Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 178 of 295
Found at i:56421052 original size:65 final size:65
Alignment explanation
Indices: 56420956--56421085 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
56420946 GCATGGTTCT
56420956 ATTTTTCTCTGGTATTTTGTTATATTCTGCCTATTGAGAATCGATGAGAAATTGTGTATGGTGGA
1 ATTTTTCTCTGGTATTTTGTTATATTCTGCCTATTGAGAATCGATGAGAAATTGTGTATGGTGGA
*
56421021 ATTTTTCTCTGGTATTTTGTTATATTCTGCCTATTGGGAATCGATGAGAAATTGTGTATGGTGGA
1 ATTTTTCTCTGGTATTTTGTTATATTCTGCCTATTGAGAATCGATGAGAAATTGTGTATGGTGGA
56421086 TTTCCTTTCT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.22, C:0.09, G:0.24, T:0.45
Consensus pattern (65 bp):
ATTTTTCTCTGGTATTTTGTTATATTCTGCCTATTGAGAATCGATGAGAAATTGTGTATGGTGGA
Found at i:56423398 original size:49 final size:49
Alignment explanation
Indices: 56423328--56423515 Score: 250
Period size: 49 Copynumber: 3.8 Consensus size: 49
56423318 TGAGGTCATG
56423328 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * *
56423377 TGTGTAGTACTAAGTGCAGGCTACTATGAGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCGCA
* *
56423428 TGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* ** *
56423477 TGTGTAGTACTAAGTGTAGGCTACTGTGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
56423516 GCTTTGGCTA
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 76 0.64
50 4 0.03
51 39 0.33
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:56423500 original size:100 final size:100
Alignment explanation
Indices: 56423327--56423515 Score: 324
Period size: 100 Copynumber: 1.9 Consensus size: 100
56423317 ATGAGGTCAT
*
56423327 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
*
56423392 GCAGGCTACTATGAGTACCCGATAACTTCGATCAC
66 GCAGGCTACTATGAGTACCAGATAACTTCGATCAC
*
56423427 GTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
* * *
56423492 GTAGGCTACTGTGCGTACCAGATA
66 GCAGGCTACTATGAGTACCAGATA
56423516 GCTTTGGCTA
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (100 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
GCAGGCTACTATGAGTACCAGATAACTTCGATCAC
Found at i:56423542 original size:100 final size:100
Alignment explanation
Indices: 56423327--56423548 Score: 286
Period size: 100 Copynumber: 2.2 Consensus size: 100
56423317 ATGAGGTCAT
* * *
56423327 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGAAATAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
* *
56423392 GCAGGCTACTATGAGTACCCGATAACTTCGATCAC
66 GCAGGCTACTATGAGTACCAGATAACTTCGATCAA
* * *
56423427 GTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGAAATAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
* * * * * *
56423492 GTAGGCTACTGTGCGTACCAGATAGCTTTGGCTACAA
66 GCAGGCTACTATGAGTACCAGATAAC-TTCGAT-CAA
56423529 GTGTG-A-AAATAAGTGCAGGC
1 GTGTGTAGAAATAAGTGCAGGC
56423549 AACTGAATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
100 95 0.89
101 5 0.05
102 7 0.07
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (100 bp):
GTGTGTAGAAATAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
GCAGGCTACTATGAGTACCAGATAACTTCGATCAA
Found at i:56428589 original size:49 final size:50
Alignment explanation
Indices: 56428499--56428744 Score: 237
Period size: 49 Copynumber: 4.9 Consensus size: 50
56428489 ATCTATTGTG
* * *
56428499 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACT-TGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA-TGCGTACCAGATAATT
* ** *
56428549 -GGTCGCATAAGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT
* * * * * ** **
56428599 CGATCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTATTAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* * * * * *
56428649 AGGTCACGTGTGTAGTACTTAGTGCAGGCTATTACGCATACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* *
56428699 -GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
56428745 GCTTTGGCTA
Statistics
Matches: 154, Mismatches: 39, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
48 1 0.01
49 77 0.50
50 41 0.27
51 35 0.23
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
Found at i:56431220 original size:40 final size:40
Alignment explanation
Indices: 56431161--56431428 Score: 473
Period size: 40 Copynumber: 6.7 Consensus size: 40
56431151 GAGCATTGGA
*
56431161 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
56431201 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
56431241 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
56431281 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
56431321 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
56431361 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
56431401 ATATGTTCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
56431429 ATGTGTTTGC
Statistics
Matches: 219, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 219 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:56438505 original size:40 final size:40
Alignment explanation
Indices: 56438446--56438713 Score: 473
Period size: 40 Copynumber: 6.7 Consensus size: 40
56438436 GAGCATTGGA
*
56438446 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
56438486 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
56438526 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
56438566 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
56438606 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
56438646 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
56438686 ATATGTTCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
56438714 ATGTGTTTGC
Statistics
Matches: 219, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 219 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:56440813 original size:46 final size:46
Alignment explanation
Indices: 56440746--56440922 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
56440736 GTAACCCACA
*
56440746 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCATC
* * * * * *
56440792 CATAAGTGAACTCGGACTCAACTCAACGAGCTTGAATGCCTAG-TTA
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCATC
*** * **
56440838 CATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC
1 CATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCATC
* *
56440885 CATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATG
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
56440923 CCCAAACATC
Statistics
Matches: 103, Mismatches: 25, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
46 70 0.68
47 33 0.32
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCATC
Found at i:56442888 original size:15 final size:14
Alignment explanation
Indices: 56442840--56442907 Score: 64
Period size: 15 Copynumber: 4.6 Consensus size: 14
56442830 CAAAGATAAC
*
56442840 AAGAAAACCGAATA
1 AAGAAATCCGAATA
*
56442854 AAGAAATCCAAGATA
1 AAGAAATCCGA-ATA
* *
56442869 GAGAAACCCGGAATA
1 AAGAAATCC-GAATA
56442884 AAGAAATCCAGAATA
1 AAGAAATCC-GAATA
*
56442899 AAGAGATCC
1 AAGAAATCC
56442908 ACGATAAAGA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
14 9 0.21
15 33 0.77
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAATCCGAATA
Found at i:56442908 original size:15 final size:16
Alignment explanation
Indices: 56442848--56442919 Score: 73
Period size: 15 Copynumber: 4.8 Consensus size: 16
56442838 ACAAGAAAAC
56442848 CGAATAAAGAAATCCA
1 CGAATAAAGAAATCCA
* *
56442864 AG-ATAGAGAAA-CC-
1 CGAATAAAGAAATCCA
56442877 CGGAATAAAGAAATCCA
1 C-GAATAAAGAAATCCA
*
56442894 -GAATAAAGAGATCCA
1 CGAATAAAGAAATCCA
56442909 CG-ATAAAGAAA
1 CGAATAAAGAAA
56442920 CCCAAGATAC
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
14 3 0.07
15 38 0.84
16 4 0.09
ACGTcount: A:0.56, C:0.15, G:0.18, T:0.11
Consensus pattern (16 bp):
CGAATAAAGAAATCCA
Found at i:56442928 original size:15 final size:15
Alignment explanation
Indices: 56442851--56442928 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
56442841 AGAAAACCGA
56442851 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
56442866 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
56442880 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
56442895 AATAAAGAGATCCACG
1 -ATAAAGAAATCCAAG
*
56442911 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
56442926 ATA
1 ATA
56442929 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.17, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:56445933 original size:93 final size:93
Alignment explanation
Indices: 56445821--56445992 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
56445811 GCCCATAAGT
* * *
56445821 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
56445886 CGAGCTCGAATGCCTAGTTACATCTCTC
66 CGAGCTCGAATGCCTAGTTACATCTCTC
*
56445914 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
* *
56445979 CGAGTTCGGATGCC
66 CGAGCTCGAATGCC
56445993 CAAACATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGAATGCCTAGTTACATCTCTC
Found at i:56445988 original size:46 final size:46
Alignment explanation
Indices: 56445813--56445988 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
56445803 TGTAACCCGC
* *
56445813 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
56445859 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GA-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
56445905 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
56445952 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
56445989 TGCCCAAACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.61
47 30 0.28
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:56446007 original size:46 final size:46
Alignment explanation
Indices: 56445818--56446008 Score: 135
Period size: 46 Copynumber: 4.1 Consensus size: 46
56445808 CCCGCCCATA
* ** *
56445818 AGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAT-ACATCC-T
* * *
56445863 AAGTGAACTCGGACTCAACTCAACGAGCTCGAATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * *
56445913 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
* *
56445957 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
56446003 AGTGAA
1 AGTGAA
56446009 ATGTCACTTG
Statistics
Matches: 114, Mismatches: 19, Indels: 24
0.73 0.12 0.15
Matches are distributed among these distances:
44 8 0.07
46 63 0.55
47 30 0.26
48 1 0.01
49 5 0.04
50 5 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:56447512 original size:27 final size:27
Alignment explanation
Indices: 56447474--56447560 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
56447464 CAAAATAGTG
* ** * *
56447474 ATTTTACCCTACAGGGGTATGTCGATC
1 ATTTTACACTACAAAGGTATTTCGATA
* *
56447501 ATTTTACACTACAATGGTATTTCGGTA
1 ATTTTACACTACAAAGGTATTTCGATA
56447528 ATTTTACACTACAAAGGTATTTCGATA
1 ATTTTACACTACAAAGGTATTTCGATA
56447555 ATTTTA
1 ATTTTA
56447561 TAATTCGGGG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAAGGTATTTCGATA
Found at i:56447577 original size:27 final size:27
Alignment explanation
Indices: 56447547--56447907 Score: 318
Period size: 27 Copynumber: 13.7 Consensus size: 27
56447537 TACAAAGGTA
* * *
56447547 TTTCGATAATTTTATAATTCGGGGGTG
1 TTTCGATAATTTTACAAATCGAGGGTG
* *
56447574 TTTCGATAATTTTAAAAATCGAGGGTA
1 TTTCGATAATTTTACAAATCGAGGGTG
56447601 TTTC-AGTAATTTTACAAATCGAGGGTG
1 TTTCGA-TAATTTTACAAATCGAGGGTG
* *
56447628 TTTCGGTAATTTTACAAATCAAGGGTG
1 TTTCGATAATTTTACAAATCGAGGGTG
* *
56447655 TTTC-AGTAATTTTACAAATCAATGGTG
1 TTTCGA-TAATTTTACAAATCGAGGGTG
* * * * *
56447682 TTTCGGTAATTTCACAAATTGAAGGTA
1 TTTCGATAATTTTACAAATCGAGGGTG
* *
56447709 TTTTGGTAATTTTACAAATCGAGGGTG
1 TTTCGATAATTTTACAAATCGAGGGTG
56447736 TTTCGATAATTTTACAAATCGAGGGTG
1 TTTCGATAATTTTACAAATCGAGGGTG
* * * *
56447763 TTTCGCTAATTTCACAAATCGGGGGTA
1 TTTCGATAATTTTACAAATCGAGGGTG
*
56447790 TTT-TAGTAATTTTACAAATCGAGGGTG
1 TTTCGA-TAATTTTACAAATCGAGGGTG
* * *
56447817 TTTCAATAATTTGACATATC-A-GG-G
1 TTTCGATAATTTTACAAATCGAGGGTG
* *
56447841 ----G--AATTTCTACAAATTGAGGGTA
1 TTTCGATAATTT-TACAAATCGAGGGTG
* *
56447863 TTTC-AGTAATTTCAC-AATCGAGGGTA
1 TTTCGA-TAATTTTACAAATCGAGGGTG
*
56447889 TTTCGATAATTTTATAAAT
1 TTTCGATAATTTTACAAAT
56447908 TGGGGGTAGT
Statistics
Matches: 271, Mismatches: 44, Indels: 38
0.77 0.12 0.11
Matches are distributed among these distances:
18 5 0.02
19 5 0.02
20 1 0.00
21 2 0.01
24 1 0.00
25 2 0.01
26 23 0.08
27 226 0.83
28 6 0.02
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
TTTCGATAATTTTACAAATCGAGGGTG
Found at i:56447610 original size:81 final size:81
Alignment explanation
Indices: 56447516--56447907 Score: 376
Period size: 81 Copynumber: 5.0 Consensus size: 81
56447506 ACACTACAAT
* * * * * *
56447516 GGTATTTCGGTAATTTTAC-ACTACAAAGGTATTTCGATAATTTTATAATTCGGGGGTGTTTCGA
1 GGTATTTCGGTAATTTTACAAAT-CGAAGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTCGA
*
56447580 TAATTTTAAAAATCGAG
65 TAATTTTACAAATCGAG
* * * *
56447597 GGTATTTCAGTAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATCAAGGGTGTTTC-AG
1 GGTATTTCGGTAATTTTACAAATCGAAGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTCGA-
* *
56447661 TAATTTTACAAATCAAT
65 TAATTTTACAAATCGAG
* * * *
56447678 GGTGTTTCGGTAATTTCACAAATTGAAGGTATTTTGGTAATTTTACAAATCGAGGGTGTTTCGAT
1 GGTATTTCGGTAATTTTACAAATCGAAGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTCGAT
56447743 AATTTTACAAATCGAG
66 AATTTTACAAATCGAG
* * * ** ** *
56447759 GGTGTTTCGCTAATTTCACAAATCGGGGGTATTTTAGTAATTTTACAAATCGAGGGTGTTTCAAT
1 GGTATTTCGGTAATTTTACAAATCGAAGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTCGAT
* *
56447824 AATTTGACATATC-A-
66 AATTTTACAAATCGAG
* * * * *
56447838 GG------GG-AATTTCTACAAATTGAGGGTATTTCAGTAATTTCAC-AATCGAGGGTATTTCGA
1 GGTATTTCGGTAATTT-TACAAATCGAAGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTCGA
*
56447895 TAATTTTATAAAT
65 TAATTTTACAAAT
56447908 TGGGGGTAGT
Statistics
Matches: 265, Mismatches: 42, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
72 30 0.11
73 26 0.10
79 2 0.01
80 2 0.01
81 202 0.76
82 3 0.01
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAATCGAAGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTCGAT
AATTTTACAAATCGAG
Found at i:56447887 original size:26 final size:28
Alignment explanation
Indices: 56447842--56447927 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 28
56447832 ATATCAGGGG
*
56447842 AATTTCTACAAATTGAGGGTATTTC-AGT
1 AATTTCTACAAATCGAGGGTATTTCGA-T
56447870 AATTTC-AC-AATCGAGGGTATTTCGAT
1 AATTTCTACAAATCGAGGGTATTTCGAT
* * * * *
56447896 AATTT-TATAAATTGGGGGTAGTTCAAT
1 AATTTCTACAAATCGAGGGTATTTCGAT
56447923 AATTT
1 AATTT
56447928 TTCTTTATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
26 21 0.43
27 22 0.45
28 6 0.12
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (28 bp):
AATTTCTACAAATCGAGGGTATTTCGAT
Found at i:56447921 original size:99 final size:99
Alignment explanation
Indices: 56447743--56447927 Score: 243
Period size: 99 Copynumber: 1.9 Consensus size: 99
56447733 GTGTTTCGAT
* * *
56447743 AATTTTACAAATCGAGGGTGTTTCGCTAATTTCACAAATCGGGGGTATTTTAGTAATTTTACAAA
1 AATTTTACAAATCGAGGGTATTTCGCTAATTTCACAAATCGAGGGTATTTGAGTAATTTTACAAA
56447808 TCGAGGGTGTTTCAATAATTTGACATATCAGGGG
66 TCGAGGGTGTTTCAATAATTTGACATATCAGGGG
* *
56447842 AATTTCTACAAATTGAGGGTATTTCAG-TAATTTCAC-AATCGAGGGTATTTCGA-TAATTTTAT
1 AATTT-TACAAATCGAGGGTATTTC-GCTAATTTCACAAATCGAGGGTATTT-GAGTAATTTTAC
* *
56447904 AAATTGGGGGTAG-TTCAATAATTT
63 AAATCGAGGGT-GTTTCAATAATTT
56447928 TTCTTTATTA
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
99 46 0.61
100 28 0.37
101 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (99 bp):
AATTTTACAAATCGAGGGTATTTCGCTAATTTCACAAATCGAGGGTATTTGAGTAATTTTACAAA
TCGAGGGTGTTTCAATAATTTGACATATCAGGGG
Found at i:56448278 original size:28 final size:28
Alignment explanation
Indices: 56448226--56448331 Score: 122
Period size: 28 Copynumber: 3.8 Consensus size: 28
56448216 ATCCACACTT
* * *
56448226 ATTCATTTGGCCCCTTTAGGCCCAATCTC
1 ATTCATATGG-CCCATTAGGCCCAATCAC
* *
56448255 GTTCACATGGCCCATTAGGCCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
* * *
56448283 ATTCATATGACCCATTAAGCCTAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
*
56448311 ATTCATATGGCCCATCAGGCC
1 ATTCATATGGCCCATTAGGCC
56448332 TAACTACTTC
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
28 57 0.89
29 7 0.11
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.27
Consensus pattern (28 bp):
ATTCATATGGCCCATTAGGCCCAATCAC
Found at i:56451151 original size:10 final size:10
Alignment explanation
Indices: 56451122--56451151 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
56451112 GTAAGTATTT
*
56451122 AAAAAAATTA
1 AAAAAAATTG
56451132 AAAAAAATTG
1 AAAAAAATTG
56451142 AAAAAAATTG
1 AAAAAAATTG
56451152 TGTATCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (10 bp):
AAAAAAATTG
Found at i:56452848 original size:20 final size:21
Alignment explanation
Indices: 56452810--56452848 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
56452800 AATGGTCATG
*
56452810 GATGATTTAAGAGTGACTTAA
1 GATGATTTAAGAGTCACTTAA
*
56452831 GATGA-TTACGAGTCACTT
1 GATGATTTAAGAGTCACTT
56452849 GTTTTTTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (21 bp):
GATGATTTAAGAGTCACTTAA
Found at i:56454785 original size:18 final size:18
Alignment explanation
Indices: 56454743--56454777 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56454733 GTGTTATTTT
*
56454743 GAAGTTATAAAAAAATAC
1 GAAGTTATAAAAAAAAAC
56454761 GAAGTTATAAAAAAAAA
1 GAAGTTATAAAAAAAAA
56454778 ACAAGTTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.20
Consensus pattern (18 bp):
GAAGTTATAAAAAAAAAC
Found at i:56458036 original size:30 final size:31
Alignment explanation
Indices: 56457992--56458051 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
56457982 AGGTCCAATC
*
56457992 AGCTCACTTGAGCTTCTTT-CAGCTAGTTTG
1 AGCTCAATTGAGCTTCTTTCCAGCTAGTTTG
* *
56458022 AGCTCAATTTAGCTTCTTTCCAGCTCGTTT
1 AGCTCAATTGAGCTTCTTTCCAGCTAGTTT
56458052 CTTTTACTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.42
Consensus pattern (31 bp):
AGCTCAATTGAGCTTCTTTCCAGCTAGTTTG
Found at i:56460629 original size:25 final size:25
Alignment explanation
Indices: 56460566--56460659 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
56460556 GAGGAAGTGC
*
56460566 AAAAGGGCTTTGCCCTAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
*
56460591 AAAA-GGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
*
56460615 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCG
56460640 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
56460660 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
24 22 0.34
25 42 0.66
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCG
Found at i:56460672 original size:24 final size:25
Alignment explanation
Indices: 56460565--56460672 Score: 127
Period size: 24 Copynumber: 4.4 Consensus size: 25
56460555 GGAGGAAGTG
*
56460565 CAAAAG-GGCTTTGCCCTAGTTTAT
1 CAAAAGAGGCTTTGCCCCAGTTTAT
* *
56460589 CGAAA-AGGCTTTGCCCCAGTTTAC
1 CAAAAGAGGCTTTGCCCCAGTTTAT
56460613 CGAAAAG-GGCTTTGCCCCAGTTTAT
1 C-AAAAGAGGCTTTGCCCCAGTTTAT
56460638 CAAAA-AGGGCTTTGCCCCAG-TTAT
1 CAAAAGA-GGCTTTGCCCCAGTTTAT
*
56460662 TAAAAGAGGCT
1 CAAAAGAGGCT
56460673 AGGCCTCCAA
Statistics
Matches: 72, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
24 37 0.51
25 35 0.49
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (25 bp):
CAAAAGAGGCTTTGCCCCAGTTTAT
Found at i:56460964 original size:31 final size:31
Alignment explanation
Indices: 56460906--56460970 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
56460896 TGATATGAGT
**
56460906 TGTGAATTATAAAAGGCTTCGGTCCAGTA-A
1 TGTGAATTATAAAAGGCTTCGACCCAGTATA
*
56460936 TGTGAATTATGAAGAGGCTTCGACCCAGTATA
1 TGTGAATTAT-AAAAGGCTTCGACCCAGTATA
56460968 TGT
1 TGT
56460971 TGAGATTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 10 0.33
31 16 0.53
32 4 0.13
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (31 bp):
TGTGAATTATAAAAGGCTTCGACCCAGTATA
Found at i:56462811 original size:28 final size:28
Alignment explanation
Indices: 56462779--56462880 Score: 141
Period size: 28 Copynumber: 3.6 Consensus size: 28
56462769 ATTGCGTGGC
* *
56462779 TATGAATGTGATTGGGCCTGACGGGCCA
1 TATGAATGTGATTGGGCCCGATGGGCCA
* *
56462807 TATGAAAGTGATTGGGCCCAATGGGCCA
1 TATGAATGTGATTGGGCCCGATGGGCCA
* *
56462835 TATGAATGTAATTGGGCCCGATGGGCTA
1 TATGAATGTGATTGGGCCCGATGGGCCA
*
56462863 TATGAATGAGATTGGGCC
1 TATGAATGTGATTGGGCC
56462881 TAAAGAGGCC
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.25
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCCGATGGGCCA
Found at i:56462840 original size:56 final size:57
Alignment explanation
Indices: 56462779--56462898 Score: 152
Period size: 56 Copynumber: 2.1 Consensus size: 57
56462769 ATTGCGTGGC
* * * *
56462779 TATGAATGTGATTGGGCCTGACGGGCCATATGAAAGTGATTGGGCCCAATG-GGCCA
1 TATGAATGTAATTGGGCCCGACGGGCCATATGAAAGAGATTGGGCCCAAAGAGGCCA
* * * *
56462835 TATGAATGTAATTGGGCCCGATGGGCTATATGAATGAGATTGGGCCTAAAGAGGCCA
1 TATGAATGTAATTGGGCCCGACGGGCCATATGAAAGAGATTGGGCCCAAAGAGGCCA
*
56462892 AATGAAT
1 TATGAAT
56462899 AAGTATGGAT
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
56 43 0.80
57 11 0.20
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (57 bp):
TATGAATGTAATTGGGCCCGACGGGCCATATGAAAGAGATTGGGCCCAAAGAGGCCA
Found at i:56465485 original size:13 final size:14
Alignment explanation
Indices: 56465459--56465509 Score: 52
Period size: 13 Copynumber: 3.7 Consensus size: 14
56465449 GAAAAACAAT
*
56465459 AAGAGAAAG-TGAA
1 AAGAAAAAGATGAA
*
56465472 AAGAAAACGA-GAA
1 AAGAAAAAGATGAA
*
56465485 AGGAAAAAGATGAAA
1 AAGAAAAAGATG-AA
56465500 AAGAAAAAGA
1 AAGAAAAAGA
56465510 ATGTGAGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 18 0.60
14 1 0.03
15 11 0.37
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.04
Consensus pattern (14 bp):
AAGAAAAAGATGAA
Found at i:56465492 original size:19 final size:19
Alignment explanation
Indices: 56465447--56465494 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
56465437 ATAAAAAGAG
*
56465447 AGGAAAAACAATAAGAGAA
1 AGGAAAAAGAATAAGAGAA
56465466 AGTG-AAAAGAA-AACGAGAA
1 AG-GAAAAAGAATAA-GAGAA
56465485 AGGAAAAAGA
1 AGGAAAAAGA
56465495 TGAAAAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 3 0.12
19 21 0.84
20 1 0.04
ACGTcount: A:0.67, C:0.04, G:0.25, T:0.04
Consensus pattern (19 bp):
AGGAAAAAGAATAAGAGAA
Found at i:56470323 original size:27 final size:27
Alignment explanation
Indices: 56470293--56470621 Score: 394
Period size: 27 Copynumber: 12.2 Consensus size: 27
56470283 AAAGTACTCC
56470293 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
56470320 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
56470347 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
56470374 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
56470401 C-AGTTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
56470428 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * **
56470455 -TAGTTTACAGAATTGCTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
56470482 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
56470509 CAATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
56470536 TAATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
56470563 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
56470590 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
56470617 TGATT
1 CGATT
56470622 GTGAAATTAC
Statistics
Matches: 258, Mismatches: 38, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.01
27 252 0.98
28 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:56470694 original size:54 final size:54
Alignment explanation
Indices: 56470626--56470805 Score: 229
Period size: 54 Copynumber: 3.3 Consensus size: 54
56470616 TTGATTGTGA
* **** *
56470626 AATTACTGAAATACCCCTATAAGGTAGAATTTTTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTATAAGGTAGAATTACCAAAATACCCCTGTAGGGTAG
56470680 AATTACTGAAATACCCTTAT-AGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTATAAGG-TAGAATTACCAAAATACCCCTGTAGGGTAG
* * *
56470734 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTATAAGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* *
56470788 AATTACCGAGATACCCTT
1 AATTACTGAAATACCCTT
56470806 GTGGGGTAAA
Statistics
Matches: 111, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
53 4 0.04
54 105 0.95
55 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCTTATAAGGTAGAATTACCAAAATACCCCTGTAGGGTAG
Found at i:56470812 original size:27 final size:27
Alignment explanation
Indices: 56470626--56470821 Score: 203
Period size: 27 Copynumber: 7.3 Consensus size: 27
56470616 TTGATTGTGA
* * * *
56470626 AATTACTGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*** * *
56470653 AATTTTTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
56470680 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
56470707 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
56470734 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
56470761 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
56470788 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
56470815 AATTACC
1 AATTACC
56470822 ATTTTGCCCC
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:56470832 original size:54 final size:54
Alignment explanation
Indices: 56470661--56470822 Score: 236
Period size: 54 Copynumber: 3.0 Consensus size: 54
56470651 AGAATTTTTG
* * * * *
56470661 AAATACCCCTATAGGGTAGAATTACTGAAATACCCTTATAGGATAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACCA
*
56470715 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAA-TACCA
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTA-AAATTACCA
* *
56470769 AAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACCA
56470823 TTTTGCCCCT
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
53 3 0.03
54 92 0.95
55 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (54 bp):
AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACCA
Found at i:56471087 original size:27 final size:26
Alignment explanation
Indices: 56471020--56471099 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 26
56471010 CGGAGGAAGC
*
56471020 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
56471047 GTTCTAGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
56471073 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
56471100 ATTGACCGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 9 0.20
27 37 0.80
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:56471222 original size:22 final size:22
Alignment explanation
Indices: 56471190--56471248 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
56471180 CCCGTTATTA
*
56471190 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
56471212 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
56471234 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
56471249 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:56471446 original size:27 final size:25
Alignment explanation
Indices: 56471416--56471486 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 25
56471406 GTAGGTTTGC
*
56471416 CACATTATCTGATTCTGGTGGCTCTGG
1 CACA-TATCTG-TTCTGGTGACTCTGG
*
56471443 CACAATATCTGTATCTGGTGACTCTGT
1 CAC-ATATCTGT-TCTGGTGACTCTGG
56471470 CACGATATCTGTTCTGG
1 CAC-ATATCTGTTCTGG
56471487 CAGCCATGCT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.15
27 32 0.82
28 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (25 bp):
CACATATCTGTTCTGGTGACTCTGG
Found at i:56471613 original size:6 final size:6
Alignment explanation
Indices: 56471604--56471823 Score: 191
Period size: 6 Copynumber: 36.3 Consensus size: 6
56471594 TTGCATTCAC
* * *
56471604 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
56471653 -TTATTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ACTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* *
56471701 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
56471750 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * *
56471798 ATTCTC ATTTTG GTTCTA ATTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG AT
56471824 AATGTTTCTT
Statistics
Matches: 172, Mismatches: 28, Indels: 28
0.75 0.12 0.12
Matches are distributed among these distances:
5 10 0.06
6 151 0.88
7 9 0.05
8 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:56471763 original size:85 final size:85
Alignment explanation
Indices: 56471606--56471791 Score: 245
Period size: 85 Copynumber: 2.2 Consensus size: 85
56471596 GCATTCACAT
* * *
56471606 TCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTTTGTTATTAATACTGATTCTG
1 TCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTA
*
56471671 ATTCTGATTCTG-TTACTGAC
66 ATACTGATTCTGATT-CTGAC
* *
56471691 TCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGATT-CTGATTCTG-TTAC
1 TCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTG-TTACTAATACTGATT-C
*
56471754 TAATACTGATTCTGATTCTGAT
64 TAATACTGATTCTGATTCTGAC
56471776 TCTG-TTACTGATTCTG
1 TCTGATT-CTGATTCTG
56471792 ATTCTGATTC
Statistics
Matches: 90, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
84 4 0.04
85 82 0.91
86 4 0.04
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (85 bp):
TCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTA
ATACTGATTCTGATTCTGAC
Found at i:56471832 original size:18 final size:17
Alignment explanation
Indices: 56471811--56471844 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
56471801 CTCATTTTGG
56471811 TTCTAATTCTGATAATGT
1 TTCTAATTCTG-TAATGT
*
56471829 TTCTTATTCTGTAATG
1 TTCTAATTCTGTAATG
56471845 GGCTAAGGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
TTCTAATTCTGTAATGT
Found at i:56474542 original size:96 final size:96
Alignment explanation
Indices: 56474428--56474955 Score: 763
Period size: 96 Copynumber: 5.7 Consensus size: 96
56474418 CAGCCAAGAC
56474428 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
*
56474493 AAGGCCTAATGGCCGATGTGATGAAGGTGAA
66 AAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * *
56474524 AGTGTATATGTGTAATAAGGTCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
56474589 AAGGCCTAATGGCCGATGTGATGAATGTGAA
66 AAGGCCTAATGGCCGATGTGATGAATGTGAA
56474620 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGAT
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
56474683 AAGGCCTAATGGCCGATGTGATGAATGTG-A
66 AAGGCCTAATGGCCGATGTGATGAATGTGAA
56474713 AGTG--TATATGTGATAA-G--T-A------ATG-GATGAATGTGAAAGTG--TATATATGTGAT
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
* *
56474763 AAGGCCTAATGGCCGATGCGATGAAGGTGAA
66 AAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
56474794 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
56474859 AAGGCCTAATGGCCGATGTGATGAATGTGAA
66 AAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * *
56474890 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATA-A-ATGTGAT
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
56474953 AAG
66 AAG
56474956 TCCCGAAGGG
Statistics
Matches: 392, Mismatches: 24, Indels: 34
0.87 0.05 0.08
Matches are distributed among these distances:
80 55 0.14
81 8 0.02
83 11 0.03
84 1 0.00
86 1 0.00
87 2 0.01
88 1 0.00
90 1 0.00
91 12 0.03
93 8 0.02
94 67 0.17
95 1 0.00
96 224 0.57
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
AAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:56474555 original size:47 final size:47
Alignment explanation
Indices: 56474428--56474955 Score: 742
Period size: 47 Copynumber: 11.4 Consensus size: 47
56474418 CAGCCAAGAC
56474428 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
56474475 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAGGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * *
56474524 AGTGTATATGTGTAATAAGGTCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56474571 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56474620 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56474667 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-A
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56474713 AGTG--TATATGTGATAA-G--T-A------ATG-GATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
56474747 AGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAAGGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
56474794 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56474841 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
56474890 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
56474937 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
56474956 TCCCGAAGGG
Statistics
Matches: 433, Mismatches: 28, Indels: 40
0.86 0.06 0.08
Matches are distributed among these distances:
33 10 0.02
34 8 0.02
36 12 0.03
37 1 0.00
39 1 0.00
40 2 0.00
41 1 0.00
43 1 0.00
44 12 0.03
46 8 0.02
47 243 0.56
49 134 0.31
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:56474759 original size:127 final size:128
Alignment explanation
Indices: 56474608--56474849 Score: 441
Period size: 127 Copynumber: 1.9 Consensus size: 128
56474598 TGGCCGATGT
* *
56474608 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAAGGTGAAAGTGTA
*
56474673 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATGTGATAAGTAATG
66 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGATAAGTAATG
56474735 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAAGGTGAAAGTGTA
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAAGGTGAAAGTGTA
*
56474800 TATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
66 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
56474850 ATATGTGATA
Statistics
Matches: 110, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
127 100 0.91
128 10 0.09
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (128 bp):
GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAAGGTGAAAGTGTA
TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGATAAGTAATG
Found at i:56474760 original size:80 final size:85
Alignment explanation
Indices: 56474651--56474898 Score: 344
Period size: 80 Copynumber: 2.8 Consensus size: 85
56474641 CTAATGGCCG
56474651 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
56474715 TGTATATGTGATAA-G-TA-
66 TGTATATGTGATAAGGATAC
* *
56474732 ATG-GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAAGGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
56474796 TGTATATGTGTGATAAGGCCTAATAGCC
66 TGTATA--TGTGATAAGG----ATA--C
56474824 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 -ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
56474889 AAGTGTATAT
63 AAGTGTATAT
56474899 ATGTGACAGG
Statistics
Matches: 147, Mismatches: 4, Indels: 19
0.86 0.02 0.11
Matches are distributed among these distances:
80 55 0.37
81 12 0.08
83 8 0.05
84 1 0.01
89 2 0.01
93 3 0.02
94 17 0.12
96 49 0.33
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (85 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATGTGATAAGGATAC
Found at i:56474952 original size:270 final size:271
Alignment explanation
Indices: 56474463--56474955 Score: 862
Period size: 270 Copynumber: 1.8 Consensus size: 271
56474453 TGGCCGATGT
*
56474463 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAGGTGAAAGTG
1 GATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGCGATGAAGGTGAAAGTG
*
56474528 TATATGTGTAATAAGGTCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
65 TATATGTGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
* * * *
56474593 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
130 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGAT
* *
56474658 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGTGTATATG
195 GAATGTGAAAGTGCATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGTGTATATG
56474723 TGATAAGTAATG
260 TGATAAGTAATG
56474735 GATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGCGATGAAGGTGAAAGTGT
1 GATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGCGATGAAGGTGAAAGTGT
*
56474799 ATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
66 ATATGTGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
* *
56474864 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
131 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
*
56474929 GATGTGAAAGTGCATAAATGTGATAAG
196 AATGTGAAAGTGCATAAATGTGATAAG
56474956 TCCCGAAGGG
Statistics
Matches: 209, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
270 193 0.92
272 16 0.08
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (271 bp):
GATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGCGATGAAGGTGAAAGTGT
ATATGTGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
AATGTGAAAGTGCATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGTGTATATGT
GATAAGTAATG
Found at i:56475130 original size:37 final size:37
Alignment explanation
Indices: 56475074--56475152 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
56475064 CCGAGCTCTA
* *
56475074 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
56475111 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56475148 AAGAC
1 AAGAC
56475153 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:56477127 original size:43 final size:43
Alignment explanation
Indices: 56477017--56477119 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
56477007 TTGGTTTTCA
*
56477017 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAATGTTCACGGTTGTGAGATTG
56477060 GCACTAAGTGTGCGGGCAATAAATGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAATGTTCACGGTTGTGAGATTG
56477103 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
56477120 TTGAAATGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAATGTTCACGGTTGTGAGATTG
Found at i:56477143 original size:29 final size:29
Alignment explanation
Indices: 56477101--56477174 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
56477091 GTTGTGAGAT
* *
56477101 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
56477130 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
56477159 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56477175 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:56477611 original size:40 final size:40
Alignment explanation
Indices: 56477488--56477683 Score: 184
Period size: 40 Copynumber: 4.9 Consensus size: 40
56477478 TCGAATGATG
** *
56477488 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
56477528 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
56477568 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
56477608 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
56477648 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
56477684 CGTGTATTCG
Statistics
Matches: 130, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 110 0.85
41 19 0.15
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:56477624 original size:80 final size:81
Alignment explanation
Indices: 56477488--56477684 Score: 222
Period size: 80 Copynumber: 2.5 Consensus size: 81
56477478 TCGAATGATG
**
56477488 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGACCATATCCGGACTAAGATCCGAAGAGCA
* *
56477550 TTGGTGCGAGTTACTAAA
65 TTCGTGCGAGTGA-TAAA
** * *
56477568 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGATCCGAAGAGCAT
* *
56477632 TCGTGCTAGTGATATA
66 TCGTGCGAGTGATAAA
* * * *
56477648 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAC
56477685 GTGTATTCGG
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
80 73 0.74
81 20 0.20
82 6 0.06
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGATCCGAAGAGCAT
TCGTGCGAGTGATAAA
Found at i:56481318 original size:96 final size:96
Alignment explanation
Indices: 56481211--56481651 Score: 794
Period size: 96 Copynumber: 4.6 Consensus size: 96
56481201 CAAGATAGTG
* * *
56481211 TATATATGTGATAAGGCCTAACGGCCGATGTGATGAAGGTGAAAGTGTATATGTGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
56481276 TAATAGCCGATGTGATGAATGTGAAAGTGTA
66 TAATAGCCGATGTGATGAATGTGAAAGTGTA
56481307 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
56481372 TAATGGCCGATGTGATGAATGTGAAAGTGTA
66 TAATAGCCGATGTGATGAATGTGAAAGTGTA
56481403 TATATATGTGATAAGGCCTAATGGCCGATGTGATG-ATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
56481467 TAATGGCCGATGTGATGAATGTGAAAGTGTA
66 TAATAGCCGATGTGATGAATGTGAAAGTGTA
* * * *
56481498 TATATATGTGATAAGGCCTAATGGCCGATGCGATGAAGGTGAAAGTGTATATGTATGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
56481563 TAATAGCCGATGTGATGAATGTGAAAGTGTA
66 TAATAGCCGATGTGATGAATGTGAAAGTGTA
56481594 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56481652 CGGGCCGAGT
Statistics
Matches: 331, Mismatches: 13, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
95 94 0.28
96 237 0.72
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (96 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATAGCCGATGTGATGAATGTGAAAGTGTA
Found at i:56481334 original size:49 final size:49
Alignment explanation
Indices: 56481211--56481701 Score: 740
Period size: 49 Copynumber: 10.3 Consensus size: 49
56481201 CAAGATAGTG
* *
56481211 TATATATGTGATAAGGCCTAACGGCCGATGTGATGAAGGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
56481258 TATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
56481307 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
56481354 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
56481403 TATATATGTGATAAGGCCTAATGGCCGATGTGATG-ATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
56481449 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
56481498 TATATATGTGATAAGGCCTAATGGCCGATGCGATGAAGGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
56481547 TATGTA--TGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
56481594 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
** * * * * * *
56481641 TATATATGTGA-CGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
56481689 TA-A-ATGTGATAAG
1 TATATATGTGATAAG
56481702 TCCCGAAGGG
Statistics
Matches: 409, Mismatches: 23, Indels: 24
0.90 0.05 0.05
Matches are distributed among these distances:
46 69 0.17
47 157 0.38
48 13 0.03
49 170 0.42
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:56481505 original size:191 final size:192
Alignment explanation
Indices: 56481211--56481701 Score: 801
Period size: 191 Copynumber: 2.6 Consensus size: 192
56481201 CAAGATAGTG
* * *
56481211 TATATATGTGATAAGGCCTAACGGCCGATGTGATGAAGGTGAAAGTGTATATGTGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
56481276 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGCGAT
* * *
56481341 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
131 GAAGGTGAAAGTGTATATATATGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
56481403 TATATATGTGATAAGGCCTAATGGCCGATGTGATG-ATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
56481467 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGCGAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGCGAT
*
56481532 GAAGGTGAAAGTGTATATGTATGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
131 GAAGGTGAAAGTGTATATATATGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
**
56481594 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA-CGGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
56481658 GAGTGGCCAACGTGATGGATGTGAAAGTGCATA-A-ATGTGATAAG
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
56481702 TCCCGAAGGG
Statistics
Matches: 281, Mismatches: 17, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
189 10 0.04
190 1 0.00
191 214 0.76
192 56 0.20
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (192 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGCGAT
GAAGGTGAAAGTGTATATATATGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
Found at i:56481876 original size:37 final size:37
Alignment explanation
Indices: 56481820--56481898 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
56481810 CCGAGCTCTA
* *
56481820 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
56481857 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56481894 AAGAC
1 AAGAC
56481899 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:56485146 original size:27 final size:27
Alignment explanation
Indices: 56485116--56485444 Score: 394
Period size: 27 Copynumber: 12.2 Consensus size: 27
56485106 AAAGTACTCC
56485116 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
56485143 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
56485170 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
56485197 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
56485224 C-AGTTTACAGAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
56485251 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
56485278 -TAGTTTACAGAATTGCTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
56485305 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
56485332 CAATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
56485359 TAATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
56485386 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
56485413 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
56485440 TGATT
1 CGATT
56485445 GTGAAATTAC
Statistics
Matches: 258, Mismatches: 38, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.01
27 252 0.98
28 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:56485517 original size:54 final size:54
Alignment explanation
Indices: 56485449--56485628 Score: 238
Period size: 54 Copynumber: 3.3 Consensus size: 54
56485439 TTGATTGTGA
* * ** *
56485449 AATTACTGAAATACCCCTATAAGGTAGAATTTCTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTATAAGGTAGAATTACCAAAATACCCCTGTAGGGTAG
56485503 AATTACTGAAATACCCTTAT-AGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTATAAGG-TAGAATTACCAAAATACCCCTGTAGGGTAG
* * *
56485557 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTATAAGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* *
56485611 AATTACCGAGATACCCTT
1 AATTACTGAAATACCCTT
56485629 GTGGGGTAAA
Statistics
Matches: 112, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
53 4 0.04
54 106 0.95
55 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTATAAGGTAGAATTACCAAAATACCCCTGTAGGGTAG
Found at i:56485635 original size:27 final size:27
Alignment explanation
Indices: 56485449--56485644 Score: 212
Period size: 27 Copynumber: 7.3 Consensus size: 27
56485439 TTGATTGTGA
* * * *
56485449 AATTACTGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
56485476 AATTTCTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
56485503 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
56485530 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
56485557 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
56485584 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
56485611 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
56485638 AATTACC
1 AATTACC
56485645 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:56485655 original size:54 final size:54
Alignment explanation
Indices: 56485484--56485645 Score: 236
Period size: 54 Copynumber: 3.0 Consensus size: 54
56485474 AGAATTTCTG
* * * * *
56485484 AAATACCCCTATAGGGTAGAATTACTGAAATACCCTTATAGGATAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACCA
*
56485538 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAA-TACCA
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTA-AAATTACCA
* *
56485592 AAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACCA
56485646 TTTTGCCCCT
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
53 3 0.03
54 92 0.95
55 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (54 bp):
AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACCA
Found at i:56485910 original size:27 final size:26
Alignment explanation
Indices: 56485843--56485922 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 26
56485833 CGGAGGAAGC
*
56485843 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
56485870 GTTCTAGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
56485896 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
56485923 ATTGACCGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 9 0.20
27 37 0.80
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:56486045 original size:22 final size:22
Alignment explanation
Indices: 56486013--56486071 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
56486003 CCCGTTATTA
*
56486013 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
56486035 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
56486057 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
56486072 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:56486258 original size:27 final size:27
Alignment explanation
Indices: 56486236--56486309 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
56486226 TAGGTGGGTT
*
56486236 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
* *
56486263 TGGCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
56486290 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
56486310 CAGCCATGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.12
27 35 0.85
28 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:56486436 original size:6 final size:6
Alignment explanation
Indices: 56486427--56486625 Score: 194
Period size: 6 Copynumber: 32.8 Consensus size: 6
56486417 TTGCATTCAC
* *
56486427 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
56486476 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ACTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * *
56486524 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG ATTTTG ATTCTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
56486573 ATTCTG -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
56486621 ATTCT
1 ATTCT
56486626 CATTTTGGTT
Statistics
Matches: 159, Mismatches: 20, Indels: 28
0.77 0.10 0.14
Matches are distributed among these distances:
5 10 0.06
6 138 0.87
7 9 0.06
8 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:56486574 original size:85 final size:85
Alignment explanation
Indices: 56486429--56486608 Score: 258
Period size: 85 Copynumber: 2.1 Consensus size: 85
56486419 GCATTCACAT
56486429 TCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTG
1 TCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTG
* *
56486494 ATT-CTGATTCTG-TTACTGAC
66 -TTACTAATACTGATT-CTGAC
* * *
56486514 TCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGATT-TTGATTCTGATTCT
1 TCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTG-TTACTAATACTGATTCT
*
56486578 GTTACTAATACTGATTCTGAT
65 GTTACTAATACTGATTCTGAC
56486599 TCTGATTCTG
1 TCTGATTCTG
56486609 TTACTGATTC
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
84 2 0.02
85 80 0.93
86 4 0.05
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (85 bp):
TCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTG
TTACTAATACTGATTCTGAC
Found at i:56487440 original size:9 final size:9
Alignment explanation
Indices: 56487407--56487439 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
56487397 TTTGATTCAT
56487407 TTATTTTAG
1 TTATTTTAG
*
56487416 TTACTTTAG
1 TTATTTTAG
56487425 TTATTTTAG
1 TTATTTTAG
56487434 TT-TTTT
1 TTATTTT
56487440 TCTTTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 4 0.18
9 18 0.82
ACGTcount: A:0.18, C:0.03, G:0.09, T:0.70
Consensus pattern (9 bp):
TTATTTTAG
Found at i:56487652 original size:52 final size:50
Alignment explanation
Indices: 56487532--56487654 Score: 183
Period size: 50 Copynumber: 2.4 Consensus size: 50
56487522 GCGGTTAATA
*
56487532 AAGTCATGCATTATGTAACTCTCATGTAAGTTAAGTTTGCATCATAAATT
1 AAGTCATGCATTATGTAACTCCCATGTAAGTTAAGTTTGCATCATAAATT
* *
56487582 AAGACATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATT
1 AAGTCATGCATTATGTAACTCCCATGTAAGTT-AAGTTTGCATCA-TAAATT
* *
56487634 AATTCATGCATTAAGTAACTC
1 AAGTCATGCATTATGTAACTC
56487655 ATTTGTTCAC
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 29 0.45
51 12 0.18
52 24 0.37
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (50 bp):
AAGTCATGCATTATGTAACTCCCATGTAAGTTAAGTTTGCATCATAAATT
Found at i:56487671 original size:51 final size:51
Alignment explanation
Indices: 56487536--56487681 Score: 145
Period size: 50 Copynumber: 2.9 Consensus size: 51
56487526 TTAATAAAGT
* * * *
56487536 CATGCATTATGTAACTCTCATGTAAGTTAAGTTTGCATCA-TAAATTAAGA
1 CATGCATTAAGTAACTCACATGTTACTTAAGTTTGCATCATTAAATTAAGA
* * * **
56487586 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAATT
1 CATGCATTAAGTAACTCACATGTTACTT-AAGTTTGCATCATTAAATTAAGA
** *
56487638 CATGCATTAAGTAACTCATTTGTTCACTT-AGTTTACATC-TTAAA
1 CATGCATTAAGTAACTCACATGTT-ACTTAAGTTTGCATCATTAAA
56487682 CCATGCATTT
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
50 31 0.37
51 21 0.25
52 28 0.34
53 3 0.04
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.39
Consensus pattern (51 bp):
CATGCATTAAGTAACTCACATGTTACTTAAGTTTGCATCATTAAATTAAGA
Found at i:56494004 original size:68 final size:66
Alignment explanation
Indices: 56493927--56494074 Score: 167
Period size: 67 Copynumber: 2.2 Consensus size: 66
56493917 CATCATGTGT
* * *
56493927 ACAAGAGAGCTACAAGAAATTATGATGTGGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC-AG-AA-TAT-ATGTAGCTAGGTCGCATGCGTGGAT-CTAGTGAAGTACACC
56493989 ATGTAG
61 ATGTAG
* * *
56493995 ACAAGAGAGCTACAGGATATATGTAGCTAGGTCGCATGCGTGGCTCTAGGTGAAGTACCCCATGT
1 ACAAGAGAGCTACAGAATATATGTAGCTAGGTCGCATGCGTGGATCTA-GTGAAGTACACCATGT
56494060 AG
65 AG
56494062 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
56494075 GAGATAAATT
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
64 22 0.31
65 5 0.07
66 3 0.04
67 27 0.39
68 13 0.19
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACAGAATATATGTAGCTAGGTCGCATGCGTGGATCTAGTGAAGTACACCATGTA
G
Found at i:56495961 original size:35 final size:35
Alignment explanation
Indices: 56495915--56495990 Score: 134
Period size: 35 Copynumber: 2.2 Consensus size: 35
56495905 TACATTATGT
56495915 CTCTTGATCAATTTTGGGAACCTTCAACGGCCTTA
1 CTCTTGATCAATTTTGGGAACCTTCAACGGCCTTA
*
56495950 CTCTTGATCAATTTTGGGAACCTTCAATGGCCTTA
1 CTCTTGATCAATTTTGGGAACCTTCAACGGCCTTA
*
56495985 CCCTTG
1 CTCTTG
56495991 CTGATTTCAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (35 bp):
CTCTTGATCAATTTTGGGAACCTTCAACGGCCTTA
Found at i:56497867 original size:10 final size:10
Alignment explanation
Indices: 56497852--56497877 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
56497842 AGAACCAAAG
56497852 GTATAACTAA
1 GTATAACTAA
56497862 GTATAACTAA
1 GTATAACTAA
56497872 GTATAA
1 GTATAA
56497878 TGAGCTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.31
Consensus pattern (10 bp):
GTATAACTAA
Found at i:56506796 original size:49 final size:49
Alignment explanation
Indices: 56506717--56506954 Score: 266
Period size: 49 Copynumber: 4.8 Consensus size: 49
56506707 TCTATTGTGA
*
56506717 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* *
56506766 GGTC-CTATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTT
1 GGTCAC-ATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA--TT
* * * * * * **
56506817 GATCAC--GTCATAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGT-GTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* *
56506865 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* * *
56506915 GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTAC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
56506955 TAGATAGCCT
Statistics
Matches: 157, Mismatches: 24, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
48 3 0.02
49 85 0.54
50 61 0.39
51 7 0.04
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
Found at i:56506799 original size:26 final size:26
Alignment explanation
Indices: 56506724--56506800 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 26
56506714 TGAGGTCACG
56506724 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
* * *
56506750 TGTGTACCGGA-TAA-T--TGG-TCCTA
1 TGTGTA--GTACTAAGTGCAGGCTACTA
56506773 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
56506799 TG
1 TG
56506801 CGTACCCGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
21 2 0.05
22 3 0.08
23 11 0.29
24 2 0.05
25 2 0.05
26 13 0.34
27 3 0.08
28 2 0.05
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:56507584 original size:179 final size:179
Alignment explanation
Indices: 56507284--56507642 Score: 709
Period size: 179 Copynumber: 2.0 Consensus size: 179
56507274 TGGAATTAAA
56507284 TATTAATGAGTATATTTTCATATAAAAGAAACAGGGGGAGCAAAAGTGTAACACCCCGCACCAGA
1 TATTAATGAGTATATTTTCATATAAAAGAAACAGGGGGAGCAAAAGTGTAACACCCCGCACCAGA
56507349 GACCGTCGCCGGAGTCGAACACGAGGTGTTAACAGACTTCAAACCACTTATTTGACATTTCCCAG
66 GACCGTCGCCGGAGTCGAACACGAGGTGTTAACAGACTTCAAACCACTTATTTGACATTTCCCAG
56507414 ACAAGCTGCCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTGAGT
131 ACAAGCTGCCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTGAGT
*
56507463 TATTAATGAGTATATTTTCATATAAAAGAAACAGGGGGAGCAAAAGTGTAACACCCCGCACCCGA
1 TATTAATGAGTATATTTTCATATAAAAGAAACAGGGGGAGCAAAAGTGTAACACCCCGCACCAGA
56507528 GACCGTCGCCGGAGTCGAACACGAGGTGTTAACAGACTTCAAACCACTTATTTGACATTTCCCAG
66 GACCGTCGCCGGAGTCGAACACGAGGTGTTAACAGACTTCAAACCACTTATTTGACATTTCCCAG
56507593 ACAAGCTGCCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTGAGT
131 ACAAGCTGCCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTGAGT
56507642 T
1 T
56507643 CTGAAACTTG
Statistics
Matches: 179, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
179 179 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (179 bp):
TATTAATGAGTATATTTTCATATAAAAGAAACAGGGGGAGCAAAAGTGTAACACCCCGCACCAGA
GACCGTCGCCGGAGTCGAACACGAGGTGTTAACAGACTTCAAACCACTTATTTGACATTTCCCAG
ACAAGCTGCCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTGAGT
Found at i:56509116 original size:28 final size:28
Alignment explanation
Indices: 56509053--56509203 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
56509043 ATATTAAGTC
*
56509053 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
56509080 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
56509108 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
56509136 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56509164 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
56509193 CGCACACTTAG
1 CGCACACTTAG
56509204 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 76 0.67
29 15 0.13
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56509672 original size:12 final size:12
Alignment explanation
Indices: 56509655--56509681 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
56509645 TGGGCATACT
56509655 TATGTATATATA
1 TATGTATATATA
56509667 TATGTATATATA
1 TATGTATATATA
56509679 TAT
1 TAT
56509682 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:56516074 original size:12 final size:12
Alignment explanation
Indices: 56516046--56516074 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
56516036 TATACCTATA
56516046 TGGTAGAATTTT
1 TGGTAGAATTTT
56516058 T-GTAGAATTTT
1 TGGTAGAATTTT
56516069 TGGTAG
1 TGGTAG
56516075 GGCCAATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (12 bp):
TGGTAGAATTTT
Found at i:56517460 original size:28 final size:28
Alignment explanation
Indices: 56517397--56517547 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
56517387 ATATTAAGTC
*
56517397 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
56517424 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
56517452 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
56517480 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56517508 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
56517537 CGCACACTTAG
1 CGCACACTTAG
56517548 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 76 0.67
29 15 0.13
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56518014 original size:12 final size:12
Alignment explanation
Indices: 56517997--56518023 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
56517987 TGGGCATACT
56517997 TATGTATATATA
1 TATGTATATATA
56518009 TATGTATATATA
1 TATGTATATATA
56518021 TAT
1 TAT
56518024 ACTTTGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:56524846 original size:34 final size:34
Alignment explanation
Indices: 56524803--56524871 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
56524793 GTCATTTGAT
56524803 TTGTCAAGTAAAGGCATGTAAAAATATGTTTATC
1 TTGTCAAGTAAAGGCATGTAAAAATATGTTTATC
56524837 TTGTCAAGTAAAGGCATGTAAAAATATGTTTATC
1 TTGTCAAGTAAAGGCATGTAAAAATATGTTTATC
56524871 T
1 T
56524872 CTTTGTATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (34 bp):
TTGTCAAGTAAAGGCATGTAAAAATATGTTTATC
Found at i:56530495 original size:7 final size:7
Alignment explanation
Indices: 56530483--56530507 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
56530473 CTTAATAAAC
56530483 ACTTTTA
1 ACTTTTA
56530490 ACTTTTA
1 ACTTTTA
56530497 ACTTTTA
1 ACTTTTA
56530504 ACTT
1 ACTT
56530508 AATTTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.16, G:0.00, T:0.56
Consensus pattern (7 bp):
ACTTTTA
Found at i:56530754 original size:11 final size:11
Alignment explanation
Indices: 56530740--56530764 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
56530730 AACTAAAACG
56530740 AAATAAATTCA
1 AAATAAATTCA
56530751 AAATAAATTCA
1 AAATAAATTCA
56530762 AAA
1 AAA
56530765 CGAGCAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATAAATTCA
Found at i:56534880 original size:17 final size:18
Alignment explanation
Indices: 56534839--56534880 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
56534829 TGAGTATGAA
56534839 GAAAGAAAAGAAAATGAGT
1 GAAA-AAAAGAAAATGAGT
**
56534858 TTAAAAAAG-AAATGAGT
1 GAAAAAAAGAAAATGAGT
56534875 GAAAAA
1 GAAAAA
56534881 GATGAACAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
17 12 0.63
18 5 0.26
19 2 0.11
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.14
Consensus pattern (18 bp):
GAAAAAAAGAAAATGAGT
Found at i:56536562 original size:19 final size:21
Alignment explanation
Indices: 56536538--56536576 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
56536528 AGCTCGGTTC
56536538 CAGCTTG-TTG-AGCTCAATT
1 CAGCTTGTTTGTAGCTCAATT
56536557 CAGCTTGTTTGTAGCTCAAT
1 CAGCTTGTTTGTAGCTCAAT
56536577 GAGCTCGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 3 0.17
21 8 0.44
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (21 bp):
CAGCTTGTTTGTAGCTCAATT
Found at i:56536586 original size:20 final size:21
Alignment explanation
Indices: 56536548--56536587 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
56536538 CAGCTTGTTG
*
56536548 AGCTCAATTCAGCTTGTTTGT
1 AGCTCAATTCAGCTCGTTTGT
*
56536569 AGCTCAA-TGAGCTCGTTTG
1 AGCTCAATTCAGCTCGTTTG
56536588 CTCATTCCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (21 bp):
AGCTCAATTCAGCTCGTTTGT
Found at i:56537167 original size:47 final size:46
Alignment explanation
Indices: 56537045--56537182 Score: 168
Period size: 47 Copynumber: 2.9 Consensus size: 46
56537035 TTGAAAGCTA
* * *
56537045 CTGAAGCATTAAAGAAAAGCAAGCATGGGACGTCATTAAAGGAGCTG
1 CTGAAGCATTAAAGAAAAGCATGCAT-GGACGGCATTAAAGGAGCAG
* * *
56537092 TTGAAGCATTAAAGAAAAGCATGTATGGACGGCATTAAAATGAGCAG
1 CTGAAGCATTAAAGAAAAGCATGCATGGACGGCATT-AAAGGAGCAG
* * *
56537139 CTGAAGCATTAAAGAAAAACATGCATGGATCAGCAATAAAGGAG
1 CTGAAGCATTAAAGAAAAGCATGCATGGA-CGGCATTAAAGGAG
56537183 TTGATGATTA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
46 9 0.12
47 63 0.82
48 5 0.06
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.18
Consensus pattern (46 bp):
CTGAAGCATTAAAGAAAAGCATGCATGGACGGCATTAAAGGAGCAG
Found at i:56539257 original size:46 final size:46
Alignment explanation
Indices: 56539204--56539379 Score: 149
Period size: 46 Copynumber: 3.8 Consensus size: 46
56539194 GTTTTGGGCA
56539204 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *** * * ** *
56539250 TCCGAACTGGTTGAGTTGAGTTCGAGTTCGAGAGATGTA-ACTAGGTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAATG
* * *
56539297 TCC-AAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
56539343 CCCTAGCTCATTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56539380 GCGGGTTACA
Statistics
Matches: 99, Mismatches: 26, Indels: 10
0.73 0.19 0.07
Matches are distributed among these distances:
46 67 0.68
47 32 0.32
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:56545073 original size:29 final size:29
Alignment explanation
Indices: 56545010--56545077 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
56545000 TAATCAACCG
56545010 CGCACACTTAGTACCATGCACTTTAAACT
1 CGCACACTTAGTACCATGCACTTTAAACT
* * **
56545039 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTACCATGCACTTT-AAACT
56545068 CGCACACTTA
1 CGCACACTTA
56545078 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.29, C:0.31, G:0.12, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTACCATGCACTTTAAACT
Found at i:56545219 original size:28 final size:28
Alignment explanation
Indices: 56545156--56545306 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
56545146 ATATTAAGTC
*
56545156 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
56545183 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
56545211 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
56545239 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56545267 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
56545296 CGCACACTTAG
1 CGCACACTTAG
56545307 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56548181 original size:26 final size:27
Alignment explanation
Indices: 56548152--56548205 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
56548142 TCACACAAGT
*
56548152 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
56548178 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
56548205 T
1 T
56548206 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:56548254 original size:27 final size:26
Alignment explanation
Indices: 56548224--56548320 Score: 86
Period size: 27 Copynumber: 3.6 Consensus size: 26
56548214 TACCCCACAA
56548224 GGGTATCTCTGTAATTCTACCCTATAG
1 GGGTAT-TCTGTAATTCTACCCTATAG
* ** *
56548251 GGGTATTTCGGTGTTTCTACCCTATAA
1 GGGTA-TTCTGTAATTCTACCCTATAG
* * *
56548278 GGGTATTTTGGTAATTCTACCTTACAG
1 GGGTATTCT-GTAATTCTACCCTATAG
*
56548305 GGGTATTTTAGTAATT
1 GGGTATTCT-GTAATT
56548321 TTACAACTTA
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
26 2 0.04
27 53 0.95
28 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (26 bp):
GGGTATTCTGTAATTCTACCCTATAG
Found at i:56549430 original size:33 final size:33
Alignment explanation
Indices: 56549384--56549476 Score: 90
Period size: 33 Copynumber: 3.0 Consensus size: 33
56549374 GTAATAGTCG
* * *
56549384 GGGCCTGAACCCTATTCAGTATCAATACAGTTT
1 GGGCCTTAGCCCTATTCAGTATCAATACAGTGT
*
56549417 GGGCCTTAGCCCTATACAG--T--A-ACAGTGT
1 GGGCCTTAGCCCTATTCAGTATCAATACAGTGT
*
56549445 GGGCCCTAG-CCTAATTCAGTATCAATACAGTG
1 GGGCCTTAGCCCT-ATTCAGTATCAATACAGTG
56549477 CAGTCATGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
27 3 0.06
28 19 0.40
29 1 0.02
30 1 0.02
31 1 0.02
32 1 0.02
33 22 0.46
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (33 bp):
GGGCCTTAGCCCTATTCAGTATCAATACAGTGT
Found at i:56551886 original size:38 final size:38
Alignment explanation
Indices: 56551843--56551918 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
56551833 TTCATCCTTT
56551843 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
56551881 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
56551919 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:56553201 original size:40 final size:40
Alignment explanation
Indices: 56553107--56553251 Score: 191
Period size: 40 Copynumber: 3.6 Consensus size: 40
56553097 TACTCGAATG
* *
56553107 ATATCCGGGCTAAGCCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGCGACT
* * *
56553148 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * * *
56553188 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
*
56553228 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
56553252 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 62 0.69
41 28 0.31
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
Found at i:56556136 original size:27 final size:27
Alignment explanation
Indices: 56556106--56556159 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
56556096 TCATACAACC
* *
56556106 CACGTAATAGTAATTTAACATTCAATT
1 CACGTAACAATAATTTAACATTCAATT
**
56556133 CACGTAACAATAATTTGCCATTCAATT
1 CACGTAACAATAATTTAACATTCAATT
56556160 TCACATTACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (27 bp):
CACGTAACAATAATTTAACATTCAATT
Found at i:56557401 original size:20 final size:20
Alignment explanation
Indices: 56557376--56557420 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
56557366 AGGGACTAAA
* *
56557376 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
56557396 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
56557416 ATGAA
1 ATGAA
56557421 TACATGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:56560133 original size:21 final size:24
Alignment explanation
Indices: 56560088--56560143 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 24
56560078 AGCCAAATGG
56560088 ATTGGTATGACTTTAGTACATGAA
1 ATTGGTATGACTTTAGTACATGAA
*
56560112 ATTGGTATG-CTTT-G-ATATGAA
1 ATTGGTATGACTTTAGTACATGAA
56560133 ATTGAGTATGA
1 ATTG-GTATGA
56560144 AATGGATTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 10 0.34
22 6 0.21
23 4 0.14
24 9 0.31
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.39
Consensus pattern (24 bp):
ATTGGTATGACTTTAGTACATGAA
Found at i:56562072 original size:32 final size:32
Alignment explanation
Indices: 56562031--56562109 Score: 113
Period size: 32 Copynumber: 2.5 Consensus size: 32
56562021 ACAGTCGCAA
* * * *
56562031 TTGGGCCTAGCCCATCTTAGAATCAATATTAG
1 TTGGGCCTAGCCCATATCAGAACCAATATCAG
*
56562063 TTGGGCCTAGCCCATATCAGAACCAGTATCAG
1 TTGGGCCTAGCCCATATCAGAACCAATATCAG
56562095 TTGGGCCTAGCCCAT
1 TTGGGCCTAGCCCAT
56562110 TTCAATATCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (32 bp):
TTGGGCCTAGCCCATATCAGAACCAATATCAG
Found at i:56562081 original size:26 final size:26
Alignment explanation
Indices: 56562052--56562119 Score: 64
Period size: 32 Copynumber: 2.4 Consensus size: 26
56562042 CCATCTTAGA
*
56562052 ATCAATATTAGTTGGGCCTAGCCCAT
1 ATCAATATCAGTTGGGCCTAGCCCAT
56562078 ATCAGAACCAGTATCAGTTGGGCCTAGCCCAT
1 ATC---A--A-TATCAGTTGGGCCTAGCCCAT
*
56562110 TTCAATATCA
1 ATCAATATCA
56562120 AACCCATATG
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
26 8 0.24
27 1 0.03
29 2 0.06
31 1 0.03
32 22 0.65
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (26 bp):
ATCAATATCAGTTGGGCCTAGCCCAT
Found at i:56574187 original size:29 final size:30
Alignment explanation
Indices: 56574140--56574207 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
56574130 TGGGCCAAGA
* * *
56574140 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
56574170 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
56574200 GCAAATAT
1 GTAAATAT
56574208 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:56575141 original size:17 final size:18
Alignment explanation
Indices: 56575119--56575153 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
56575109 AAATGAAATT
56575119 GTAAA-TTGTGAGATATA
1 GTAAATTTGTGAGATATA
56575136 GTAAATTTTGTGAGATAT
1 GTAAA-TTTGTGAGATAT
56575154 GGTCAGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
19 11 0.69
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (18 bp):
GTAAATTTGTGAGATATA
Found at i:56582004 original size:30 final size:30
Alignment explanation
Indices: 56581968--56582028 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
56581958 CAAACAATAC
56581968 TGAAAAATTCATAATATACAAAACATCAAT
1 TGAAAAATTCATAATATACAAAACATCAAT
56581998 TGAAAAATTCATAATATACAAAACATCAAT
1 TGAAAAATTCATAATATACAAAACATCAAT
56582028 T
1 T
56582029 AATAAACACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.13, G:0.03, T:0.28
Consensus pattern (30 bp):
TGAAAAATTCATAATATACAAAACATCAAT
Found at i:56582364 original size:40 final size:41
Alignment explanation
Indices: 56582313--56582407 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 41
56582303 CTTGGTATCA
* *
56582313 CACACTTAGTGCCT-CATATAGCCGAAGCTAT-TCCAATTCG
1 CACACTAAGTGCCTACATATAGCCGAAGCTATCTCCAA-ACG
* * * *
56582353 CACACTAAGTGCTATATATATAGCTGAAGCTATCTCGAAACG
1 CACACTAAGTGC-CTACATATAGCCGAAGCTATCTCCAAACG
56582395 CACACTAAGTGCC
1 CACACTAAGTGCC
56582408 AAACATAGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
40 11 0.24
41 1 0.02
42 29 0.64
43 4 0.09
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (41 bp):
CACACTAAGTGCCTACATATAGCCGAAGCTATCTCCAAACG
Found at i:56584018 original size:21 final size:21
Alignment explanation
Indices: 56583976--56584019 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
56583966 GCAAAAGAGA
* *
56583976 AAGTTGTTGCTAAAGAAGAAG
1 AAGTTGTTGCAAAAGAAAAAG
56583997 AAGTTGTTG-AAAATGAAAAAG
1 AAGTTGTTGCAAAA-GAAAAAG
56584018 AA
1 AA
56584020 TAAGAAGAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.50, C:0.02, G:0.25, T:0.23
Consensus pattern (21 bp):
AAGTTGTTGCAAAAGAAAAAG
Found at i:56589690 original size:11 final size:11
Alignment explanation
Indices: 56589674--56589703 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
56589664 AAGTACACAT
56589674 TTTCATTGCAA
1 TTTCATTGCAA
56589685 TTTCATTGCAA
1 TTTCATTGCAA
56589696 TTTCATTG
1 TTTCATTG
56589704 TCATTACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (11 bp):
TTTCATTGCAA
Found at i:56595297 original size:39 final size:39
Alignment explanation
Indices: 56595205--56595427 Score: 281
Period size: 39 Copynumber: 5.7 Consensus size: 39
56595195 TAATTGAGGA
* * * *
56595205 TTATAACCGGGCTAAGACCTGAAGGCCTTC-TG-TGAGAT-
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTG-G-TG
*
56595243 TTATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
56595282 TTATGTCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
56595321 TTATGTCTGGGCTAAGTCCCGAAGGCATTCGTGCTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * *
56595360 TTGTATCCGAGCTAAGTCCCGAAGGTATTCGTGCTGGAG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
56595399 TTATATCCGGGCTAAGTTCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
56595428 TATGTTGGAA
Statistics
Matches: 162, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
38 26 0.16
39 134 0.83
40 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:56603143 original size:39 final size:39
Alignment explanation
Indices: 56603080--56603341 Score: 380
Period size: 39 Copynumber: 6.7 Consensus size: 39
56603070 GTGTGAGATC
** *
56603080 TATATCCGGGCTAAGTTTCAAAGGCATTCGTGCTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGT
* * *
56603119 TATGTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGT
*
56603158 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGT
* * * *
56603197 TATGTTCGGGCCAAGTCCCGAAGGTATTCGTGCTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGT
**
56603236 TATATCCGGGCTAAGTCCCGAAGATATTCGTGCTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGT
* * *
56603275 TATATCCGGGATAAGTCCCGAAGGTATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGT
56603314 TATATCCGGGCTAAGTCCCGAAGGCATT
1 TATATCCGGGCTAAGTCCCGAAGGCATT
56603342 TGTGTTGGAA
Statistics
Matches: 201, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 201 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGT
Found at i:56605364 original size:42 final size:42
Alignment explanation
Indices: 56605302--56605385 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
56605292 GCTTCGACAA
* *
56605302 CTATCCTCAGAATTTGTCTCATTTCTATCTAGTTATTGCACT
1 CTATCCTCACAATTTATCTCATTTCTATCTAGTTATTGCACT
56605344 CTATCCTCACAATTTATCTCATTTCTATCTAGTTATTGCACT
1 CTATCCTCACAATTTATCTCATTTCTATCTAGTTATTGCACT
56605386 GACATTAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.23, C:0.25, G:0.07, T:0.45
Consensus pattern (42 bp):
CTATCCTCACAATTTATCTCATTTCTATCTAGTTATTGCACT
Found at i:56609024 original size:40 final size:40
Alignment explanation
Indices: 56608969--56609145 Score: 327
Period size: 40 Copynumber: 4.4 Consensus size: 40
56608959 GAAAAAAAAA
56608969 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
56609009 TATAACCGAGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
56609049 TATAACCAGGTTAAGTCCCAAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
56609089 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
56609129 TATAACCGGGTTAAGTC
1 TATAACCGGGTTAAGTC
56609146 TTGAAGTCAT
Statistics
Matches: 131, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 131 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:56617229 original size:40 final size:40
Alignment explanation
Indices: 56617174--56617570 Score: 688
Period size: 40 Copynumber: 9.9 Consensus size: 40
56617164 AAAAAAAATA
56617174 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
* *
56617214 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGTGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
*
56617254 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
56617294 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
*
56617334 TATAATCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
56617374 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
*
56617414 -ATAACCGAGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
*
56617453 TATAAACGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
* * *
56617493 TATAACCGGGTTAAGTCTCGAAGGCATTCGTGCAGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
* *
56617533 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
56617571 GTTACATCCG
Statistics
Matches: 340, Mismatches: 16, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 38 0.11
40 302 0.89
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
Found at i:56617596 original size:199 final size:200
Alignment explanation
Indices: 56617189--56617596 Score: 629
Period size: 199 Copynumber: 2.0 Consensus size: 200
56617179 CCGGGTTAAG
* * *
56617189 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTGTGGGTTAT
1 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGAGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
* *
56617254 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
66 TATAAACGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGC
* * * *
56617319 ATTCGTGCGGGTTACTATAATCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTACTATAACCGGG
131 ATTCGTGCAGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTACTACAACCGAG
** *
56617384 TTAAG
196 CCAAA
56617389 TCCCGAAGGCATTCGTGCGGGTTAC-ATAACCGAGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
1 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGAGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
*
56617453 TATAAACGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCTCGAAGGC
66 TATAAACGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGC
* * * ** *
56617518 ATTCGTGCAGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGTTACATCCGAG
131 ATTCGTGCAGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTACTACAACCGAG
56617583 CCAAA
196 CCAAA
*
56617588 TTCCGAAGG
1 TCCCGAAGG
56617597 TATTTATGTT
Statistics
Matches: 188, Mismatches: 20, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
199 163 0.87
200 25 0.13
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (200 bp):
TCCCGAAGGCATTCGTGCGGGTTACTATAACCGAGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
TATAAACGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGC
ATTCGTGCAGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTACTACAACCGAG
CCAAA
Found at i:56623400 original size:17 final size:18
Alignment explanation
Indices: 56623369--56623402 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
56623359 CTCTCCTAAA
56623369 ACGATTCTGATCTTTCTC
1 ACGATTCTGATCTTTCTC
56623387 ACGATTCT-ATCTTTCT
1 ACGATTCTGATCTTTCT
56623403 GTATGCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.18, C:0.26, G:0.09, T:0.47
Consensus pattern (18 bp):
ACGATTCTGATCTTTCTC
Found at i:56625126 original size:19 final size:19
Alignment explanation
Indices: 56625102--56625147 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
56625092 AGATATATGT
56625102 GGCGAGGCCACTAGATTGC
1 GGCGAGGCCACTAGATTGC
56625121 GGCGAGGCCACTAGATTGC
1 GGCGAGGCCACTAGATTGC
*
56625140 AGCGAGGC
1 GGCGAGGC
56625148 TGCCAGAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.22, C:0.26, G:0.39, T:0.13
Consensus pattern (19 bp):
GGCGAGGCCACTAGATTGC
Found at i:56628778 original size:46 final size:48
Alignment explanation
Indices: 56628674--56628793 Score: 145
Period size: 48 Copynumber: 2.5 Consensus size: 48
56628664 TGTCTTCGAC
** * *
56628674 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* * * *
56628722 ATGGGCTTACATGGCTCATTCCTGTCTCTAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
*
56628768 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
56628794 CTGTCCTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 27 0.44
47 1 0.02
48 34 0.55
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:56631378 original size:26 final size:27
Alignment explanation
Indices: 56631349--56631470 Score: 97
Period size: 26 Copynumber: 4.6 Consensus size: 27
56631339 TTAGTTTACC
*
56631349 AAATTACTAAAATACCCCCAG-TTGTA
1 AAATTACCAAAATACCCCCAGATTGTA
* ** * *
56631375 AAATTACCAAAGTACCCCTGGTTTATA
1 AAATTACCAAAATACCCCCAGATTGTA
** *
56631402 AAATTACCAAAATACCATC-GATTGTG
1 AAATTACCAAAATACCCCCAGATTGTA
** *
56631428 AAATTACTGAAATACCCTC-GATTTGTA
1 AAATTACCAAAATACCCCCAGA-TTGTA
*
56631455 AAATTACCGAAATACC
1 AAATTACCAAAATACC
56631471 TTTGTAGGGT
Statistics
Matches: 77, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
26 39 0.51
27 38 0.49
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCCCAGATTGTA
Found at i:56631432 original size:53 final size:53
Alignment explanation
Indices: 56631370--56631470 Score: 125
Period size: 53 Copynumber: 1.9 Consensus size: 53
56631360 ATACCCCCAG
*
56631370 TTGTAAAATTAC-CAAAGTACCC-CTGGTTTATAAAATTACCAAAATACCATCGA
1 TTGTAAAATTACTCAAA-TACCCTC-GATTTATAAAATTACCAAAATACCATCGA
* * * *
56631423 TTGTGAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACC
1 TTGTAAAATTACTCAAATACCCTCGATTTATAAAATTACCAAAATACC
56631471 TTTGTAGGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
53 37 0.90
54 4 0.10
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.30
Consensus pattern (53 bp):
TTGTAAAATTACTCAAATACCCTCGATTTATAAAATTACCAAAATACCATCGA
Found at i:56631461 original size:27 final size:26
Alignment explanation
Indices: 56631349--56631470 Score: 111
Period size: 27 Copynumber: 4.6 Consensus size: 26
56631339 TTAGTTTACC
* * *
56631349 AAATTACTAAAATACCCCCAGTTGTA
1 AAATTACCAAAATACCCCGATTTGTA
* * *
56631375 AAATTACCAAAGTACCCCTGGTTTATA
1 AAATTACCAAAATACCCC-GATTTGTA
* *
56631402 AAATTACCAAAATACCATCGA-TTGTG
1 AAATTACCAAAATACC-CCGATTTGTA
**
56631428 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCC-CGATTTGTA
*
56631455 AAATTACCGAAATACC
1 AAATTACCAAAATACC
56631471 TTTGTAGGGT
Statistics
Matches: 76, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
26 36 0.47
27 39 0.51
28 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (26 bp):
AAATTACCAAAATACCCCGATTTGTA
Found at i:56631486 original size:27 final size:27
Alignment explanation
Indices: 56631456--56631643 Score: 252
Period size: 27 Copynumber: 7.0 Consensus size: 27
56631446 CGATTTGTAA
*
56631456 AATTACCGAAATACCTTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
56631483 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
56631510 AAATAGCGAAATACCCCTCTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
56631537 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
56631564 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
56631591 AATTACTGAAATACCCTTGTAGGTTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
56631618 AATTACC-AAGATACCCTTGTAGGGTA
1 AATTACCGAA-ATACCCTTGTAGGGTA
56631644 AAATACCATT
Statistics
Matches: 140, Mismatches: 20, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
26 2 0.01
27 138 0.99
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:56631499 original size:54 final size:54
Alignment explanation
Indices: 56631429--56631643 Score: 267
Period size: 54 Copynumber: 4.0 Consensus size: 54
56631419 TCGATTGTGA
* ** **
56631429 AATTACTGAAATACCCTCG-ATTTGTA-AAATTACCGAAATACCTTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTA-GGGTAGAAA-TACCGAAATACCCCTGTAGGGTAG
* *
56631483 AATTACTGAAATACCCTTGTAGGGTAGAAATAGCGAAATACCCCTCTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
*
56631537 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * *
56631591 AATTACTGAAATACCCTTGTAGGTTAGAATTACC-AAGATACCCTTGTAGGGTA
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAA-ATACCCCTGTAGGGTA
56631644 AAATACCATT
Statistics
Matches: 142, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
53 3 0.02
54 134 0.94
55 5 0.04
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
Found at i:56632014 original size:26 final size:27
Alignment explanation
Indices: 56631985--56632044 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
56631975 CCACATATAT
*
56631985 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
56632011 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
56632038 ATATCTG
1 ATATCTG
56632045 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:56632174 original size:6 final size:6
Alignment explanation
Indices: 56632163--56632293 Score: 90
Period size: 6 Copynumber: 21.3 Consensus size: 6
56632153 TTGCTTTCAC
* * *
56632163 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * *
56632213 ATTCTG ATTCTG GTTTTG ATTTTG ATTCTG -TCACCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
56632262 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
56632294 AATGTTTCTT
Statistics
Matches: 98, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
5 5 0.05
6 81 0.83
7 9 0.09
8 3 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Done.