
1 TTTT-A-TAAT
*
78017596 TTTAATTAA-
1 TTTTA-TAAT
78017605 TTTTA-AAT
1 TTTTATAAT
78017613 TTTT-TAAT
1 TTTTATAAT
* *
78017621 TTTTTTTAT
1 TTTTATAAT
78017630 TTATTATAAT
1 TT-TTATAAT
* *
78017640 TTTAATCA-
1 TTTTATAAT
78017648 TTTTA-AA-
1 TTTTATAAT
**
78017655 AATTATAAT
1 TTTTATAAT
*
78017664 TTTTATAGT
1 TTTTATAAT
* *
78017673 TTTTTTATGT
1 TTTTATA-AT
78017683 TTTTAATAAT
1 TTTT-ATAAT
78017693 TTTT
1 TTTT
78017697 CTAAAAGTTT
Statistics
Matches: 98, Mismatches: 20, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
7 6 0.06
8 18 0.18
9 43 0.44
10 23 0.23
11 7 0.07
12 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:78017892 original size:93 final size:95
Alignment explanation
Indices: 78017727--78017901 Score: 227
Period size: 93 Copynumber: 1.9 Consensus size: 95
78017717 TTAATCTTTG
* *
78017727 TATCTTTTCATAGTATAATAATATTTAATAAATTTTATAATTTTCTATATTTTTTTATTTTTCTA
1 TATCTTTTCATAGTATAATAATATTTAATAAATTTTATAATTTTCTAAATTTTTTTATATTTCTA
*
78017792 AT-TTTTTTTCTTAAAAACTTAAAATTTTA
66 ATATTTTTATCTTAAAAACTTAAAATTTTA
*
78017821 TATC-TTTCATAGTATAATAATATTT-AT-AATTTTATGA-TTTCTAAATTTTGTTATAATATTT
1 TATCTTTTCATAGTATAATAATATTTAATAAATTTTATAATTTTCTAAATTTT-TT-T-ATATTT
78017882 -TAATAATTTTTAATCTTAAA
63 CTAAT-ATTTTT-ATCTTAAA
78017902 TAATTAATTA
Statistics
Matches: 71, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
90 11 0.15
91 11 0.15
92 7 0.10
93 26 0.37
94 9 0.13
95 7 0.10
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (95 bp):
TATCTTTTCATAGTATAATAATATTTAATAAATTTTATAATTTTCTAAATTTTTTTATATTTCTA
ATATTTTTATCTTAAAAACTTAAAATTTTA
Found at i:78018345 original size:20 final size:21
Alignment explanation
Indices: 78018315--78018354 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
78018305 TTAATTGAAA
78018315 ATAATAAAAATCT-AATTAATT
1 ATAATAAAAAT-TAAATTAATT
78018336 ATAA-AAAAATTAAATTAAT
1 ATAATAAAAATTAAATTAAT
78018355 ATTAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.06
20 13 0.72
21 4 0.22
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAATAAAAATTAAATTAATT
Found at i:78018358 original size:11 final size:10
Alignment explanation
Indices: 78018342--78018389 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 10
78018332 AATTATAAAA
78018342 AAATTAAATT
1 AAATTAAATT
78018352 AATATTAAATT
1 AA-ATTAAATT
78018363 AAATTATAAATT
1 AAA-T-TAAATT
*
78018375 ACATTAAATT
1 AAATTAAATT
78018385 CAAAT
1 -AAAT
78018390 ATAATAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
10 9 0.28
11 15 0.47
12 8 0.25
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTAAATT
Found at i:78018380 original size:17 final size:16
Alignment explanation
Indices: 78018342--78018389 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
78018332 AATTATAAAA
*
78018342 AAATTAAATTAATATT
1 AAATTAAATTAAAATT
78018358 AAATTAAATTATAAATT
1 AAATTAAATTA-AAATT
* *
78018375 ACATTAAATTCAAAT
1 AAATTAAATTAAAAT
78018390 ATAATAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 15 0.54
17 13 0.46
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATTAAATTAAAATT
Found at i:78018383 original size:22 final size:23
Alignment explanation
Indices: 78018342--78018393 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
78018332 AATTATAAAA
*
78018342 AAAT-TAAATTAATATTAAATT-
1 AAATATAAATTAACATTAAATTC
78018363 AAATTATAAATT-ACATTAAATTC
1 AAA-TATAAATTAACATTAAATTC
78018386 AAATATAA
1 AAATATAA
78018394 TAATATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 3 0.11
22 15 0.56
23 9 0.33
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATATAAATTAACATTAAATTC
Found at i:78018409 original size:5 final size:5
Alignment explanation
Indices: 78018342--78018389 Score: 51
Period size: 5 Copynumber: 8.8 Consensus size: 5
78018332 AATTATAAAA
*
78018342 AAATT AAATT AATATT AAATT AAATTAT AAATT ACATT AAATT CAAAT
1 AAATT AAATT AA-ATT AAATT AAA-T-T AAATT AAATT AAATT -AAAT
78018390 ATAATAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
5 22 0.59
6 11 0.30
7 4 0.11
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:78018959 original size:28 final size:28
Alignment explanation
Indices: 78018901--78018975 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 28
78018891 TGATGTAATC
**
78018901 ATATTTTTAAAAAATAAAATAATAATTAT
1 ATATTTTT-AAAAATAAAATAATAAACAT
*
78018930 ATATTTTTAAAAATAATATTAA-AAACAT
1 ATATTTTTAAAAATAA-AATAATAAACAT
* *
78018958 ATAATTTTGAAAA-AAAAT
1 ATATTTTTAAAAATAAAAT
78018976 TATGTATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.05
27 2 0.05
28 23 0.59
29 12 0.31
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (28 bp):
ATATTTTTAAAAATAAAATAATAAACAT
Found at i:78027553 original size:47 final size:47
Alignment explanation
Indices: 78027483--78027705 Score: 190
Period size: 48 Copynumber: 4.7 Consensus size: 47
78027473 GAATAATGCT
* * *
78027483 GATGCCATGTCCCAGATATGGTCTTACACTGGCTCATCCATCA-AGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCCATCATAGCC
* * ** *
78027530 AATGCCATGTCCCAAACATGGTCTTACACTGAC-CATGGAAATCGA-GGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTC-T--CCATC-ATAGCC
* * * * *
78027579 GACGCCATGTCCCAGACATGATCTTACACTAGCTCTCGTC-TCATAGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTC--CATCATAGCC
*
78027627 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATAATATGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCCATCATA--GCC
78027675 GATG-CATGTCCCAAACAT-GTCTTACACTGGC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGC
78027706 ACACAAATAA
Statistics
Matches: 142, Mismatches: 24, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
45 1 0.01
46 20 0.14
47 44 0.31
48 45 0.32
49 31 0.22
50 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (47 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCCATCATAGCC
Found at i:78029519 original size:39 final size:39
Alignment explanation
Indices: 78029465--78029627 Score: 247
Period size: 39 Copynumber: 4.2 Consensus size: 39
78029455 TGTGAATGAA
78029465 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
78029504 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
78029543 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
78029582 TGTGC-AAGTTGTGATATCCGGGTTAAGTCCCTAAGGCATT
1 TGTGCGAA-TTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
78029622 TGTGCG
1 TGTGCG
78029628 GGTTACCATA
Statistics
Matches: 112, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 96 0.86
40 15 0.13
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:78032934 original size:54 final size:54
Alignment explanation
Indices: 78032852--78033035 Score: 278
Period size: 54 Copynumber: 3.4 Consensus size: 54
78032842 TTATAGCAGA
* * * *
78032852 ATTACCAATCTAGGTTAAATCCCTCATAACATAAATTTAATGAGTATTGTCGGG
1 ATTACCATTCCAGGCTAAATCCCTCATAACATAAATTTAAGGAGTATTGTCGGG
* * *
78032906 ATTACCATTCCATGCTAAATCCTTCATAACATAAATTTAAGGAGTATTGTCGAG
1 ATTACCATTCCAGGCTAAATCCCTCATAACATAAATTTAAGGAGTATTGTCGGG
* * *
78032960 ATTACCATTCCAGGCTAAATCCCTCATAGCATAAATTCAAGGAGTATTATCGGG
1 ATTACCATTCCAGGCTAAATCCCTCATAACATAAATTTAAGGAGTATTGTCGGG
78033014 ATTACCATTCCAGGCTAAATCC
1 ATTACCATTCCAGGCTAAATCC
78033036 TTTACAACGA
Statistics
Matches: 117, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 117 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (54 bp):
ATTACCATTCCAGGCTAAATCCCTCATAACATAAATTTAAGGAGTATTGTCGGG
Found at i:78042020 original size:2 final size:2
Alignment explanation
Indices: 78042013--78042049 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
78042003 ATTATAAAAG
*
78042013 TA TA TA TA CTA TA TA TA TA TA TA TA TT TA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78042050 CTAAAAAGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:78047560 original size:27 final size:26
Alignment explanation
Indices: 78047512--78047563 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
78047502 GCGAGGCTGC
*
78047512 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
78047538 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
78047564 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:78048044 original size:22 final size:23
Alignment explanation
Indices: 78048016--78048062 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
78048006 GGGAGGGTGT
78048016 CGTTTACACACCTGG-TTGATGA
1 CGTTTACACACCTGGTTTGATGA
78048038 CGTTTACACACCTGGTTTGATGA
1 CGTTTACACACCTGGTTTGATGA
78048061 CG
1 CG
78048063 ATTGATGACG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.32
Consensus pattern (23 bp):
CGTTTACACACCTGGTTTGATGA
Found at i:78062221 original size:43 final size:43
Alignment explanation
Indices: 78062110--78062272 Score: 136
Period size: 43 Copynumber: 3.8 Consensus size: 43
78062100 AGCTCCTACA
** * *
78062110 ATGCCAACGTCCCAGATGTGGTCTTACATGTAAA-GAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAAATCAAATA-CG
* * * *
78062153 ATGCC-ACTATCCTAAACAAGGTCTTACATGAAAATCAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGAAAATCAAATACG
* * *
78062196 ATGCCAATGTCCCAGACATGTTCTTACA-CATAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACATGGTCTTACATGA-AAATCA-AA-TACG
* *
78062240 ATGCCAACGTTCCAGACGTGGTCTTACATGAAA
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAA
78062273 GCACATATCG
Statistics
Matches: 93, Mismatches: 20, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
42 3 0.03
43 52 0.56
44 36 0.39
45 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAAAATCAAATACG
Found at i:78067622 original size:35 final size:35
Alignment explanation
Indices: 78067572--78067736 Score: 138
Period size: 35 Copynumber: 4.7 Consensus size: 35
78067562 CATAGGTAAG
* *
78067572 TACATGTAAGCTTATATTGAACTTGTATATTCGGC
1 TACATGTGAGCTTATATTGAATTTGTATATTCGGC
* * * **
78067607 TGCATGTGAGGTTATATTGAATTTGAATATTCGAT
1 TACATGTGAGCTTATATTGAATTTGTATATTCGGC
* *
78067642 TACATGTGAGTTTATATTGAATTTGTGTATTCGG-
1 TACATGTGAGCTTATATTGAATTTGTATATTCGGC
* * * * *
78067676 TCATATGTAAGGTTA-ACTTGAATGTGCATATTCGGC
1 T-ACATGTGAGCTTATA-TTGAATTTGTATATTCGGC
* *
78067712 TATATGTGATG-TTCTATTGAATTTG
1 TACATGTGA-GCTTATATTGAATTTG
78067737 AACTATAGGT
Statistics
Matches: 104, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
34 2 0.02
35 99 0.95
36 3 0.03
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (35 bp):
TACATGTGAGCTTATATTGAATTTGTATATTCGGC
Found at i:78067689 original size:70 final size:69
Alignment explanation
Indices: 78067572--78067736 Score: 165
Period size: 70 Copynumber: 2.4 Consensus size: 69
78067562 CATAGGTAAG
* * * * *
78067572 TACATGTAAGCTTATATTGAACTTGTATATTCGGCTGCATGTGAGGTTATA-TTGAATTTGAATA
1 TACATGTGAGTTTATATTGAATTTGTATATTCGGCT-CATGTAAGGTTA-ACTTGAATGTGAATA
*
78067636 TTCGAT
64 TTCGAC
* *
78067642 TACATGTGAGTTTATATTGAATTTGTGTATTCGG-TCATATGTAAGGTTAACTTGAATGTGCATA
1 TACATGTGAGTTTATATTGAATTTGTATATTCGGCTC--ATGTAAGGTTAACTTGAATGTGAATA
*
78067706 TTCGGC
64 TTCGAC
* *
78067712 TATATGTGA-TGTTCTATTGAATTTG
1 TACATGTGAGT-TTATATTGAATTTG
78067737 AACTATAGGT
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
68 1 0.01
69 3 0.04
70 76 0.95
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (69 bp):
TACATGTGAGTTTATATTGAATTTGTATATTCGGCTCATGTAAGGTTAACTTGAATGTGAATATT
CGAC
Found at i:78089639 original size:48 final size:48
Alignment explanation
Indices: 78089577--78089909 Score: 373
Period size: 48 Copynumber: 6.9 Consensus size: 48
78089567 AGGGTGATGT
*
78089577 GAGCCTGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
* * * * *
78089625 GAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCCGAATTTATATGT
1 GAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCGGCATTTATATGA
* * * ** *
78089673 GAGCCAATATAAGACCATGTTTGGAACATGGCATCGGCCTCGATATGT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
* *
78089721 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
** * * ** * *
78089769 GAGTTAGTGTAAGACCATGTCTGTG-ACATGGCATCGGCCTCGAAATGT
1 GAGCCAGTGTAAGACCATGTTTG-GAACATGGCATCGGCATTTATATGA
* * *
78089817 GAGCCAATGTAAGACCATATTTGGAACATGGCATAGGCATTTATATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
* * *
78089865 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATCTTAT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAT-TTAT
78089910 CCTTTTGTAT
Statistics
Matches: 232, Mismatches: 48, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
47 4 0.02
48 220 0.95
49 8 0.03
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGA
Found at i:78089833 original size:144 final size:144
Alignment explanation
Indices: 78089573--78089909 Score: 471
Period size: 144 Copynumber: 2.3 Consensus size: 144
78089563 TACTAGGGTG
*
78089573 ATGTGAGCCT-GTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
1 ATGTGAG-CTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCTAGTGTAA
** * *
78089637 GACCATGTCTAGGACATGGCATCCGAATTTATATGTGAGCCAATATAAGACCATGTTTGGAACAT
65 GACCATGTCTAGGACATGGCATCCGAATCGAAATGTGAGCCAATATAAGACCATATTTGGAACAT
* *
78089702 GGCATCGGCCTCGAT
130 GGCATAGGCATCGAT
*
78089717 ATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGTTAGTGTAAG
1 ATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCTAGTGTAAG
* ** *
78089782 ACCATGTCT-GTGACATGGCATCGGCCTCGAAATGTGAGCCAATGTAAGACCATATTTGGAACAT
66 ACCATGTCTAG-GACATGGCATCCGAATCGAAATGTGAGCCAATATAAGACCATATTTGGAACAT
**
78089846 GGCATAGGCATTTAT
130 GGCATAGGCATCGAT
* * * *
78089861 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATCTTAT
1 ATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACAT-TTAT
78089910 CCTTTTGTAT
Statistics
Matches: 172, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
143 3 0.02
144 165 0.96
145 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (144 bp):
ATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCTAGTGTAAG
ACCATGTCTAGGACATGGCATCCGAATCGAAATGTGAGCCAATATAAGACCATATTTGGAACATG
GCATAGGCATCGAT
Found at i:78093702 original size:20 final size:21
Alignment explanation
Indices: 78093663--78093702 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
78093653 GTTAAGAAGA
*
78093663 CACACGGGCGTGTCGCCCTTC
1 CACACGGGCATGTCGCCCTTC
*
78093684 CACATGGGCATGT-GCCCTT
1 CACACGGGCATGTCGCCCTT
78093703 ATCTGCTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (21 bp):
CACACGGGCATGTCGCCCTTC
Found at i:78094808 original size:42 final size:43
Alignment explanation
Indices: 78094761--78094874 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
78094751 GTGTGTTTTT
* *
78094761 GTGTAAGACCACGTCTGGGACGTTGGCATC-ATATTTGATTTC
1 GTGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTAC
* ** *
78094803 GTGTAAGACC-CTTTCTGGGACAATAGCATCGATATTTGATTAC
1 GTGTAAGACCAC-ATCTGGGACGTTGGCATCGATATTTGATTAC
* *
78094846 ATGTAAGACCACATCTGGGATGTTGGCAT
1 GTGTAAGACCACATCTGGGACGTTGGCAT
78094875 TGTATAAGCT
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.02
42 24 0.41
43 32 0.55
44 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTAC
Found at i:78095687 original size:44 final size:42
Alignment explanation
Indices: 78095615--78095711 Score: 124
Period size: 44 Copynumber: 2.3 Consensus size: 42
78095605 ATATGTGTTA
*
78095615 TCGTGTAAGACCACATTTGAGACGTTGGCATCTGT-TTATGATT
1 TCGTGTAAGACCACATTTGAGACATTGGCA-CTGTATT-TGATT
** *
78095658 TACGTGTAAGACCATGTTTGGGACATTGGCACTGTATTTGATT
1 T-CGTGTAAGACCACATTTGAGACATTGGCACTGTATTTGATT
78095701 TCGTGTAAGAC
1 TCGTGTAAGAC
78095712 TCTGTCTAGG
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
42 10 0.21
43 11 0.23
44 27 0.56
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (42 bp):
TCGTGTAAGACCACATTTGAGACATTGGCACTGTATTTGATT
Found at i:78095773 original size:43 final size:42
Alignment explanation
Indices: 78095616--78095778 Score: 143
Period size: 43 Copynumber: 3.8 Consensus size: 42
78095606 TATGTGTTAT
* * *
78095616 CGTGTAAGACCACATTTGAGACGTTGGCATCTGT-TTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT-TGTATT-TGA-TTA
* * * * *
78095660 CGTGTAAGACCATGTTTGGGACATTGGCACTGTATTTGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATTGTATTTGATTA
* *
78095702 CGTGTAAGACTC-TGTCTAGGACAG-TGGCATTGGTATTTGATTA
1 CGTGTAAGAC-CACGTCTGGGAC-GTTGGCATT-GTATTTGATTA
* *
78095745 CATGTAAGACCACGTCTGGGATGTTGGCATTGTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATTGTA
78095779 CGAGCTTTCT
Statistics
Matches: 98, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
42 31 0.32
43 40 0.41
44 27 0.28
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.35
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATTGTATTTGATTA
Found at i:78116114 original size:24 final size:24
Alignment explanation
Indices: 78116082--78116168 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
78116072 AATCTCAAAT
78116082 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
78116106 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
78116130 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
78116154 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
78116169 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:78116134 original size:48 final size:48
Alignment explanation
Indices: 78116082--78116190 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
78116072 AATCTCAAAT
** *
78116082 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
78116130 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
78116178 GCACTATGTGTGC
1 GCACTATGTGTGC
78116191 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:78116181 original size:24 final size:24
Alignment explanation
Indices: 78116082--78116190 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
78116072 AATCTCAAAT
*
78116082 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
78116106 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
78116130 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
78116154 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
78116178 GCACTATGTGTGC
1 GCACTATGTGTGC
78116191 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:78125958 original size:38 final size:38
Alignment explanation
Indices: 78125915--78126218 Score: 167
Period size: 38 Copynumber: 7.0 Consensus size: 38
78125905 TTTCAAATTA
*
78125915 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
*
78125953 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
*
78125994 AAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGG--TAT--A--T----CCACTTAGCACCACGTT
* * *
78126048 ACATGTTTAACCGTGATATATCCACTTAGCACCACATTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCAC-GT--T
* * *
78126089 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCATGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
*
78126133 ACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGTT
1 ACATG------TA----TAACCGTGGTATATCCACTTAGCACCACGTT
*
78126181 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
78126219 TTTTCATTCC
Statistics
Matches: 210, Mismatches: 20, Indels: 72
0.70 0.07 0.24
Matches are distributed among these distances:
38 78 0.37
39 2 0.01
40 2 0.01
41 3 0.01
42 4 0.02
43 2 0.01
44 4 0.02
45 6 0.03
46 6 0.03
47 34 0.16
48 42 0.20
49 3 0.01
50 3 0.01
51 2 0.01
52 1 0.00
53 1 0.00
54 1 0.00
56 1 0.00
57 15 0.07
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:78126014 original size:47 final size:47
Alignment explanation
Indices: 78125960--78126181 Score: 250
Period size: 48 Copynumber: 4.7 Consensus size: 47
78125950 GTTACATGTT
78125960 TAACCGTGGTATATCCACTTAGCACCACGTTAATAAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATAAATCAATATATG
* ** * ** *
78126007 TAACCGTGGCATATCCACTTAGCACCAC-TTAGCACCA-CGTTACATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATA-AATCAATATATG
* * *
78126053 TTTAACCGTGATATATCCACTTAGCACCACATTAATGAATCAATATATG
1 --TAACCGTGGTATATCCACTTAGCACCACGTTAATAAATCAATATATG
* * ** *
78126102 TAACCGTGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATAAATCAATATATG
*
78126150 TAATCGTGGTATATCCACTTAGCACCACGTTA
1 TAACCGTGGTATATCCACTTAGCACCACGTTA
78126182 CACGTATAAC
Statistics
Matches: 144, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
46 10 0.07
47 56 0.39
48 69 0.48
49 9 0.06
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAATAAATCAATATATG
Found at i:78126014 original size:85 final size:85
Alignment explanation
Indices: 78125922--78126138 Score: 308
Period size: 95 Copynumber: 2.4 Consensus size: 85
78125912 TTAACATGTA
*
78125922 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCACTTAGCACCA
*
78125987 CGTTAATAAATCAATATATG
66 CATTAATAAATCAATATATG
78126007 TAACCGTGGCATATCCACTTAGCACCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCA
1 TAACCGTGGC--AT--A--T----CCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCA
*
78126072 CTTAGCACCACATTAATGAATCAATATATG
56 CTTAGCACCACATTAATAAATCAATATATG
*
78126102 TAACCGTGGCATATCCACTTAGCACCATGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
78126139 ATCAATATGT
Statistics
Matches: 118, Mismatches: 4, Indels: 20
0.83 0.03 0.14
Matches are distributed among these distances:
85 32 0.27
87 2 0.02
89 2 0.02
91 2 0.02
93 2 0.02
95 78 0.66
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCACTTAGCACCA
CATTAATAAATCAATATATG
Found at i:78126074 original size:48 final size:48
Alignment explanation
Indices: 78125936--78126082 Score: 183
Period size: 48 Copynumber: 3.1 Consensus size: 48
78125926 CGTGGCATAT
78125936 CCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCA
1 CCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCA
** * ** * *
78125984 CCACGTTAATA-AATCAATATATG--TAACCGTGGCATATCCACTTAGCA
1 CCAC-TTAGCACCA-CGTTACATGTTTAACCGTGGTATATCCACTTAGCA
*
78126031 CCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCACTTAGCA
1 CCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCA
78126079 CCAC
1 CCAC
78126083 ATTAATGAAT
Statistics
Matches: 79, Mismatches: 15, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
46 10 0.13
47 28 0.35
48 31 0.39
49 10 0.13
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.28
Consensus pattern (48 bp):
CCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCA
Found at i:78126099 original size:95 final size:95
Alignment explanation
Indices: 78125936--78126128 Score: 359
Period size: 95 Copynumber: 2.0 Consensus size: 95
78125926 CGTGGCATAT
* *
78125936 CCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAATAAATCAA
1 CCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCACTTAGCACCACATTAATAAATCAA
78126001 TATATGTAACCGTGGCATATCCACTTAGCA
66 TATATGTAACCGTGGCATATCCACTTAGCA
*
78126031 CCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCACTTAGCACCACATTAATGAATCAA
1 CCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCACTTAGCACCACATTAATAAATCAA
78126096 TATATGTAACCGTGGCATATCCACTTAGCA
66 TATATGTAACCGTGGCATATCCACTTAGCA
78126126 CCA
1 CCA
78126129 TGTTACATGT
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (95 bp):
CCACTTAGCACCACGTTACATGTTTAACCGTGATATATCCACTTAGCACCACATTAATAAATCAA
TATATGTAACCGTGGCATATCCACTTAGCA
Found at i:78129790 original size:12 final size:12
Alignment explanation
Indices: 78129773--78129800 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
78129763 ACAGGTTTGG
78129773 CACGACCTAGCA
1 CACGACCTAGCA
78129785 CACGACCTAGCA
1 CACGACCTAGCA
78129797 CACG
1 CACG
78129801 GGCGTGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.43, G:0.18, T:0.07
Consensus pattern (12 bp):
CACGACCTAGCA
Found at i:78130719 original size:23 final size:23
Alignment explanation
Indices: 78130668--78130754 Score: 70
Period size: 23 Copynumber: 3.6 Consensus size: 23
78130658 TCAGCTCATA
*
78130668 AGAGCTTAGTGTTCTCAACTCGT
1 AGAGCTTACTGTTCTCAACTCGT
78130691 ACGAGCTTACTGTT-TCAGA-TCGT
1 A-GAGCTTACTGTTCTCA-ACTCGT
* * *
78130714 CAGAGCTTACTGTCCATCAGCTCAGG
1 -AGAGCTTACTGTTC-TCAACTC-GT
78130740 AGGAGCTTACTGTTC
1 A-GAGCTTACTGTTC
78130755 ATAGCTCGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
23 19 0.37
24 13 0.25
25 6 0.12
26 13 0.25
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.31
Consensus pattern (23 bp):
AGAGCTTACTGTTCTCAACTCGT
Found at i:78133206 original size:26 final size:29
Alignment explanation
Indices: 78133162--78133218 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 29
78133152 ACGATTGTTA
*
78133162 AAATTCTTCTAAAAG-AAAACTCA-AGAG
1 AAATTCTTCGAAAAGAAAAACTCATAGAG
78133189 AAATTCTT-GAAAAGAAAAACTCATAGAG
1 AAATTCTTCGAAAAGAAAAACTCATAGAG
78133217 AA
1 AA
78133219 TTTATTAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 5 0.19
27 16 0.59
28 6 0.22
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.21
Consensus pattern (29 bp):
AAATTCTTCGAAAAGAAAAACTCATAGAG
Found at i:78135661 original size:12 final size:12
Alignment explanation
Indices: 78135644--78135668 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78135634 CCTAGACACA
78135644 CGCCCGTGTGTC
1 CGCCCGTGTGTC
78135656 CGCCCGTGTGTC
1 CGCCCGTGTGTC
78135668 C
1 C
78135669 AACCGTGTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.44, G:0.32, T:0.24
Consensus pattern (12 bp):
CGCCCGTGTGTC
Found at i:78136580 original size:42 final size:43
Alignment explanation
Indices: 78136475--78136624 Score: 109
Period size: 42 Copynumber: 3.6 Consensus size: 43
78136465 ATATCCCAGA
* ** *
78136475 TATGGTCTTACATGGGATCTCATATCGATGCCAATAGCCCAGC
1 TATGGTCTTACACGAAATCTCATATCGATGCCAATAGCCCAAC
* * *
78136518 TATGGTCTTACAC-TATTCTCATATCGATTCC-AT-GTCCCAAAC
1 TATGGTCTTACACGAAATCTCATATCGATGCCAATAG-CCC-AAC
* *
78136560 -ATGGTCTTACACGAAATCTCATAAT-GATGCC-ATATCCTAGA-
1 TATGGTCTTACACGAAATCTCAT-ATCGATGCCAATAGCCCA-AC
*
78136601 TATAGTCTTACACGTAAA-CTCATA
1 TATGGTCTTACACG-AAATCTCATA
78136625 ACCCTAATGT
Statistics
Matches: 87, Mismatches: 12, Indels: 18
0.74 0.10 0.15
Matches are distributed among these distances:
40 1 0.01
41 19 0.22
42 50 0.57
43 17 0.20
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (43 bp):
TATGGTCTTACACGAAATCTCATATCGATGCCAATAGCCCAAC
Found at i:78141228 original size:27 final size:27
Alignment explanation
Indices: 78141193--78141363 Score: 150
Period size: 27 Copynumber: 6.3 Consensus size: 27
78141183 TGTAGGGCAG
* *
78141193 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
78141220 AATTTCCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
78141247 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* * *
78141274 AATTACCAAAACACCTCTGA-TTTGTGA
1 AATTACCAAAATACC-CTTAGTTTGTAA
*** * **
78141301 AATTATTGAAATACCC-TCGACCTGTAA
1 AATTACCAAAATACCCTTAG-TTTGTAA
* * *
78141328 AATTACTAAAATACCC-TCGACTTGTAA
1 AATTACCAAAATACCCTTAG-TTTGTAA
78141355 AATTACCAA
1 AATTACCAA
78141364 GTACCTTCGA
Statistics
Matches: 119, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
26 1 0.01
27 115 0.97
28 3 0.03
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAGTTTGTAA
Found at i:78141298 original size:54 final size:53
Alignment explanation
Indices: 78141193--78141363 Score: 166
Period size: 54 Copynumber: 3.2 Consensus size: 53
78141183 TGTAGGGCAG
* * *
78141193 AATTACCAAAATACCCTTGGTTTATAAAATTTCCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATA-CCCTGA-TTTGTAA
* *
78141247 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAACACCTCTGATTTGTGA
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACC-CTGATTTGTAA
*** * ** * *
78141301 AATTATTGAAATACCC-TCGACCTGTAAAATTACTAAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTTAG-TTTGTAAAATTACCAAAATACCCT-GATTTGTAA
78141355 AATTACCAA
1 AATTACCAA
78141364 GTACCTTCGA
Statistics
Matches: 95, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
53 6 0.06
54 88 0.93
55 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (53 bp):
AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTGATTTGTAA
Found at i:78141395 original size:27 final size:27
Alignment explanation
Indices: 78141365--78141746 Score: 382
Period size: 27 Copynumber: 14.2 Consensus size: 27
78141355 AATTACCAAG
* * *
78141365 TACCTTCGATTTACAGAGTTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
*
78141392 TACCCTCGATTTATAAAATTA-CTGTTT
1 TACCCTCGATTTACAAAATTATC-GTTT
78141419 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
*
78141446 TACCCTCGATTTACAAAATTA-CTATTT
1 TACCCTCGATTTACAAAATTATC-GTTT
78141473 TACCCTCGATTTA-AAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
* * * * * *
78141499 TATCGTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
*
78141526 TACCCTCGATTTACAAAATTA-CTATTT
1 TACCCTCGATTTACAAAATTATC-GTTT
78141553 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
* *
78141580 TACCCTCAATTTACAAAATTA-CTATTT
1 TACCCTCGATTTACAAAATTATC-GTTT
*
78141607 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
* *
78141634 TACCCTCAATTTACAAAATTA-CTATTT
1 TACCCTCGATTTACAAAATTATC-GTTT
* * * * *
78141661 TATCTTCTATTTACAGAATTA-CAATTT
1 TACCCTCGATTTACAAAATTATC-GTTT
** * * *
78141688 TACCCTCGATTTGTAGAATAACCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
* * * *
78141715 TACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTATCGTTT
78141742 TACCC
1 TACCC
78141747 CTAGGTGTTA
Statistics
Matches: 300, Mismatches: 44, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
26 25 0.08
27 271 0.90
28 4 0.01
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTATCGTTT
Found at i:78142021 original size:27 final size:26
Alignment explanation
Indices: 78141981--78142032 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
78141971 CTCGCTGCAA
*
78141981 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
*
78142008 TCTGGTGACTTCGCCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
78142033 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.29, G:0.21, T:0.33
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:78142267 original size:6 final size:6
Alignment explanation
Indices: 78142258--78142407 Score: 116
Period size: 6 Copynumber: 24.8 Consensus size: 6
78142248 TTGCATTCAC
* * * *
78142258 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG -TAACTA
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG AT-TCTG
78142307 ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG
1 AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * *
78142355 -TTACTA ATAT-TG ATTCTG ATTGTG ATTCTG -TTACTG ACTCTG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
78142403 ATTCT
1 ATTCT
78142408 CATTTTGGTT
Statistics
Matches: 116, Mismatches: 14, Indels: 28
0.73 0.09 0.18
Matches are distributed among these distances:
5 10 0.09
6 96 0.83
7 8 0.07
8 2 0.02
ACGTcount: A:0.21, C:0.16, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:78142319 original size:30 final size:30
Alignment explanation
Indices: 78142283--78142407 Score: 147
Period size: 30 Copynumber: 4.4 Consensus size: 30
78142273 CTGTCACGTA
* *
78142283 ATTCTGATTCTGATTCTGTAACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
78142313 ATTCTGATTCTGATTCTG----T--TACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
*
78142337 ATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
78142367 ATTCTGATTGTGATTCTGTTACTGACT-CTG
1 ATTCTGATTCTGATTCTGTTACT-AATACTG
78142397 ATTCTGATTCT
1 ATTCTGATTCT
78142408 CATTTTGGTT
Statistics
Matches: 82, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
24 22 0.27
26 1 0.01
28 1 0.01
30 56 0.68
31 2 0.02
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:78144337 original size:27 final size:27
Alignment explanation
Indices: 78144302--78144478 Score: 162
Period size: 27 Copynumber: 6.6 Consensus size: 27
78144292 TGTAGGGCAG
* *
78144302 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
78144329 AATTTCCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
78144356 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* * *
78144383 AATTACCAAAACACCTCTGA-TTTGTGA
1 AATTACCAAAATACC-CTTAGTTTGTAA
** * **
78144410 AATTACTGAAATACCC-TCGACCTGTAA
1 AATTACCAAAATACCCTTAG-TTTGTAA
* * *
78144437 AATTACTAAAATACCC-TCGACTTGTAA
1 AATTACCAAAATACCCTTAG-TTTGTAA
*
78144464 AATTACCAAAGTACC
1 AATTACCAAAATACC
78144479 TTCGATTTAC
Statistics
Matches: 126, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 122 0.97
28 3 0.02
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAGTTTGTAA
Found at i:78144384 original size:54 final size:54
Alignment explanation
Indices: 78144302--78144478 Score: 180
Period size: 54 Copynumber: 3.3 Consensus size: 54
78144292 TGTAGGGCAG
* * *
78144302 AATTACCAAAATACCCTTGGTTTATAAAATTTCCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGA-TTTGTAA
* * *
78144356 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAACACCTCTGATTTGTGA
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAA
** * ** * *
78144410 AATTACTGAAATACCC-TCGACCTGTAAAATTACTAAAATA-CCCTCGACTTGTAA
1 AATTACCAAAATACCCTTAG-TTTGTAAAATTACCAAAATACCCCT-GATTTGTAA
*
78144464 AATTACCAAAGTACC
1 AATTACCAAAATACC
78144479 TTCGATTTAC
Statistics
Matches: 101, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
53 5 0.05
54 95 0.94
55 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAA
Found at i:78144505 original size:27 final size:26
Alignment explanation
Indices: 78144475--78144911 Score: 462
Period size: 27 Copynumber: 16.2 Consensus size: 26
78144465 ATTACCAAAG
* *
78144475 TACCTTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTA-CGTTT
*
78144502 TACCCTCGATTTATAAAATTAC-TAGTT
1 TACCCTCGATTTACAAAATTACGT--TT
* *
78144529 TACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-GTTT
78144556 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTA-CGTTT
78144583 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTA-CGTTT
*
78144610 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-GTTT
78144637 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTA-CGTTT
*** * * *
78144664 TATTGTCGATTTATAGAATTACCTTTT
1 TACCCTCGATTTACAAAATTA-CGTTT
*
78144691 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-GTTT
*
78144718 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CGTTT
* *
78144745 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-GTTT
*
78144772 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTA-CGTTT
* *
78144799 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-GTTT
* * * *
78144826 TATCTTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTA-CGTTT
* * *
78144853 TACCCTCGATTTATAGAATAACTGTTT
1 TACCCTCGATTTACAAAATTAC-GTTT
* *
78144880 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CGTTT
78144907 TACCC
1 TACCC
78144912 CTAGGTGTTA
Statistics
Matches: 357, Mismatches: 38, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
25 1 0.00
26 6 0.02
27 343 0.96
28 6 0.02
29 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (26 bp):
TACCCTCGATTTACAAAATTACGTTT
Found at i:78144506 original size:81 final size:81
Alignment explanation
Indices: 78144421--78144751 Score: 227
Period size: 81 Copynumber: 4.1 Consensus size: 81
78144411 ATTACTGAAA
* * *
78144421 TACCCTCGACCTGTAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCTTCGATT
1 TACCCTCGACCTATAAAATTACTAAAATACCCTCGACTTATAAAATTACCAAAGTACCCTCGATT
*
78144486 TACAGAATTATCGTTT
66 TACAAAATTATCGTTT
** *** * * ***
78144502 TACCCTCGATTTATAAAATTACTAGTTTACCCTCGATTTATAAAATTACTATTTTACCCTCGATT
1 TACCCTCGACCTATAAAATTACTAAAATACCCTCGACTTATAAAATTACCAAAGTACCCTCGATT
78144567 TACAAAATTATCGTTT
66 TACAAAATTATCGTTT
** * ** * * * ***
78144583 TACCCTCGATTTACAAAATTATCGT--TTTACCCTCGATTTACAAAATTACTATTTTACCCTCGA
1 TACCCTCGACCTATAAAATTA-C-TAAAATACCCTCGACTTATAAAATTACCAAAGTACCCTCGA
*
78144646 TTTACAAAATTACCGTTT
64 TTTACAAAATTATCGTTT
*** ** * *** * * * ***
78144664 TATTGTCGATTTATAGAATTACCT-TTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGAT
1 TACCCTCGACCTATAAAATTA-CTAAAATACCCTCGACTTATAAAATTACCAAAGTACCCTCGAT
* *
78144728 TTACAAAATTACCATTT
65 TTACAAAATTATCGTTT
78144745 TACCCTC
1 TACCCTC
78144752 AATTTACAAA
Statistics
Matches: 220, Mismatches: 27, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.00
81 217 0.99
82 1 0.00
83 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (81 bp):
TACCCTCGACCTATAAAATTACTAAAATACCCTCGACTTATAAAATTACCAAAGTACCCTCGATT
TACAAAATTATCGTTT
Found at i:78144757 original size:81 final size:80
Alignment explanation
Indices: 78144475--78144911 Score: 543
Period size: 81 Copynumber: 5.4 Consensus size: 80
78144465 ATTACCAAAG
* * * * *
78144475 TACCTTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAAAATTACTAGTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAAAATTACT-TTTTACCCTCGATT
*
78144540 TATAAAATTACTATTT
65 TACAAAATTACTATTT
* * * *
78144556 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAAAATTA-CTTTTTACCCTCGATT
78144621 TACAAAATTACTATTT
65 TACAAAATTACTATTT
* *** *
78144637 TACCCTCGATTTACAAAATTACCGTTTTATTGTCGATTTATAGAATTACCTTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAAAATTA-CTTTTTACCCTCGATT
78144702 TACAAAATTACTATTT
65 TACAAAATTACTATTT
* *
78144718 TACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAAAATTACT-TTTTACCCTCGATT
* *
78144783 TACAGAATTA-TCGTTT
65 TACAAAATTACT-ATTT
* * * * * *
78144799 TACCCTCAATTTACAAAATTACTATTTTATCTTCGATTTATAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAAAATTA-CTTTTTACCCTCGATT
* * * *
78144864 TATAGAATAACTGTTT
65 TACAAAATTACTATTT
*
78144880 TACCCTCGATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTACAAAATTACCATTTTACCC
78144912 CTAGGTGTTA
Statistics
Matches: 313, Mismatches: 38, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
80 3 0.01
81 307 0.98
82 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAAAATTACTTTTTACCCTCGATTT
ACAAAATTACTATTT
Found at i:78145186 original size:27 final size:26
Alignment explanation
Indices: 78145146--78145197 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
78145136 CTCGCTGCAA
*
78145146 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
*
78145173 TCTGGTGACTTCGCCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
78145198 GCAGCCTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.29, G:0.21, T:0.33
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:78145437 original size:6 final size:6
Alignment explanation
Indices: 78145428--78145577 Score: 125
Period size: 6 Copynumber: 24.8 Consensus size: 6
78145418 TTGCATTCAC
*
78145428 ATTCTG ATTCTG ATTCTG --TCATG TAATTCTG ATTCTG ATTCTG -TTACTA
1 ATTCTG ATTCTG ATTCTG ATTC-TG --ATTCTG ATTCTG ATTCTG ATT-CTG
* *
78145477 ATACTG ATTCTG ATTCTG ATTTTG -TTACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * *
78145525 -TTACTA ATAT-TA ATTCTG ATTATG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
78145573 ATTCT
1 ATTCT
78145578 CATTTTGGTT
Statistics
Matches: 119, Mismatches: 10, Indels: 30
0.75 0.06 0.19
Matches are distributed among these distances:
4 2 0.02
5 11 0.09
6 95 0.80
7 6 0.05
8 3 0.03
9 2 0.02
ACGTcount: A:0.21, C:0.15, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:78145489 original size:30 final size:30
Alignment explanation
Indices: 78145453--78145577 Score: 154
Period size: 30 Copynumber: 4.4 Consensus size: 30
78145443 CTGTCATGTA
78145453 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
*
78145483 ATTCTGATTCTGA-T-T-TT-GT--TACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
78145507 ATTCTGATTCTGATTCTGTTACTAATATTA
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* * *
78145537 ATTCTGATTATGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
78145567 ATTCTGATTCT
1 ATTCTGATTCT
78145578 CATTTTGGTT
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
24 18 0.23
25 1 0.01
26 2 0.03
27 4 0.05
28 2 0.03
29 1 0.01
30 51 0.65
ACGTcount: A:0.22, C:0.14, G:0.14, T:0.50
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:78156162 original size:28 final size:28
Alignment explanation
Indices: 78156122--78156200 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
78156112 GCAATCAAAT
* * *
78156122 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
78156150 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
78156178 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
78156201 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:78158309 original size:30 final size:30
Alignment explanation
Indices: 78158275--78158335 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
78158265 TCCTTAACTC
78158275 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * * *
78158305 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
78158335 A
1 A
78158336 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:78162323 original size:8 final size:9
Alignment explanation
Indices: 78162303--78162335 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
78162293 GTTTTCCTTC
78162303 TTTTTGTAT
1 TTTTTGTAT
78162312 TTTTTGTAT
1 TTTTTGTAT
78162321 TTTTT-TAGT
1 TTTTTGTA-T
78162330 TTTTTG
1 TTTTTG
78162336 ATCACTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 20 0.91
ACGTcount: A:0.09, C:0.00, G:0.12, T:0.79
Consensus pattern (9 bp):
TTTTTGTAT
Found at i:78165200 original size:20 final size:20
Alignment explanation
Indices: 78165172--78165225 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
78165162 TGGTATAGGA
78165172 TTACACTTCGGTGCTTCCGT
1 TTACACTTCGGTGCTTCCGT
* * *
78165192 TTGCACTTCAGTGCTTCTGT
1 TTACACTTCGGTGCTTCCGT
*
78165212 TTACACTTTGGTGC
1 TTACACTTCGGTGC
78165226 CTTTGTTACA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.11, C:0.26, G:0.20, T:0.43
Consensus pattern (20 bp):
TTACACTTCGGTGCTTCCGT
Found at i:78165921 original size:100 final size:100
Alignment explanation
Indices: 78165742--78165924 Score: 278
Period size: 100 Copynumber: 1.8 Consensus size: 100
78165732 GATTAATTAA
* * *
78165742 AAGCTTACACTATTCAGCCATTTTGGTAGTTTTCATATATTTTTTTTGGGATGTGGCATATATAT
1 AAGCTCACACTATCCAGCAATTTTGGTAGTTTT-ATATATTTTTTTTGGGATGTGGCATATATAT
*
78165807 AGGTGTTTTGTTGTAAATGTGTGATGGATTGACTAG
65 AGGTGTTTTATTGTAAATGTGTGATGGATTGACTAG
* * *
78165843 AAGCTCACACTATCCAGTAATTTTGGTAGTTTT-TGTATTTTGTTTTGGGATGTGGCATGTATAT
1 AAGCTCACACTATCCAGCAATTTTGGTAGTTTTATATATTTT-TTTTGGGATGTGGCATATATAT
78165907 AGGTGTTTTATTGTAAAT
65 AGGTGTTTTATTGTAAAT
78165925 ATGGAAATGT
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
99 7 0.09
100 38 0.51
101 29 0.39
ACGTcount: A:0.23, C:0.09, G:0.22, T:0.45
Consensus pattern (100 bp):
AAGCTCACACTATCCAGCAATTTTGGTAGTTTTATATATTTTTTTTGGGATGTGGCATATATATA
GGTGTTTTATTGTAAATGTGTGATGGATTGACTAG
Found at i:78170171 original size:46 final size:47
Alignment explanation
Indices: 78170089--78170200 Score: 163
Period size: 46 Copynumber: 2.4 Consensus size: 47
78170079 ATAAGTACCT
* *
78170089 CCATAGCCAAATCAAGGTAACTTATCCCAGAGTACCTATACCATGGC
1 CCATAGCCAAATCAAGGTAACTCATCCCAGAATACCTATACCATGGC
* * * *
78170136 CCGT-GCCAAATCAAGGTAACTCCTCTCTGAATACCTATACCATGGC
1 CCATAGCCAAATCAAGGTAACTCATCCCAGAATACCTATACCATGGC
78170182 CCATAGCCAAATCAAGGTA
1 CCATAGCCAAATCAAGGTA
78170201 TTATTCGCAC
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 40 0.70
47 17 0.30
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.21
Consensus pattern (47 bp):
CCATAGCCAAATCAAGGTAACTCATCCCAGAATACCTATACCATGGC
Found at i:78173115 original size:40 final size:40
Alignment explanation
Indices: 78173060--78173140 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
78173050 GTGCTTTACC
78173060 TAGTGATATGGAGAATCCGAGGAATCTAGGAAAAGAGCAT
1 TAGTGATATGGAGAATCCGAGGAATCTAGGAAAAGAGCAT
78173100 TAGTGATATGGAGAATCCGAGGAATCTAGGAAAAGAGCAT
1 TAGTGATATGGAGAATCCGAGGAATCTAGGAAAAGAGCAT
78173140 T
1 T
78173141 GTAAAGCATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.40, C:0.10, G:0.30, T:0.21
Consensus pattern (40 bp):
TAGTGATATGGAGAATCCGAGGAATCTAGGAAAAGAGCAT
Found at i:78188053 original size:47 final size:47
Alignment explanation
Indices: 78187984--78188254 Score: 151
Period size: 48 Copynumber: 5.7 Consensus size: 47
78187974 TATAATGCCA
**
78187984 ATGCCATGTCGTAGACATGGTCTTACACTGGCTCATC-CATCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACAT-AAGTCG
* * * *
78188031 ATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCGAAATTGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ACA-T-AAGTCG
** * * * *
78188080 AAACCATGTCCCGGAGATGGTCTTACACTAGCTC-TCACATATCCGTACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATA--AGT--CG
* * * * * * *
78188130 ATGCCATGTCCCAGACATGGTCTTACATTGACACCTC-TATACGTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATAAGT--CG
* * * * * * * *
78188178 ATGCCATGTCTCAGACATAGTCTTACACTGACACATCTCGT-AGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATAAGTCG
*
78188224 ATG-CATGTCCCAGATAT-GTCTTACACTGGCT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCT
78188255 TACATCTCGA
Statistics
Matches: 175, Mismatches: 39, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
44 12 0.07
45 12 0.07
46 9 0.05
47 31 0.18
48 43 0.25
49 35 0.20
50 31 0.18
51 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATAAGTCG
Found at i:78188193 original size:48 final size:45
Alignment explanation
Indices: 78188130--78188296 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 45
78188120 ATCCGTACCG
* *
78188130 ATGCCATGTCCCAGACATGGTCTTACATTGACACCTCTATACGT-GCCA
1 ATGCCATGTCCCAGACAT-GTCTTACACTGACACATC--T-CGTAGCCA
*
78188178 ATGCCATGTCTCAGACATAGTCTTACACTGACACATCTCGTAGCCA
1 ATGCCATGTCCCAGACAT-GTCTTACACTGACACATCTCGTAGCCA
* *
78188224 ATG-CATGTCCCAGATATGTCTTACACTGGCTTACATCTCG-AGGCCA
1 ATGCCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGTA-GCCA
*
78188270 ATG-CATGTCCCAGACATGACTTACACT
1 ATGCCATGTCCCAGACATGTCTTACACT
78188297 AGCACACAAA
Statistics
Matches: 106, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
44 12 0.11
45 16 0.15
46 45 0.42
48 33 0.31
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (45 bp):
ATGCCATGTCCCAGACATGTCTTACACTGACACATCTCGTAGCCA
Found at i:78201095 original size:27 final size:27
Alignment explanation
Indices: 78201037--78201147 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
78201027 AGCATGACTG
* * * *
78201037 CCAGAACAAATAA-TGTGACAGTGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
78201063 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
78201090 CTAGAACAGAT-ATATGTGGCAGTGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
78201117 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
78201144 CCAG
1 CCAG
78201148 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 14 0.19
27 56 0.78
28 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:78201120 original size:54 final size:53
Alignment explanation
Indices: 78201039--78201144 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 53
78201029 CATGACTGCC
*
78201039 AGAACAAATAATGTGACAGTGTCACCAGAACAGATAATTGTGGCAGAGCCACT
1 AGAACAAATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCACT
* * * *
78201092 AGAACAGATATATGTGGCAGTGCCACCAGATCAGATAATTGTGGCATAGCCAC
1 AGAACAAATA-ATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCAC
78201145 CAGGACGCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 9 0.19
54 38 0.81
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (53 bp):
AGAACAAATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCACT
Found at i:78202616 original size:24 final size:24
Alignment explanation
Indices: 78202581--78202633 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
78202571 CCAACACCGT
*
78202581 TCTCCCTAATCAGCTTATAAATCC
1 TCTCCCTAATCAGCTCATAAATCC
* *
78202605 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTAATCAGCTCATAAATCC
78202629 TCTCC
1 TCTCC
78202634 TGACAGCCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.23, C:0.40, G:0.04, T:0.34
Consensus pattern (24 bp):
TCTCCCTAATCAGCTCATAAATCC
Found at i:78211871 original size:48 final size:49
Alignment explanation
Indices: 78211787--78211881 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 49
78211777 TTCAAACCTC
* *
78211787 TTGCACATGATAGCTTCTGTAGATCCACACTCCCGTGCATGTTTACTGA
1 TTGCACATGATAGCTTCTGTAGATACACACTCCCGTGCATATTTACTGA
* *
78211836 TTGCACATGATA-CTTCTGTAGATACGCACTTCCGTGCATATTTACT
1 TTGCACATGATAGCTTCTGTAGATACACACTCCCGTGCATATTTACT
78211882 AAGTCTTACA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 30 0.71
49 12 0.29
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (49 bp):
TTGCACATGATAGCTTCTGTAGATACACACTCCCGTGCATATTTACTGA
Found at i:78214085 original size:43 final size:42
Alignment explanation
Indices: 78214026--78214143 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 42
78214016 GACAAGTACA
* * *
78214026 ATGCCGACGTCTCAGACATGGTCTTACATGTAATTCAG-TATCG
1 ATGCCGATGTCCCAGACATGGTCTTACACGTAATT-AGATA-CG
** * *
78214069 ATGCCTCTGTCCCAGACAGGGTCTTACACGAAATTAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGTAATTAGATACG
* *
78214111 ATGTCGATGTCCTAGACATGGTCTTACACGTAA
1 ATGCCGATGTCCCAGACATGGTCTTACACGTAA
78214144 ATCTTGAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
42 31 0.51
43 30 0.49
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (42 bp):
ATGCCGATGTCCCAGACATGGTCTTACACGTAATTAGATACG
Found at i:78223282 original size:21 final size:21
Alignment explanation
Indices: 78223225--78223284 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
78223215 CCCTTGAAAT
* *
78223225 AGGGC-ACACGACCGTCTGGA
1 AGGGCAACACGCCCGTGTGGA
78223245 AGGG-ACACACGCCCGTGTGGA
1 AGGGCA-ACACGCCCGTGTGGA
78223266 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
78223285 CCATTATGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 4 0.11
21 30 0.86
22 1 0.03
ACGTcount: A:0.23, C:0.30, G:0.37, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:78223478 original size:12 final size:12
Alignment explanation
Indices: 78223461--78223490 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
78223451 GCCATGACAT
78223461 GCCCGTGTCTTA
1 GCCCGTGTCTTA
78223473 GCCCGTGTCTTA
1 GCCCGTGTCTTA
78223485 GCCCGT
1 GCCCGT
78223491 TTCTAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.37, G:0.27, T:0.30
Consensus pattern (12 bp):
GCCCGTGTCTTA
Found at i:78223961 original size:60 final size:60
Alignment explanation
Indices: 78223889--78224008 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
78223879 ATTCAACCAT
78223889 GCCAACAATTCCACATTCATGAAAGACTAGCTTGCATTCACATAATAACTTTCAACACTA
1 GCCAACAATTCCACATTCATGAAAGACTAGCTTGCATTCACATAATAACTTTCAACACTA
*
78223949 GCCAACAATTCCACATTCATGAAAGACTAGCTTGCATTCACATAATAACTTTCAATACTA
1 GCCAACAATTCCACATTCATGAAAGACTAGCTTGCATTCACATAATAACTTTCAACACTA
78224009 TCCATTTTCC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.28
Consensus pattern (60 bp):
GCCAACAATTCCACATTCATGAAAGACTAGCTTGCATTCACATAATAACTTTCAACACTA
Found at i:78224601 original size:47 final size:48
Alignment explanation
Indices: 78224526--78224659 Score: 146
Period size: 47 Copynumber: 2.8 Consensus size: 48
78224516 AGGGTATAAT
* * * *
78224526 GTCGATGCCATGTCACAGACCTATTCTTACACTGGCTCATC-CATCAA
1 GTCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCATCAAATCAA
* *
78224573 GTCGATGCCATGTCCCAGACATAGTCTTACACTGACT-ATCGAAATCGA
1 GTCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCATC-AAATCAA
* * * *
78224621 GGCTGACGCCATGTCCCAGACATGGTCTTACACTAGCTC
1 GTC-GATGCCATGTCCCAGACATAGTCTTACACTGGCTC
78224660 TCACATTCCT
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
46 3 0.04
47 33 0.46
48 6 0.08
49 30 0.42
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (48 bp):
GTCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCATCAAATCAA
Found at i:78238021 original size:40 final size:40
Alignment explanation
Indices: 78237976--78238142 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
78237966 CGGAATATAA
78237976 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
78238016 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
78238056 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
78238096 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
78238135 CCGGATAT
1 CCGGATAT
78238143 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:78246019 original size:40 final size:40
Alignment explanation
Indices: 78245974--78246140 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
78245964 CGGAATATAA
78245974 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
78246014 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
78246054 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
78246094 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
78246133 CCGGATAT
1 CCGGATAT
78246141 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:78246986 original size:17 final size:19
Alignment explanation
Indices: 78246963--78247008 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
78246953 AAGAAGCATG
78246963 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
78246981 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
78246999 AATCATGCTC
1 AATCATGCTC
78247009 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:78259308 original size:49 final size:49
Alignment explanation
Indices: 78259247--78259602 Score: 567
Period size: 49 Copynumber: 7.3 Consensus size: 49
78259237 ATGTATGAGA
*
78259247 TATATATATGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
78259296 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
78259345 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
78259394 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
78259443 TATATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
78259492 CATATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
78259541 --TATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAATGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
78259588 TATA-A-ATGTGATAAG
1 TATATATATGTGATAAG
78259603 TTCCGAAGGG
Statistics
Matches: 290, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
47 53 0.18
48 1 0.00
49 236 0.81
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:78266670 original size:21 final size:21
Alignment explanation
Indices: 78266646--78266721 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
78266636 CTAGAAACCA
78266646 TGTGATCTGAACTCATTGAGT
1 TGTGATCTGAACTCATTGAGT
* ** *
78266667 TGTGGTCTGAGTTC-TTGATAT
1 TGTGATCTGAACTCATTGA-GT
*
78266688 ATGTGACATCTAAACTCATTGAGT
1 -TGTG--ATCTGAACTCATTGAGT
*
78266712 TGTGGTCTGA
1 TGTGATCTGA
78266722 GTTCATGATG
Statistics
Matches: 39, Mismatches: 11, Indels: 10
0.65 0.18 0.17
Matches are distributed among these distances:
20 4 0.10
21 16 0.41
22 4 0.10
23 4 0.10
24 7 0.18
25 4 0.10
ACGTcount: A:0.22, C:0.13, G:0.25, T:0.39
Consensus pattern (21 bp):
TGTGATCTGAACTCATTGAGT
Found at i:78266707 original size:45 final size:45
Alignment explanation
Indices: 78266650--78266737 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
78266640 AAACCATGTG
* *
78266650 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCTTGATATATGTGAC
1 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
*
78266695 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATGTATGTG
1 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTG
78266738 GCACATGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.23, C:0.12, G:0.25, T:0.40
Consensus pattern (45 bp):
ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
Found at i:78270223 original size:2 final size:2
Alignment explanation
Indices: 78270218--78270243 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
78270208 TATATATATA
78270218 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
78270244 GCTTAGCCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:78270400 original size:20 final size:20
Alignment explanation
Indices: 78270371--78270413 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
78270361 TTCAGAACAT
* *
78270371 ATCTATTTAACAGATATCCC
1 ATCTACTTAACAGATATCAC
78270391 ATCTACTTAACAGATATCAC
1 ATCTACTTAACAGATATCAC
78270411 ATC
1 ATC
78270414 AAATATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.33
Consensus pattern (20 bp):
ATCTACTTAACAGATATCAC
Found at i:78276376 original size:58 final size:57
Alignment explanation
Indices: 78276230--78276383 Score: 195
Period size: 58 Copynumber: 2.7 Consensus size: 57
78276220 TTTTAATAGG
* * * *
78276230 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAATTATATTTTAACATA
1 ATTATTATTAAATATAATTTAA-AAAAATAATATATAATTTAATAAAATTTTAACATA
* *
78276288 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAATATAATTTAAAAAAATAATATATAATTTAATAAAATT-TTAACATA
*
78276346 ATTATTATTATAT-TAA-TTAAAAAATCATAATATATAAT
1 ATTATTATTAAATATAATTTAAAAAA--ATAATATATAAT
78276384 ACTATAAAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
56 7 0.08
57 26 0.31
58 52 0.61
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (57 bp):
ATTATTATTAAATATAATTTAAAAAAATAATATATAATTTAATAAAATTTTAACATA
Found at i:78279803 original size:40 final size:39
Alignment explanation
Indices: 78279735--78279906 Score: 258
Period size: 39 Copynumber: 4.4 Consensus size: 39
78279725 GGACTTAGCC
*
78279735 CGGGACTTAGCCCAGT-TAGTAACTCGCACAAATGCCTT
1 CGGGACTTAGCCCGGTATAGTAACTCGCACAAATGCCTT
78279773 CGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTT
1 CGGGACTTAGCCCGG-TATAGTAACTCGCACAAATGCCTT
*
78279813 CGGGACTTAGCCCGATATAGTAACTCGCACAAATGCCTT
1 CGGGACTTAGCCCGGTATAGTAACTCGCACAAATGCCTT
* ** *
78279852 CGGG-CTTAGCCCGGAATTAGCCACTAGCACAAATGCCTT
1 CGGGACTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTT
78279891 CGGGACTTAGCCCGGT
1 CGGGACTTAGCCCGGT
78279907 TATCAATCCG
Statistics
Matches: 122, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
38 24 0.20
39 52 0.43
40 46 0.38
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
CGGGACTTAGCCCGGTATAGTAACTCGCACAAATGCCTT
Found at i:78281117 original size:14 final size:14
Alignment explanation
Indices: 78281095--78281125 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
78281085 AACATGAGAG
*
78281095 CTTTTTTTTTCTTT
1 CTTTCTTTTTCTTT
78281109 CTTTCTTTTTCTTT
1 CTTTCTTTTTCTTT
78281123 CTT
1 CTT
78281126 CTATTCGGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
CTTTCTTTTTCTTT
Found at i:78281131 original size:57 final size:56
Alignment explanation
Indices: 78281047--78281174 Score: 213
Period size: 57 Copynumber: 2.3 Consensus size: 56
78281037 CTCAAAGCTC
*
78281047 TTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTTT
1 TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTTT
*
78281103 TTCTTTCTTTCTTTTTCTTTCTTCTATTCGGTCAAGAACAACATGAGAGCTTTTTTT
1 TT-TTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTTT
78281160 TTTCTT-TTTCTTTTT
1 TTT-TTCTTTCTTTTT
78281175 TCATCATCAT
Statistics
Matches: 68, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
56 12 0.18
57 56 0.82
ACGTcount: A:0.16, C:0.20, G:0.09, T:0.55
Consensus pattern (56 bp):
TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTTT
Found at i:78286592 original size:93 final size:93
Alignment explanation
Indices: 78286463--78286634 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
78286453 CGCCCATAAG
* * *
78286463 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78286528 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
78286556 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78286621 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
78286635 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:78286631 original size:46 final size:46
Alignment explanation
Indices: 78286456--78286631 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
78286446 TGTAACCCGC
* * * *
78286456 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
78286502 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
78286552 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
78286595 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
78286632 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 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 62 0.56
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:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:78286650 original size:46 final size:46
Alignment explanation
Indices: 78286505--78286643 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
78286495 TTCGCATCCA
78286505 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
78286553 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
78286598 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
78286644 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:78290556 original size:40 final size:40
Alignment explanation
Indices: 78290512--78290699 Score: 263
Period size: 40 Copynumber: 4.7 Consensus size: 40
78290502 GCTACTAGCT
*
78290512 CAAATGCCTTCGGGACTTAGCTCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
78290552 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
78290592 CAAATGCCTTTGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * ** ** *
78290632 CAAATGCCTTCAGG-CTTAGCTC-GAAATTAGCCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
78290671 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
78290700 CAATCCGAAT
Statistics
Matches: 131, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
38 3 0.02
39 29 0.22
40 97 0.74
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:78291903 original size:49 final size:50
Alignment explanation
Indices: 78291839--78291949 Score: 215
Period size: 49 Copynumber: 2.2 Consensus size: 50
78291829 CTCTTTTTCC
78291839 TTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTTTT
1 TTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTTTT
78291889 TTCTTTTT-TTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTTTT
1 TTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTTTT
78291938 TTCTTTTTCTTT
1 TTCTTTTTCTTT
78291950 TTTCATCATC
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
49 49 0.82
50 11 0.18
ACGTcount: A:0.18, C:0.19, G:0.11, T:0.52
Consensus pattern (50 bp):
TTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTTTT
Found at i:78295148 original size:32 final size:27
Alignment explanation
Indices: 78295066--78295149 Score: 118
Period size: 27 Copynumber: 3.1 Consensus size: 27
78295056 AGGAAGCGTC
*
78295066 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
*
78295093 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
78295120 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
78295147 CTG
1 CTG
78295150 CTGACTTCGT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 7 0.13
27 44 0.85
28 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:78299576 original size:27 final size:27
Alignment explanation
Indices: 78299536--78299622 Score: 106
Period size: 27 Copynumber: 3.2 Consensus size: 27
78299526 AGGAAGCGTC
* *
78299536 CTGGTGGCTATGCCACAATTATTTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
78299563 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
78299590 TTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
78299617 CTGGTG
1 CTGGTG
78299623 ACTTCGTCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
26 8 0.16
27 42 0.82
28 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:78301283 original size:42 final size:44
Alignment explanation
Indices: 78301169--78301276 Score: 129
Period size: 44 Copynumber: 2.5 Consensus size: 44
78301159 TATGTGTTAT
78301169 CGTGTAAGACCAC-GTCTGGGACGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACC-CTGTCTGGGACGTTGGCATCGACTTATGATTTA
*
78301213 CGTGTAAGACCACCT-T-TGGGACGTTGGCATCATAC-T-TGATTTA
1 CGTGTAAGA-C-CCTGTCTGGGACGTTGGCATC-GACTTATGATTTA
78301256 -GTGTAAGACCCTGTCTGGGAC
1 CGTGTAAGACCCTGTCTGGGAC
78301277 AGTGGCACTG
Statistics
Matches: 57, Mismatches: 1, Indels: 14
0.79 0.01 0.19
Matches are distributed among these distances:
40 3 0.05
41 2 0.04
42 14 0.25
43 7 0.12
44 25 0.44
45 5 0.09
46 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (44 bp):
CGTGTAAGACCCTGTCTGGGACGTTGGCATCGACTTATGATTTA
Found at i:78301296 original size:43 final size:43
Alignment explanation
Indices: 78301169--78301265 Score: 135
Period size: 44 Copynumber: 2.3 Consensus size: 43
78301159 TATGTGTTAT
* * *
78301169 CGTGTAAGACCACGTCTGGGACGTTGGCATC-GACTTATGATTTA
1 CGTGTAAGACCACCTTTGGGACGTTGGCATCATAC-T-TGATTTA
78301213 CGTGTAAGACCACCTTTGGGACGTTGGCATCATACTTGATTTA
1 CGTGTAAGACCACCTTTGGGACGTTGGCATCATACTTGATTTA
78301256 -GTGTAAGACC
1 CGTGTAAGACC
78301266 CTGTCTGGGA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
42 10 0.20
43 7 0.14
44 30 0.61
45 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACCTTTGGGACGTTGGCATCATACTTGATTTA
Found at i:78310260 original size:48 final size:49
Alignment explanation
Indices: 78310157--78310382 Score: 283
Period size: 48 Copynumber: 4.6 Consensus size: 49
78310147 ATCTGATACG
* * * *
78310157 CATAGTAGGCTGCACATAGTACTACACATGCGACCAATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACA
*
78310206 CGTAGTAGCCTGCACTTAGTACTACACAC-TGACCAATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACA
** * *
78310254 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACA
* * * * *
78310304 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACA
*
78310355 CATAGTAGCCTGCACTTTGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
78310383 TGCGACCTCA
Statistics
Matches: 153, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
48 46 0.30
49 30 0.20
50 42 0.27
51 34 0.22
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACA
Found at i:78310390 original size:101 final size:98
Alignment explanation
Indices: 78310153--78310390 Score: 325
Period size: 101 Copynumber: 2.4 Consensus size: 98
78310143 AGCTATCTGA
* * ** *
78310153 TACGCATAGTAGGCTGCACATAGTACTACACATGCGACC-AATTATCCGGTACACGTAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTAGTAGCCT
78310217 GCACTTAGTACTACACACTGACCAATTATCCGG
66 GCACTTAGTACTACACACTGACCAATTATCCGG
* * * *
78310250 TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTAGTAGCCT
* * *
78310315 GCACTTAGTACTACACACGTGATCACAGTTTTCGGG
66 GCACTTAGTACTACACAC-TGA-C-CAATTATCCGG
*
78310351 TACGCATAGTAGCCTGCACTTTGTACTACACATGCGACCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
78310391 CAAAATAGAT
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
97 34 0.28
98 39 0.32
99 3 0.02
100 1 0.01
101 44 0.36
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (98 bp):
TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTAGTAGCCT
GCACTTAGTACTACACACTGACCAATTATCCGG
Done.