Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 170 of 320
Found at i:56118575 original size:42 final size:41
Alignment explanation
Indices: 56118463--56118579 Score: 108
Period size: 43 Copynumber: 2.8 Consensus size: 41
56118453 CATACAATAC
* * * * *
56118463 CATACCAATGCCATATCCCAAATATGGTCTTACATGGGATCT
1 CATATCAATGCAATATCCC-AATATGGTCTTAAACGAGATCT
* * *
56118505 CATATCAATGCCAATAGCCCAACTATGGTGTTAAACGAGTTCT
1 CATATCAATG-CAATATCCCAA-TATGGTCTTAAACGAGATCT
**
56118548 CATATTGATGCAATATCCCAGATATGGTCTTA
1 CATATCAATGCAATATCCCA-ATATGGTCTTA
56118580 CATGTAATCT
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 29 0.48
43 31 0.52
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (41 bp):
CATATCAATGCAATATCCCAATATGGTCTTAAACGAGATCT
Found at i:56129450 original size:23 final size:23
Alignment explanation
Indices: 56129424--56129503 Score: 142
Period size: 23 Copynumber: 3.5 Consensus size: 23
56129414 CCCCAAGCAC
56129424 ACGGGCGTGTGCATTGCCTCCAT
1 ACGGGCGTGTGCATTGCCTCCAT
*
56129447 ACGGGTGTGTGCATTGCCTCCAT
1 ACGGGCGTGTGCATTGCCTCCAT
*
56129470 ACGGGCGTGTGCATTGCCTCCAC
1 ACGGGCGTGTGCATTGCCTCCAT
56129493 ACGGGCGTGTG
1 ACGGGCGTGTG
56129504 AGGCTTTAAC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.12, C:0.29, G:0.34, T:0.25
Consensus pattern (23 bp):
ACGGGCGTGTGCATTGCCTCCAT
Found at i:56144161 original size:64 final size:65
Alignment explanation
Indices: 56144057--56144232 Score: 178
Period size: 67 Copynumber: 2.6 Consensus size: 65
56144047 CATCATGTGT
* * *
56144057 ACAAGAGAGCTACAAGACATTATTATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GAGA-TA-TATGTAGCTAGGTCGCATGGGTGATAC-AGTGAAGGACACCA
56144120 TGTAG
61 TGTAG
* ** *
56144125 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCATGGTTACAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGT-GATACA-GTGAAGGACACCATGT
56144190 AG
64 AG
* * *
56144192 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTG
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTG
56144233 GTATTGAGTG
Statistics
Matches: 91, Mismatches: 13, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
64 21 0.23
65 7 0.08
66 18 0.20
67 32 0.35
68 13 0.14
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (65 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACAGTGAAGGACACCATGTAG
Found at i:56148581 original size:26 final size:26
Alignment explanation
Indices: 56148549--56148599 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
56148539 CCAAATTCTA
56148549 TTTCTGTGAATTC-TAGCTTAGGCTAT
1 TTTCTGTG-ATTCTTAGCTTAGGCTAT
56148575 TTTCTGTGATTCTTAGCTTAGGCTA
1 TTTCTGTGATTCTTAGCTTAGGCTA
56148600 GATAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.47
Consensus pattern (26 bp):
TTTCTGTGATTCTTAGCTTAGGCTAT
Found at i:56162065 original size:28 final size:28
Alignment explanation
Indices: 56162029--56162111 Score: 139
Period size: 28 Copynumber: 3.0 Consensus size: 28
56162019 ATATCCATGC
*
56162029 CGATGCCATGTCCAAGACATGGTCTTAT
1 CGATGCCATGTCCCAGACATGGTCTTAT
* *
56162057 CGATCCCATGTCCCAGACATGGTCTTGT
1 CGATGCCATGTCCCAGACATGGTCTTAT
56162085 CGATGCCATGTCCCAGACATGGTCTTA
1 CGATGCCATGTCCCAGACATGGTCTTA
56162112 CACTGACACG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (28 bp):
CGATGCCATGTCCCAGACATGGTCTTAT
Found at i:56162179 original size:46 final size:46
Alignment explanation
Indices: 56162085--56162301 Score: 185
Period size: 46 Copynumber: 4.7 Consensus size: 46
56162075 ATGGTCTTGT
* * *
56162085 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACGTCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCG-AGGC
*
56162131 CGATGCATGTCCCAGACATGCCTTACACTGGCT-TACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGGC
* * * * * **
56162177 CGATGCATGTCGCAAACATGTCTTACACTAGCTCTCGTCTCAATAC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGC
* * * * *
56162223 CGATGCATGACCTAGACATGGTCTTACATTGGCTCTCATAAT--ATGGT
1 CGATGCATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGA-GGC
56162270 CGATGCATGTCCCAGACATGTCTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
56162302 ACACAAATAA
Statistics
Matches: 137, Mismatches: 26, Indels: 16
0.77 0.15 0.09
Matches are distributed among these distances:
44 9 0.07
45 16 0.12
46 77 0.56
47 34 0.25
48 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGC
Found at i:56162289 original size:93 final size:89
Alignment explanation
Indices: 56162083--56162299 Score: 224
Period size: 93 Copynumber: 2.4 Consensus size: 89
56162073 ACATGGTCTT
* *
56162083 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACACGTCTCGTAGCCGATGCATGTCCCAGAC
1 GTCGATG-CATGTCCCAGACAT-GTCTTACACTGACACGTCTCATAGCCGATGCATGACCCAGAC
*
56162148 ATGCCTTACACTGGCTTACATCTCGAG
64 ATGCCTTACACTGGCTTACATATC-AG
* * * * * *
56162175 GCCGATGCATGTCGCAAACATGTCTTACACTAGCTCTCGTCTCAATA-CCGATGCATGACCTAGA
1 GTCGATGCATGTCCCAGACATGTCTTACACT-G-ACACGTCTC-ATAGCCGATGCATGACCCAGA
* *
56162239 CATGGTCTTACATTGGCTCT-CATAAT-ATG
63 CAT-GCCTTACACTGGCT-TACAT-ATCA-G
56162268 GTCGATGCATGTCCCAGACATGTCTTACACTG
1 GTCGATGCATGTCCCAGACATGTCTTACACTG
56162300 GCACACAAAT
Statistics
Matches: 104, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
90 10 0.10
91 13 0.12
92 33 0.32
93 46 0.44
94 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (89 bp):
GTCGATGCATGTCCCAGACATGTCTTACACTGACACGTCTCATAGCCGATGCATGACCCAGACAT
GCCTTACACTGGCTTACATATCAG
Found at i:56165834 original size:22 final size:22
Alignment explanation
Indices: 56165806--56165851 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
56165796 GAAGGGAATG
56165806 TAAGTATTTTCAAATGATTCTA
1 TAAGTATTTTCAAATGATTCTA
56165828 TAAGTATTTTCAAATGATTCTA
1 TAAGTATTTTCAAATGATTCTA
56165850 TA
1 TA
56165852 TCAATTATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (22 bp):
TAAGTATTTTCAAATGATTCTA
Found at i:56167760 original size:16 final size:18
Alignment explanation
Indices: 56167734--56167766 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
56167724 TTAAACTAAC
56167734 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
56167751 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
56167767 CCGAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:56173993 original size:55 final size:54
Alignment explanation
Indices: 56173739--56173993 Score: 253
Period size: 55 Copynumber: 4.8 Consensus size: 54
56173729 ACACAACTAC
* *
56173739 CTTACC-ATTGCCATGACTTGTCATGGTCTTACATGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
56173788 CTTACC-ATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * *
56173841 CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGAG-A-CCTTTGCCTTATAGTAT
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATG-GTATCC-TTGCC-T-TAGAAA
* * * *
56173896 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
56173949 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTCTCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
56173994 AAACCCTAAT
Statistics
Matches: 171, Mismatches: 20, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
49 41 0.24
52 4 0.02
53 41 0.24
54 13 0.08
55 70 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:56179327 original size:46 final size:46
Alignment explanation
Indices: 56179252--56179424 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
56179242 TGTAACCCGC
* * * *
56179252 CCATAAGCGAACTCGGAATCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTTGCAT
* *
56179298 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCGTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCGT--TTGCAT
* * *
56179348 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTTGCAT
*
56179391 CCATAAGTGAACTTGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
56179425 AGATGCTCAA
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 4 0.04
46 58 0.54
47 29 0.27
48 6 0.06
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTTGCAT
Found at i:56179419 original size:93 final size:93
Alignment explanation
Indices: 56179260--56179430 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
56179250 GCCCATAAGC
* * *
56179260 GAACTCGGAATCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
56179325 CGAGTTCGGATGCGTAGTTACATCTCAT
66 CGAGTTCAGATGCGTAGTTACATCTCAT
* * * *
56179353 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56179418 CGAGTTCAGATGC
66 CGAGTTCAGATGC
56179431 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCGTAGTTACATCTCAT
Found at i:56179446 original size:46 final size:45
Alignment explanation
Indices: 56179303--56179446 Score: 118
Period size: 46 Copynumber: 3.1 Consensus size: 45
56179293 CGCATCCATG
*
56179303 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCGT-AGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGC-TCA---ACCATCT
* * * *
56179350 CA-TGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTC--AGATGCT-CAACCATCT
*
56179396 AGTGAACTTGGACTCAACTCAACGAGTTCAGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCAT-CT
56179442 AGTGA
1 AGTGA
56179447 CATGTCACTT
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
44 9 0.12
45 2 0.03
46 31 0.40
47 31 0.40
48 1 0.01
49 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCT
Found at i:56180806 original size:15 final size:15
Alignment explanation
Indices: 56180786--56180815 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
56180776 TGGGGTGCGC
56180786 TGCTTCTATTTGTAA
1 TGCTTCTATTTGTAA
56180801 TGCTTCTATTTGTAA
1 TGCTTCTATTTGTAA
56180816 AGAAGAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (15 bp):
TGCTTCTATTTGTAA
Found at i:56184156 original size:20 final size:20
Alignment explanation
Indices: 56184131--56184182 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
56184121 AGGGACAAAA
56184131 ATGAAAAGATGTAAAATTTG
1 ATGAAAAGATGTAAAATTTG
* *
56184151 ATGAAAA-ATTCTAAAATTTT
1 ATGAAAAGA-TGTAAAATTTG
*
56184171 ATGAATAGATGT
1 ATGAAAAGATGT
56184183 GCTGGAAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.35
Consensus pattern (20 bp):
ATGAAAAGATGTAAAATTTG
Found at i:56188725 original size:44 final size:42
Alignment explanation
Indices: 56188677--56188771 Score: 138
Period size: 44 Copynumber: 2.2 Consensus size: 42
56188667 TGTGTTATCC
*
56188677 TGTAAGACCATGTCTAGGACATTGGCATCG-ACTTATGATTTGCG
1 TGTAAGACCATGTCTAGGACATCGGCATCGTA-TT-TGATTT-CG
*
56188721 TGTAAGACCATGTCTAGGATATCGGCATCGTATTTGATTTCG
1 TGTAAGACCATGTCTAGGACATCGGCATCGTATTTGATTTCG
56188763 TGTAAGACC
1 TGTAAGACC
56188772 CTGCCTGGGA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
42 11 0.23
43 6 0.12
44 30 0.62
45 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACATCGGCATCGTATTTGATTTCG
Found at i:56188783 original size:42 final size:41
Alignment explanation
Indices: 56188677--56188820 Score: 137
Period size: 43 Copynumber: 3.4 Consensus size: 41
56188667 TGTGTTATCC
*
56188677 TGTAAGACCATGTCTAGGACATTGGCATCG-ACTTATGATTTGCG
1 TGTAAGACCATGTCTAGGATA-TGGCATCGTA-TT-TGATTT-CG
56188721 TGTAAGACCATGTCTAGGATATCGGCATCGTATTTGATTTCG
1 TGTAAGACCATGTCTAGGATAT-GGCATCGTATTTGATTTCG
* * * * * * *
56188763 TGTAAGACCCTGCCTGGGATAGTGGCATCAATATTTGGTTACA
1 TGTAAGACCATGTCTAGGATA-TGGCATC-GTATTTGATTTCG
*
56188806 TGTAAGACCACGTCT
1 TGTAAGACCATGTCT
56188821 GGGACGTTGG
Statistics
Matches: 85, Mismatches: 11, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
42 26 0.31
43 29 0.34
44 29 0.34
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (41 bp):
TGTAAGACCATGTCTAGGATATGGCATCGTATTTGATTTCG
Found at i:56188798 original size:43 final size:42
Alignment explanation
Indices: 56188677--56188815 Score: 120
Period size: 42 Copynumber: 3.2 Consensus size: 42
56188667 TGTGTTATCC
* * * *
56188677 TGTAAGACCATGTCTAGGACATTGGCATCGACT-TATGATTTGCG
1 TGTAAGACCATGCCTAGGATATCGGCATC-A-TATTTGATTT-CG
* *
56188721 TGTAAGACCATGTCTAGGATATCGGCATCGTATTTGATTTCG
1 TGTAAGACCATGCCTAGGATATCGGCATCATATTTGATTTCG
* * * * *
56188763 TGTAAGACCCTGCCTGGGATAGT-GGCATCAATATTTGGTTACA
1 TGTAAGACCATGCCTAGGATA-TCGGCATC-ATATTTGATTTCG
56188806 TGTAAGACCA
1 TGTAAGACCA
56188816 CGTCTGGGAC
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
42 27 0.34
43 26 0.32
44 27 0.34
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGCCTAGGATATCGGCATCATATTTGATTTCG
Found at i:56198747 original size:12 final size:12
Alignment explanation
Indices: 56198730--56198759 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
56198720 TACAGGTTTG
56198730 ACACGGCCTAGC
1 ACACGGCCTAGC
*
56198742 ACACGGCCTGGC
1 ACACGGCCTAGC
56198754 ACACGG
1 ACACGG
56198760 GTGTGTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:56202372 original size:47 final size:46
Alignment explanation
Indices: 56202272--56202436 Score: 171
Period size: 47 Copynumber: 3.6 Consensus size: 46
56202262 TTATTTGTGT
*
56202272 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTAC-ATCATG-AGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-AATGTA-A
* * *
56202318 GCCAGTGTAAGACCATGTCTGGGACATGCATGGGCCT-CGAGATGTAA
1 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGG-CTACGAAATGTAA
* *
56202365 GCTAGTGTAAGACATGTCTGGGGA-ATGCACCGACTACGAAATGT--
1 GCTAGTGTAAGACATGTCT-GGGACATGCATCGGCTACGAAATGTAA
*
56202409 GTTAGTGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
56202437 GCGTCGGCAC
Statistics
Matches: 102, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
44 15 0.15
45 12 0.12
46 31 0.30
47 40 0.39
48 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAAATGTAA
Found at i:56209678 original size:46 final size:45
Alignment explanation
Indices: 56209625--56209800 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
56209615 TGGTTGAGCA
56209625 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
56209671 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
56209718 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
56209764 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56209801 GCGGGTTACA
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 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:56209781 original size:93 final size:93
Alignment explanation
Indices: 56209622--56209792 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
56209612 GGATGGTTGA
* * *
56209622 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56209687 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
56209715 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56209780 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56209793 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:56218349 original size:47 final size:47
Alignment explanation
Indices: 56218296--56218403 Score: 180
Period size: 47 Copynumber: 2.3 Consensus size: 47
56218286 TTAGGATTTT
* * *
56218296 AATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCAAATGGCC
1 AATGTGATGAATGTGAACATGCATATGCGTGATAAGGCCAAATGACC
*
56218343 AATGTGATGAATGTGAACATGCATATGCGTGATAAGGCCGAATGACC
1 AATGTGATGAATGTGAACATGCATATGCGTGATAAGGCCAAATGACC
56218390 AATGTGATGAATGT
1 AATGTGATGAATGT
56218404 ATGTGATGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATGCGTGATAAGGCCAAATGACC
Found at i:56218409 original size:13 final size:13
Alignment explanation
Indices: 56218391--56218416 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56218381 CGAATGACCA
56218391 ATGTGATGAATGT
1 ATGTGATGAATGT
56218404 ATGTGATGAATGT
1 ATGTGATGAATGT
56218417 GAACATGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (13 bp):
ATGTGATGAATGT
Found at i:56218437 original size:60 final size:60
Alignment explanation
Indices: 56218344--56218463 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
56218334 CAAATGGCCA
56218344 ATGTGATGAATGTGAACATGCATATGCGTGATAAGGCCGAATGACCAATGTGATGAATGT
1 ATGTGATGAATGTGAACATGCATATGCGTGATAAGGCCGAATGACCAATGTGATGAATGT
* *
56218404 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 ATGTGATGAATGTGAACATGCATATGCGTGATAAGGCCGAATGACCAATGTGATGAATGT
56218464 GAACGTGCAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.28
Consensus pattern (60 bp):
ATGTGATGAATGTGAACATGCATATGCGTGATAAGGCCGAATGACCAATGTGATGAATGT
Found at i:56218464 original size:47 final size:47
Alignment explanation
Indices: 56218404--56218503 Score: 164
Period size: 47 Copynumber: 2.1 Consensus size: 47
56218394 TGATGAATGT
*
56218404 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCAGAATGGCCA
* * *
56218451 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGTAGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCAGAATGGCCA
56218498 ATGTGA
1 ATGTGA
56218504 AATATGTATG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCAGAATGGCCA
Found at i:56218493 original size:107 final size:107
Alignment explanation
Indices: 56218297--56218503 Score: 342
Period size: 107 Copynumber: 1.9 Consensus size: 107
56218287 TAGGATTTTA
*
56218297 ATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACA
*
56218362 TGCATATGCGTGATAAGGCCGAATGACCAATGTGATGAATGT
66 TGCATATGCGTGATAAGGCAGAATGACCAATGTGATGAATGT
* *
56218404 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACG
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACA
* * * *
56218469 TGCATATGTGTGATAAGGTAGAATGGCTAATGTGA
66 TGCATATGCGTGATAAGGCAGAATGACCAATGTGA
56218504 AATATGTATG
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
107 92 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (107 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACA
TGCATATGCGTGATAAGGCAGAATGACCAATGTGATGAATGT
Found at i:56218543 original size:48 final size:48
Alignment explanation
Indices: 56218489--56218608 Score: 222
Period size: 48 Copynumber: 2.5 Consensus size: 48
56218479 TGATAAGGTA
56218489 GAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
56218537 GAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
56218585 GAATGGCTAGTGTGAAATATGTAT
1 GAATGGCTAATGTGAAATATGTAT
56218609 ATTGTGGCCA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
GAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
Found at i:56218796 original size:37 final size:37
Alignment explanation
Indices: 56218741--56218843 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
56218731 GGAAATATAT
56218741 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
56218778 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
56218815 TCCAGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
56218844 GGACTATTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:56223801 original size:22 final size:22
Alignment explanation
Indices: 56223773--56223815 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
56223763 ATCGGGAGAT
56223773 GACGCATCCTTACGAGCACGAG
1 GACGCATCCTTACGAGCACGAG
56223795 GACGCATCCTTACGAGCACGA
1 GACGCATCCTTACGAGCACGA
56223816 ATGGCATACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.33, G:0.26, T:0.14
Consensus pattern (22 bp):
GACGCATCCTTACGAGCACGAG
Found at i:56245526 original size:55 final size:54
Alignment explanation
Indices: 56245431--56245580 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
56245421 CTACTTTGTT
* ** * *
56245431 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
56245485 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
56245540 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
56245581 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:56245543 original size:27 final size:27
Alignment explanation
Indices: 56245403--56245580 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
56245393 TAAATTGTAC
56245403 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
56245430 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
56245456 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
56245484 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
56245512 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
56245539 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
56245566 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56245581 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:56245544 original size:82 final size:81
Alignment explanation
Indices: 56245404--56245559 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
56245394 AAATTGTACA
* * * *
56245404 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
56245469 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
56245485 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
56245548 TGTGCGAGTTGA
63 TGTGCGAATTGA
56245560 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:56258589 original size:39 final size:39
Alignment explanation
Indices: 56258489--56258673 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 39
56258479 TTGAATGATG
* *
56258489 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTAAT
*
56258528 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTAAT
* *
56258569 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTAACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAAT
*
56258608 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAT
* *
56258647 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
56258674 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 12, Indels: 18
0.81 0.08 0.12
Matches are distributed among these distances:
38 1 0.01
39 34 0.27
40 77 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAT
Found at i:56258625 original size:79 final size:79
Alignment explanation
Indices: 56258490--56258706 Score: 235
Period size: 79 Copynumber: 2.7 Consensus size: 79
56258480 TGAATGATGT
* * * **
56258490 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAACTATATCCGGGTTAAG-TCCGAAGGCATTT
*
56258554 GTGCGAGATACTA-ATT
64 GTGCGAGATACTATA-A
* *
56258570 CTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTAACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAACTATATCCGGGTTAAGT-CCGAAGGCATTTG
*
56258634 TGCGAGTTACTATAA
65 TGCGAGATACTATAA
* ** * *
56258649 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAACTATATCCGGGTT-AAGTCCGAAGG
56258707 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 68 0.59
80 47 0.41
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAACTATATCCGGGTTAAGTCCGAAGGCATTTGT
GCGAGATACTATAA
Found at i:56265764 original size:99 final size:99
Alignment explanation
Indices: 56265469--56265765 Score: 495
Period size: 99 Copynumber: 3.0 Consensus size: 99
56265459 TCGATCTGAA
* *
56265469 ATTTCGTGTAAGACCCTATCTGGGATAGAGGCATCAATATTGAATTACATGTAAGACCACGTTTG
1 ATTTCGTGTAAGACCCTGTCTGGGATAGAGGCATCAATATTGAATTACATGTAAGACCACGTCTG
* *
56265534 GGACGTTGGCATCGTACTTGTTTATGAGTATCAG
66 GGACGTTGGCATTGTACTTGTTTATGAGTATCTG
* * * * *
56265568 ATTTTGTGTAAGAACCTGTCTGGGACAGAGGCATCAATATTGAATTACATGTAAGATCACATCTG
1 ATTTCGTGTAAGACCCTGTCTGGGATAGAGGCATCAATATTGAATTACATGTAAGACCACGTCTG
56265633 GGACGTTGGCATTGTACTTGTTTATGAGTATCTG
66 GGACGTTGGCATTGTACTTGTTTATGAGTATCTG
* *
56265667 ATTTCGTGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTACATGTAAGACCACGTCTA
1 ATTTCGTGTAAGACCCTGTCTGGGATAGAGGCATCAATATTGAATTACATGTAAGACCACGTCTG
56265732 GGACGTTGGCATTGTACTTGTTTATGAGTATCTG
66 GGACGTTGGCATTGTACTTGTTTATGAGTATCTG
56265766 TATCGCTTCG
Statistics
Matches: 182, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
99 182 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (99 bp):
ATTTCGTGTAAGACCCTGTCTGGGATAGAGGCATCAATATTGAATTACATGTAAGACCACGTCTG
GGACGTTGGCATTGTACTTGTTTATGAGTATCTG
Found at i:56267111 original size:206 final size:206
Alignment explanation
Indices: 56266757--56267169 Score: 817
Period size: 206 Copynumber: 2.0 Consensus size: 206
56266747 CTCTGAAAAT
56266757 TTTGAATAAGTTCGGTTTAGTTCCGAGCTTTCCTTAAATGTATGTTTTAAGTCTTGTAGACTATA
1 TTTGAATAAGTTCGGTTTAGTTCCGAGCTTTCCTTAAATGTATGTTTTAAGTCTTGTAGACTATA
56266822 TTTGGAGATGATTGCTTATAAAATGATGTTAAATAATATCTGTGATTCTGAATTAGTCTAAAATG
66 TTTGGAGATGATTGCTTATAAAATGATGTTAAATAATATCTGTGATTCTGAATTAGTCTAAAATG
*
56266887 TTCTGTCGGTTTGGTAATGCCTGTAACCCTAATTCAATGTTGGTTACAGGATTAGGGGTATTACA
131 TTCTGTCAGTTTGGTAATGCCTGTAACCCTAATTCAATGTTGGTTACAGGATTAGGGGTATTACA
56266952 TTTTATTGGTA
196 TTTTATTGGTA
56266963 TTTGAATAAGTTCGGTTTAGTTCCGAGCTTTCCTTAAATGTATGTTTTAAGTCTTGTAGACTATA
1 TTTGAATAAGTTCGGTTTAGTTCCGAGCTTTCCTTAAATGTATGTTTTAAGTCTTGTAGACTATA
56267028 TTTGGAGATGATTGCTTATAAAATGATGTTAAATAATATCTGTGATTCTGAATTAGTCTAAAATG
66 TTTGGAGATGATTGCTTATAAAATGATGTTAAATAATATCTGTGATTCTGAATTAGTCTAAAATG
56267093 TTCTGTCAGTTTGGTAATGCCTGTAACCCTAATTCAATGTTGGTTACAGGATTAGGGGTATTACA
131 TTCTGTCAGTTTGGTAATGCCTGTAACCCTAATTCAATGTTGGTTACAGGATTAGGGGTATTACA
56267158 TTTTATTGGTA
196 TTTTATTGGTA
56267169 T
1 T
56267170 ACTTAAGTGT
Statistics
Matches: 206, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
206 206 1.00
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (206 bp):
TTTGAATAAGTTCGGTTTAGTTCCGAGCTTTCCTTAAATGTATGTTTTAAGTCTTGTAGACTATA
TTTGGAGATGATTGCTTATAAAATGATGTTAAATAATATCTGTGATTCTGAATTAGTCTAAAATG
TTCTGTCAGTTTGGTAATGCCTGTAACCCTAATTCAATGTTGGTTACAGGATTAGGGGTATTACA
TTTTATTGGTA
Found at i:56269030 original size:53 final size:55
Alignment explanation
Indices: 56268966--56269105 Score: 167
Period size: 53 Copynumber: 2.6 Consensus size: 55
56268956 TTTTAAAATT
* * *
56268966 ACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G-AACTC
1 ACCATTGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATAGTAACTC
* * * ** *
56269019 ACCATTGCCATGCCTTAACATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTT
1 ACCATTGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATAGTAACTC
* *
56269074 ATCAATGCCATGTCTTGACATGGTCTTACATG
1 ACCATTGCCATGTCTTGACATGGTCTTACATG
56269106 CTTTACTTTC
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 41 0.57
54 1 0.01
55 30 0.42
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (55 bp):
ACCATTGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATAGTAACTC
Found at i:56273780 original size:21 final size:22
Alignment explanation
Indices: 56273741--56273781 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
56273731 GTTGAAATGT
56273741 CACATGGGCATGTTGCCCCTCC
1 CACATGGGCATGTTGCCCCTCC
*
56273763 CACATGGGCGTG-TGCCCCT
1 CACATGGGCATGTTGCCCCT
56273782 ATGTTAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.39, G:0.27, T:0.22
Consensus pattern (22 bp):
CACATGGGCATGTTGCCCCTCC
Found at i:56286342 original size:43 final size:43
Alignment explanation
Indices: 56286255--56286353 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 43
56286245 CTGATATGTG
* *
56286255 TTATCGTGTAAGACCACGTTTGGACGTTGGCATTGACTTATGAT
1 TTAT-GTGTAAGACCACATTTGGACGTTGGCATCGACTTATGAT
56286299 TTATGTGTAAGACCACATTTGGGACGTTGGCATCGTAC-T-TGAT
1 TTATGTGTAAGACCACATTT-GGACGTTGGCATCG-ACTTATGAT
*
56286342 TT-CGTGTAAGAC
1 TTATGTGTAAGAC
56286354 TTTGTCTGGT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
42 9 0.18
43 21 0.42
44 18 0.36
45 2 0.04
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.35
Consensus pattern (43 bp):
TTATGTGTAAGACCACATTTGGACGTTGGCATCGACTTATGAT
Found at i:56286526 original size:38 final size:38
Alignment explanation
Indices: 56286475--56286547 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
56286465 TTCATCGTGC
* ** *
56286475 ATTCTGAGAAATGAATCATAATAGGAAATGTGTATTCG
1 ATTCTAAGAAATGAAAAATAATAGGAAATATGTATTCG
*
56286513 ATTCTAAGAAATGAAAAATAATATGAAATATGTAT
1 ATTCTAAGAAATGAAAAATAATAGGAAATATGTAT
56286548 CTATATGATC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.47, C:0.05, G:0.16, T:0.32
Consensus pattern (38 bp):
ATTCTAAGAAATGAAAAATAATAGGAAATATGTATTCG
Found at i:56288401 original size:48 final size:48
Alignment explanation
Indices: 56288338--56288563 Score: 272
Period size: 48 Copynumber: 4.7 Consensus size: 48
56288328 CACATATCGG
* * *
56288338 TGCCGATGCCATGTTCCAAAAATGGTCTTACTCTACCTCTCATATAAA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTAACTCTCATATAAA
*
56288386 TGCCGATGCAATGTTCCAAACATGGTCTTACACTAACTCTCATATAAA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTAACTCTCATATAAA
* * * * ** * **
56288434 TGTCGATGCCATGTTTCAAACAGGGTCATACACTGGCTCACATATCGA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTAACTCTCATATAAA
* * * *
56288482 GGCCGATGCCATGTTCCAGACATGGACTTACTCTAACTCTCATATAAA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTAACTCTCATATAAA
* * *
56288530 TGTCGATGCCATGTTCCGAACGTGGTCTTACACT
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACT
56288564 GGCTCACATA
Statistics
Matches: 144, Mismatches: 34, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 144 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (48 bp):
TGCCGATGCCATGTTCCAAACATGGTCTTACACTAACTCTCATATAAA
Found at i:56297027 original size:64 final size:64
Alignment explanation
Indices: 56296946--56297117 Score: 195
Period size: 67 Copynumber: 2.7 Consensus size: 64
56296936 AGACATTATG
* *
56296946 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
56297010 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
56297075 AA
63 AA
* * *
56297077 AT-TTGCTAGGTCACATGGGTGATACTGA-GTGTTCACCATGT
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGT
56297118 GTATAAGAGA
Statistics
Matches: 87, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
63 9 0.10
64 25 0.29
66 20 0.23
67 33 0.38
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:56305484 original size:14 final size:14
Alignment explanation
Indices: 56305465--56305491 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56305455 TATTGAAGAA
56305465 ATAATTAAGAACAC
1 ATAATTAAGAACAC
56305479 ATAATTAAGAACA
1 ATAATTAAGAACA
56305492 AATCAAGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:56307216 original size:142 final size:141
Alignment explanation
Indices: 56306989--56307259 Score: 359
Period size: 142 Copynumber: 1.9 Consensus size: 141
56306979 AGGGTACAAT
* * * *
56306989 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCACATCTAAGTCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATCTAAGGCGATGACATGTCCCA
* * *
56307054 GACAGGTCTTACACTGGCTCTCA-CTTATCTGTGTCAATGCTATGTCCCAGATAGGTATTACACT
66 GACAGGTCTTACACTGGCTCTCATC-TATCGGTGTCAATGCCATGTCCCAAATAGGTATTACACT
56307118 AACACACCTCAA
130 AACACACCTCAA
* * * *
56307130 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCT-TGCATATCTTGAGGCTGATGACGTGTC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCT-CACATC-TAAGGC-GATGACATGTC
* * *
56307193 CCAGACAGGTCTTACATTGGCTCTCATCTATCGGTGTCGATGCCATGTCCCAAATAGGTCTTACA
63 CCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCAATGCCATGTCCCAAATAGGTATTACA
56307258 CT
128 CT
56307260 CGCACACACA
Statistics
Matches: 112, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
139 1 0.01
140 18 0.16
141 24 0.21
142 68 0.61
143 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (141 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATCTAAGGCGATGACATGTCCCA
GACAGGTCTTACACTGGCTCTCATCTATCGGTGTCAATGCCATGTCCCAAATAGGTATTACACTA
ACACACCTCAA
Found at i:56307242 original size:49 final size:48
Alignment explanation
Indices: 56306991--56307259 Score: 219
Period size: 49 Copynumber: 5.6 Consensus size: 48
56306981 GGTACAATGC
* * *
56306991 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAC-ATCTAAGT
1 CGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCACTATCTGAGT
*
56307039 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATCTGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCAC-TATCTGAGT
* * * * ** * * * *
56307088 CAATGCTATGTCCCAGATAGGTATTACACT--AACACAC-CTC-AAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTATCTGAGT
* * *
56307132 CGATGCCATGTCCCAGACATGTCTTACACTAGCT-TGCA-TATCTTGAGG
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCT-CACTATC-TGAGT
* * * * *
56307180 CTGATGACGTGTCCCAGACAGGTCTTACATTGGCTCTCATCTATCGGTGT
1 C-GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCA-CTATCTGAGT
* *
56307230 CGATGCCATGTCCCAAATAGGTCTTACACT
1 CGATGCCATGTCCCAGACAGGTCTTACACT
56307260 CGCACACACA
Statistics
Matches: 170, Mismatches: 39, Indels: 23
0.73 0.17 0.10
Matches are distributed among these distances:
44 26 0.15
45 2 0.01
46 4 0.02
47 24 0.14
48 20 0.12
49 86 0.51
50 4 0.02
51 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTATCTGAGT
Found at i:56318999 original size:29 final size:29
Alignment explanation
Indices: 56318932--56319056 Score: 180
Period size: 29 Copynumber: 4.3 Consensus size: 29
56318922 AAGTCTACAT
* *
56318932 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
56318960 TCATTCATATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
56318989 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
56319018 ACATTCATATGGCCGATTAGGCCCAAGTC
1 ACATTCATATGGCCCATTAGGCCCAAATC
56319047 ACATTCATAT
1 ACATTCATAT
56319057 ACATACTTTC
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 20 0.23
29 66 0.77
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:56326924 original size:17 final size:18
Alignment explanation
Indices: 56326902--56326935 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56326892 CACATTGAAG
56326902 TGTTTT-AATGAAAACCT
1 TGTTTTCAATGAAAACCT
*
56326919 TGTTTTCATTGAAAACC
1 TGTTTTCAATGAAAACC
56326936 CTTCTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCAATGAAAACCT
Found at i:56328084 original size:28 final size:29
Alignment explanation
Indices: 56328050--56328140 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 29
56328040 TACATACATG
*
56328050 CATATGGCCCACTAGGCCC-AATCTCATT
1 CATATGGCCCATTAGGCCCAAATCTCATT
*
56328078 CGTATGGCCCATTAGGCCCAAATCAT-ATT
1 CATATGGCCCATTAGGCCCAAATC-TCATT
* *
56328107 CATATGGCCGATTAGGCCCAAATCGCATT
1 CATATGGCCCATTAGGCCCAAATCTCATT
56328136 CATAT
1 CATAT
56328141 ACATGCTTTC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
28 17 0.31
29 37 0.67
30 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCTCATT
Found at i:56330006 original size:29 final size:28
Alignment explanation
Indices: 56329970--56330047 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
56329960 TCATGAGATT
56329970 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
56330000 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
56330027 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
56330048 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:56330265 original size:174 final size:174
Alignment explanation
Indices: 56330000--56330327 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
56329990 AAATTGTACA
56330000 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
56330065 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
56330130 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
56330174 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
56330239 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
56330304 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
56330328 ACCTTGAGTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:56338164 original size:29 final size:28
Alignment explanation
Indices: 56338128--56338205 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
56338118 TCATGAGATT
56338128 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
56338158 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
56338185 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
56338206 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:56338423 original size:174 final size:174
Alignment explanation
Indices: 56338158--56338485 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
56338148 AAATTGTACA
56338158 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
56338223 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
56338288 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
56338332 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
56338397 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
56338462 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
56338486 ACCTTGAGTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:56342877 original size:29 final size:28
Alignment explanation
Indices: 56342811--56342877 Score: 64
Period size: 29 Copynumber: 2.3 Consensus size: 28
56342801 TTTATTTGTT
* *
56342811 TTAAATTATATAATTAGTGATATATAAA
1 TTAAATTATATAATAAGTAATATATAAA
* *
56342839 TATAATTTATATAATAAG-AATTTATGATAA
1 T-TAAATTATATAATAAGTAATATAT-A-AA
56342869 TTAAATTAT
1 TTAAATTAT
56342878 GATGATATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 6 0.19
29 22 0.71
30 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (28 bp):
TTAAATTATATAATAAGTAATATATAAA
Found at i:56344540 original size:30 final size:29
Alignment explanation
Indices: 56344501--56344561 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
56344491 GTAGCTGAAG
*
56344501 CTAGTTAAATCGTACACTTAGTGCCAAAA
1 CTAGTTAAATCGCACACTTAGTGCCAAAA
56344530 CTAGTTTAAATCGCACACTTAGTGCCAAAA
1 CTAG-TTAAATCGCACACTTAGTGCCAAAA
56344560 CT
1 CT
56344562 TCCGTTTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.13
30 26 0.87
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (29 bp):
CTAGTTAAATCGCACACTTAGTGCCAAAA
Found at i:56348425 original size:5 final size:5
Alignment explanation
Indices: 56348415--56348445 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
56348405 AATATAAAAC
56348415 AAATA AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA AAATA A
56348446 TTAAAGCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:56348959 original size:18 final size:18
Alignment explanation
Indices: 56348936--56348970 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
56348926 TAAAAGAGTC
56348936 AATTAGG-ATTAAATTGAA
1 AATTAGGCA-TAAATTGAA
56348954 AATTAGGCATAAATTGA
1 AATTAGGCATAAATTGA
56348971 GTAGAGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.49, C:0.03, G:0.17, T:0.31
Consensus pattern (18 bp):
AATTAGGCATAAATTGAA
Found at i:56349525 original size:24 final size:22
Alignment explanation
Indices: 56349498--56349544 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
56349488 AGGATTTATA
56349498 ATATTCCGAGTGTGTTTGGGCTGG
1 ATATT-CGAGTGTGTTTGGG-TGG
*
56349522 ATATTCTAGTGTGTTTGGGTGG
1 ATATTCGAGTGTGTTTGGGTGG
56349544 A
1 A
56349545 ATCCACGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 13 0.59
24 5 0.23
ACGTcount: A:0.15, C:0.09, G:0.36, T:0.40
Consensus pattern (22 bp):
ATATTCGAGTGTGTTTGGGTGG
Found at i:56351369 original size:29 final size:29
Alignment explanation
Indices: 56351333--56351425 Score: 150
Period size: 29 Copynumber: 3.2 Consensus size: 29
56351323 CCAATCTTAA
*
56351333 TCATATGGCCCATTAGGCCCAAATCACAT
1 TCATATGGCACATTAGGCCCAAATCACAT
* * *
56351362 TCGTATGGCTCATTAGGCCCGAATCACAT
1 TCATATGGCACATTAGGCCCAAATCACAT
56351391 TCATATGGCACATTAGGCCCAAATCACAT
1 TCATATGGCACATTAGGCCCAAATCACAT
56351420 TCATAT
1 TCATAT
56351426 ACAGGCTTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (29 bp):
TCATATGGCACATTAGGCCCAAATCACAT
Found at i:56354451 original size:17 final size:18
Alignment explanation
Indices: 56354429--56354464 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
56354419 ATAGAAAAAA
*
56354429 AAGGATTAAA-TTGAATT
1 AAGGATAAAAGTTGAATT
56354446 AAGGATAAAAGTTGAATT
1 AAGGATAAAAGTTGAATT
56354464 A
1 A
56354465 TAGAACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (18 bp):
AAGGATAAAAGTTGAATT
Found at i:56355118 original size:14 final size:14
Alignment explanation
Indices: 56355079--56355111 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
56355069 TAATATAAAA
*
56355079 AAATAAATTAAATT
1 AAATAAATTAAAGT
56355093 AAATAAATTAAAGT
1 AAATAAATTAAAGT
56355107 AAATA
1 AAATA
56355112 GAATAAAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
AAATAAATTAAAGT
Found at i:56358028 original size:29 final size:29
Alignment explanation
Indices: 56357961--56358085 Score: 182
Period size: 29 Copynumber: 4.3 Consensus size: 29
56357951 AAGTCTACAT
* * * *
56357961 ACATGCATATGGCCGACTCGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
56357989 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
56358018 ACATT-AGTATGGCCCATTAGGCCCAAATC
1 ACATTCA-TATGGCCCATTAGGCCCAAATC
56358047 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
56358076 ACATTCATAT
1 ACATTCATAT
56358086 ACATGCTTTC
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
28 20 0.23
29 67 0.76
30 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:56358166 original size:17 final size:18
Alignment explanation
Indices: 56358144--56358177 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56358134 GCCTCTTATA
56358144 GGCCCA-ATAGCCCATCG
1 GGCCCACATAGCCCATCG
*
56358161 GGCCCACTTAGCCCATC
1 GGCCCACATAGCCCATC
56358178 CTGGCCCAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.44, G:0.21, T:0.15
Consensus pattern (18 bp):
GGCCCACATAGCCCATCG
Found at i:56358329 original size:16 final size:16
Alignment explanation
Indices: 56358304--56358338 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
56358294 AACTTTTGAC
56358304 TTTTGACTTTTCGGCA
1 TTTTGACTTTTCGGCA
*
56358320 TTTTGGCTTTTCGGCA
1 TTTTGACTTTTCGGCA
56358336 TTT
1 TTT
56358339 CAAATTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.09, C:0.17, G:0.20, T:0.54
Consensus pattern (16 bp):
TTTTGACTTTTCGGCA
Found at i:56360504 original size:37 final size:37
Alignment explanation
Indices: 56360443--56360521 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
56360433 TTATTACGAA
* * *
56360443 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGAAAAAATCTCCACACGAAGTCATCGG
*
56360480 GTCTTACCCGGAAAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCGGAAAAAATCT-CCACACGAAGTCATCGG
56360517 GTCTT
1 GTCTT
56360522 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGAAAAAATCTCCACACGAAGTCATCGG
Found at i:56360711 original size:47 final size:47
Alignment explanation
Indices: 56360640--56361177 Score: 878
Period size: 47 Copynumber: 11.4 Consensus size: 47
56360630 CCCTTCAGGA
* * * * * * *
56360640 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56360687 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56360734 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56360781 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56360828 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56360875 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56360922 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56360969 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56361016 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
56361065 CTTATCACATATATACACTTTCACATTCATCACATAAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56361112 CTTATCACAAATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56361159 CTTATCACATATATACACT
1 CTTATCACATATATACACT
56361178 GTCTTGGCTG
Statistics
Matches: 467, Mismatches: 22, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 421 0.90
49 46 0.10
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56364770 original size:40 final size:40
Alignment explanation
Indices: 56364726--56364816 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 40
56364716 GTTTAGCACG
* *
56364726 GATATATTATTAGCACGAATGCTCCTCGAGAG-TTAGCCCA
1 GATATATCACTAGCACGAATGCTCCTCG-GAGCTTAGCCCA
* *
56364766 GATATATCACTAGCACGAATGCTCCTCGGGGCTTAGCCCG
1 GATATATCACTAGCACGAATGCTCCTCGGAGCTTAGCCCA
56364806 GATATATCACT
1 GATATATCACT
56364817 CTCAATTCTC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 2 0.04
40 44 0.96
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (40 bp):
GATATATCACTAGCACGAATGCTCCTCGGAGCTTAGCCCA
Found at i:56366682 original size:37 final size:37
Alignment explanation
Indices: 56366632--56366710 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
56366622 TTATTACGAA
* *
56366632 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTCT-CACACGAAGTCATCGG
*
56366669 GTCTTACCCGGACAAAATTCTCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCTCACACGAAGTCATCGG
56366706 GTCTT
1 GTCTT
56366711 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 35 0.92
38 3 0.08
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCTCACACGAAGTCATCGG
Found at i:56366900 original size:47 final size:47
Alignment explanation
Indices: 56366829--56367363 Score: 869
Period size: 47 Copynumber: 11.4 Consensus size: 47
56366819 CCCTTCGGGA
* * * * * * *
56366829 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56366876 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56366923 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56366970 CTTATTACAGATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56367017 CTTATCAAATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56367064 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56367111 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56367158 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56367207 CTTATCACATATATACACTTTCACATTCATCACAT-GGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56367253 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56367300 CTTATCACATATATACACTTTCACATTC-TCACATCGGCTATTAGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56367345 CTTATCACATATATACACT
1 CTTATCACATATATACACT
56367364 GTCTTGGCTG
Statistics
Matches: 463, Mismatches: 22, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
45 19 0.04
46 61 0.13
47 337 0.73
49 46 0.10
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56371000 original size:39 final size:40
Alignment explanation
Indices: 56370906--56371003 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 40
56370896 TCTTCGAGGT
* * *
56370906 TTAGCACGGATATATTATTAGCACGAATGCTCCTAGAGAG
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTAGAGAG
* * *
56370946 TTAGCCCAGATATATCACTAGCACGAATGCTGCTCG-G-G
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTAGAGAG
56370984 CTTAGCCCGGATATATCACT
1 -TTAGCCCGGATATATCACT
56371004 CTCAATTCTC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.02
39 19 0.38
40 30 0.60
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCCTAGAGAG
Found at i:56372870 original size:37 final size:37
Alignment explanation
Indices: 56372820--56372898 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
56372810 TTATTACGAA
* *
56372820 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTCT-CACACGAAGTCATCGG
*
56372857 GTCTTACCCGGACAAAATTCTCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCTCACACGAAGTCATCGG
56372894 GTCTT
1 GTCTT
56372899 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 35 0.92
38 3 0.08
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCTCACACGAAGTCATCGG
Found at i:56373088 original size:47 final size:47
Alignment explanation
Indices: 56373017--56373554 Score: 905
Period size: 47 Copynumber: 11.4 Consensus size: 47
56373007 CCCTTCGGGA
* * * * * * *
56373017 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56373064 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56373111 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56373158 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56373205 CTTATCAAATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56373252 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56373299 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56373346 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56373395 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56373442 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56373489 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56373536 CTTATCACATATATACACT
1 CTTATCACATATATACACT
56373555 GTCTTGGCTG
Statistics
Matches: 469, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 423 0.90
49 46 0.10
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56376981 original size:39 final size:39
Alignment explanation
Indices: 56376927--56377058 Score: 185
Period size: 39 Copynumber: 3.4 Consensus size: 39
56376917 TGCATGGTAT
* *
56376927 TGGAAAAATATCCGGACTTGAAGTCCGTAGGCTTTATGC
1 TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTTTATGC
* *
56376966 TGGAAATATATCCGGACTTAAAGTCCACAGGCTTTATGC
1 TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTTTATGC
* * *
56377005 TGGAAATATATCCGGACTTAAAGCCCGCAGGC-TAAGTGC
1 TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTTTA-TGC
56377044 TGGAAAAATATCCGG
1 TGGAAAAATATCCGG
56377059 GCTAAGTCCT
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 2 0.02
39 82 0.98
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (39 bp):
TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTTTATGC
Found at i:56377083 original size:39 final size:39
Alignment explanation
Indices: 56377051--56377256 Score: 342
Period size: 39 Copynumber: 5.3 Consensus size: 39
56377041 TGCTGGAAAA
56377051 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATT
56377090 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATT
**
56377129 ATATCCGGGCTAAGTTCC-GAAGGCATTCGTGCTGGTGCT
1 ATATCCGGGCTAAG-TCCTGAAGGCATTCGTGCTGGTATT
* **
56377168 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGCGTT
1 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATT
56377207 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATT
*
56377246 ATATCTGGGCT
1 ATATCCGGGCT
56377257 TAAAGTCCCG
Statistics
Matches: 157, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
38 3 0.02
39 151 0.96
40 3 0.02
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATT
Found at i:56377084 original size:78 final size:78
Alignment explanation
Indices: 56376934--56377266 Score: 313
Period size: 78 Copynumber: 4.3 Consensus size: 78
56376924 TATTGGAAAA
* * * *
56376934 ATATCCGGACTTGAAGT-CCGTAGGCTTTA-TGCTGGAAATATATCCGGACTTAAAGTCC-ACAG
1 ATATCCGGGCTT-AAGTCCCGAAGGCATTAGTGCTGGAAATATATCCGGGC-T-AAGTCCGA-AG
** *
56376996 GC-TTTATGCTGGAAAT
62 GCATTCGTGCTGGTAAT
* * * *
56377012 ATATCCGGACTTAAAG-CCCGCAGGC-TAAGTGCTGGAAAAATATCCGGGCTAAGTCCTGAAGGC
1 ATATCCGGGCTT-AAGTCCCGAAGGCATTAGTGCTGGAAATATATCCGGGCTAAGTCC-GAAGGC
*
56377075 ATTCGTGCTGGTATT
64 ATTCGTGCTGGTAAT
* * * *
56377090 ATATCCGGGC-TAAGTCCTGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTTCCGAAGGCA
1 ATATCCGGGCTTAAGTCCCGAAGGCATTAGTGCTGGAAATATATCCGGGCTAAG-TCCGAAGGCA
**
56377154 TTCGTGCTGGTGCT
65 TTCGTGCTGGTAAT
* ***
56377168 ATATCCGGGC-TAAGTCCCGAAGGCATTCGTGCTGGCGTTATATCCGGGCTAAGTCCTGAAGGCA
1 ATATCCGGGCTTAAGTCCCGAAGGCATTAGTGCTGGAAATATATCCGGGCTAAGTCC-GAAGGCA
*
56377232 TTCGTGCTGGTATT
65 TTCGTGCTGGTAAT
*
56377246 ATATCTGGGCTTAAAGTCCCG
1 ATATCCGGGCTT-AAGTCCCG
56377267 CATGCTTTGT
Statistics
Matches: 219, Mismatches: 25, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
76 9 0.04
77 18 0.08
78 180 0.82
79 4 0.02
80 8 0.04
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (78 bp):
ATATCCGGGCTTAAGTCCCGAAGGCATTAGTGCTGGAAATATATCCGGGCTAAGTCCGAAGGCAT
TCGTGCTGGTAAT
Found at i:56377133 original size:117 final size:119
Alignment explanation
Indices: 56377002--56377268 Score: 371
Period size: 117 Copynumber: 2.3 Consensus size: 119
56376992 ACAGGCTTTA
* * *
56377002 TGCTGGAAATATATCCGGACTTAAAG-CCCGCAGGC-TAAGTGCTGGAAAAATATCCGGGCTAAG
1 TGCTGGTATTATATCCGGGCTTAAAGTCCCGCAGGCATAAGTGCTGGAAAAATATCCGGGCTAAG
* *
56377065 TCCTGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCTGAAGGCATTCG
66 TCCCGAAGGCATTCGTGCTGGCATTATATCCGGGCTAAGTCCTGAAGGCATTCG
* * ** ****
56377119 TGCTGGTATTATATCCGGGC-T-AAGTTCCGAAGGCATTCGTGCTGGTGCTATATCCGGGCTAAG
1 TGCTGGTATTATATCCGGGCTTAAAGTCCCGCAGGCATAAGTGCTGGAAAAATATCCGGGCTAAG
*
56377182 TCCCGAAGGCATTCGTGCTGGCGTTATATCCGGGCTAAGTCCTGAAGGCATTCG
66 TCCCGAAGGCATTCGTGCTGGCATTATATCCGGGCTAAGTCCTGAAGGCATTCG
*
56377236 TGCTGGTATTATATCTGGGCTTAAAGTCCCGCA
1 TGCTGGTATTATATCCGGGCTTAAAGTCCCGCA
56377269 TGCTTTGTGG
Statistics
Matches: 129, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
115 3 0.02
116 8 0.06
117 109 0.84
118 1 0.01
119 8 0.06
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (119 bp):
TGCTGGTATTATATCCGGGCTTAAAGTCCCGCAGGCATAAGTGCTGGAAAAATATCCGGGCTAAG
TCCCGAAGGCATTCGTGCTGGCATTATATCCGGGCTAAGTCCTGAAGGCATTCG
Found at i:56386395 original size:31 final size:31
Alignment explanation
Indices: 56386357--56386420 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
56386347 CCCTATGTCA
56386357 ATTCAACCGATTAATTAAATCTAATAAGCAC
1 ATTCAACCGATTAATTAAATCTAATAAGCAC
56386388 ATTCAACCGATTAATTAAATCTAATAAGCAC
1 ATTCAACCGATTAATTAAATCTAATAAGCAC
56386419 AT
1 AT
56386421 AAAAGACTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (31 bp):
ATTCAACCGATTAATTAAATCTAATAAGCAC
Found at i:56389992 original size:40 final size:40
Alignment explanation
Indices: 56389923--56389999 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
56389913 TAGTGCCTCA
** *
56389923 TATAGCCGAAGCTATTCCATTTCATACACTTAGTGCTATT
1 TATAGCCGAAGCTATTCCAAATCACACACTTAGTGCTATT
* *
56389963 TATAGCCGAAGCTATTTCAAATCGCACACTTAGTGCT
1 TATAGCCGAAGCTATTCCAAATCACACACTTAGTGCT
56390000 GAACATAGTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (40 bp):
TATAGCCGAAGCTATTCCAAATCACACACTTAGTGCTATT
Found at i:56393003 original size:39 final size:40
Alignment explanation
Indices: 56392958--56393181 Score: 190
Period size: 40 Copynumber: 5.7 Consensus size: 40
56392948 GCTCCTCGTT
*
56392958 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACA
* *
56392998 C-AATGCCTTCGGGACATAAG-CCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACAT-AGCCCGGATTTAGTAACTCACA
* * * *
56393037 CGAATGCCTTC-GGACTTAACCCGGATTTAGTATCTCACA
1 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACA
* * * * * *
56393076 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAGCCCGG-ATTTAGTAACTCACA
* * * * * *
56393116 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAACTCA-CA
*
56393157 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGA
56393182 CAGCATTCAA
Statistics
Matches: 152, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
38 1 0.01
39 68 0.45
40 70 0.46
41 13 0.09
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACA
Found at i:56393087 original size:79 final size:78
Alignment explanation
Indices: 56392958--56393181 Score: 216
Period size: 79 Copynumber: 2.8 Consensus size: 78
56392948 GCTCCTCGTT
* * * * *
56392958 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAAGCCGG-
1 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGA
56393022 ATTTAATAACTCGCA
65 ATTT-ATAACTCGCA
* * * *
56393037 CGAATGCCTTCGGACTTAACCCGGATTTAGTATCTCACACAAAGGCCTTCGGGGCTTAACCCGGA
1 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGGA
* *
56393102 ATTTGTATCTCGCA
65 ATTTATAACTCGCA
** * * * * * * *
56393116 CAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGA-CTTAACCCGGATTTAGTAACTCA-CACAAGGCCTTCGGGACATAACCCGG
56393181 A
64 A
56393182 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
78 25 0.21
79 50 0.42
80 41 0.34
81 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGAA
TTTATAACTCGCA
Found at i:56393110 original size:40 final size:40
Alignment explanation
Indices: 56392958--56393181 Score: 172
Period size: 39 Copynumber: 5.7 Consensus size: 40
56392948 GCTCCTCGTT
* * * * *
56392958 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAGTATCTCACA
* * * * * *
56392998 C-AATGCCTTCGGGACATAAGCCGGATTTAATAACTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAGTATCTCACA
* *
56393037 CGAATGCCTTC-GGACTTAACCCGGATTTAGTATCTCACA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAGTATCTCACA
* *
56393076 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCACA
* ** * * *
56393116 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCA-CTTAGCA
1 CAAAGGCCTTCGGGA-CTTAACCCGGATTTAGT-ATCTCA-CA
*
56393157 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAAGGCCTTCGGGACTTAACCCGGA
56393182 CAGCATTCAA
Statistics
Matches: 153, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
39 71 0.46
40 68 0.44
41 14 0.09
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAAGGCCTTCGGGACTTAACCCGGATTTAGTATCTCACA
Found at i:56393190 original size:41 final size:41
Alignment explanation
Indices: 56393113--56393190 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
56393103 TTTGTATCTC
* * *
56393113 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
56393154 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
56393191 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:56400932 original size:39 final size:40
Alignment explanation
Indices: 56400887--56401111 Score: 208
Period size: 40 Copynumber: 5.7 Consensus size: 40
56400877 GCTCCTCGTT
* *
56400887 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
*
56400927 C-AATGCCTTCGGGACATAAG-CCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACAT-AGCCCGGATTTAGTAACTCGCA
* * * *
56400966 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
* * * * *
56401006 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAGCCCGG-ATTTAGTAACTCGCA
* * * * * *
56401046 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAAC-TCGCA
*
56401087 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGA
56401112 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 20, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
39 39 0.25
40 103 0.66
41 15 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
Found at i:56401071 original size:80 final size:79
Alignment explanation
Indices: 56400887--56401111 Score: 231
Period size: 80 Copynumber: 2.8 Consensus size: 79
56400877 GCTCCTCGTT
* * * * * *
56400887 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAAGCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
56400951 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
56400966 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
56401031 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
56401046 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
56401110 GA
63 GA
56401112 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 68 0.56
81 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:56401120 original size:41 final size:41
Alignment explanation
Indices: 56401043--56401120 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
56401033 TTTGTATCTC
* * *
56401043 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
56401084 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
56401121 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:56413090 original size:40 final size:40
Alignment explanation
Indices: 56412989--56413213 Score: 215
Period size: 40 Copynumber: 5.7 Consensus size: 40
56412979 TTGAATGCTG
* * * * *
56412989 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
56413029 TCCGGACTAAGAAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG--TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
56413070 TCCAGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* **
56413110 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
56413150 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTAC-AAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
56413188 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
56413214 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
38 23 0.15
39 13 0.08
40 92 0.58
41 22 0.14
42 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56413232 original size:78 final size:78
Alignment explanation
Indices: 56413065--56413245 Score: 195
Period size: 78 Copynumber: 2.3 Consensus size: 78
56413055 GTGCGAGATA
* * *
56413065 CTAAATCCAGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCC-GGTT-AGTCCCGAAGGCATTCGTGCGAGTTATCAAAACCGGGCTAAGTCCCGAAGG
** **
56413130 CATTCGTGCGAGTTG
64 CATTCGAACGAGGAG
* * *
56413145 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTA-CAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCC-GGTTA-GTCCCGAAGGCATTCGTGCGAGTTATCAAAACCGGGCTAAGTCCCGAAGG
*
56413208 CATTTGAACGAGGAG
64 CATTCGAACGAGGAG
* *
56413223 CTATATCCGGTTAATCCCGAAGG
1 CTAAATCCGGTTAGTCCCGAAGG
56413246 TACGTGATTT
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
76 9 0.11
77 5 0.06
78 36 0.42
79 10 0.12
80 25 0.29
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
CTAAATCCGGTTAGTCCCGAAGGCATTCGTGCGAGTTATCAAAACCGGGCTAAGTCCCGAAGGCA
TTCGAACGAGGAG
Found at i:56425806 original size:28 final size:25
Alignment explanation
Indices: 56425762--56425835 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 25
56425752 GATTTCATTT
56425762 GAAAACACTTTTATTTTAAAACTTATA
1 GAAAA-ACTTTT-TTTTAAAACTTATA
*
56425789 GAAAAACTCTTAATTTTTGAAACTTATA
1 GAAAAACT-TT--TTTTTAAAACTTATA
*
56425817 GAAATACTTTTTTTTAAAA
1 GAAAAACTTTTTTTTAAAA
56425836 GATTTTCGGA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
25 8 0.20
26 3 0.07
27 9 0.22
28 20 0.49
29 1 0.02
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.42
Consensus pattern (25 bp):
GAAAAACTTTTTTTTAAAACTTATA
Found at i:56435305 original size:40 final size:40
Alignment explanation
Indices: 56435206--56435476 Score: 393
Period size: 40 Copynumber: 6.8 Consensus size: 40
56435196 TGGATGAAAA
* * * * **
56435206 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
56435246 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
56435285 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
56435325 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
56435365 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
56435405 CCGGGCTAAGTCCTGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* * *
56435445 CCAGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
56435477 AGCTATATCC
Statistics
Matches: 211, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
39 33 0.16
40 176 0.83
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:56443446 original size:40 final size:40
Alignment explanation
Indices: 56443347--56443617 Score: 384
Period size: 40 Copynumber: 6.8 Consensus size: 40
56443337 TGGATGAAAA
* * * * **
56443347 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
56443387 CCGGAC-AAGTCCCGAAGGCATTTGTACGAGTTATTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
56443426 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
56443466 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
56443506 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
56443546 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTCCTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
56443586 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
56443618 AGCTATATCC
Statistics
Matches: 209, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
39 30 0.14
40 177 0.85
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:56446730 original size:41 final size:41
Alignment explanation
Indices: 56446685--56446785 Score: 184
Period size: 41 Copynumber: 2.5 Consensus size: 41
56446675 ATCAACGGGT
*
56446685 CTGCTCACACAAGCTGTCAGTCAAGACATAGCTACGCAGTG
1 CTGCTCACACAAGCTGTCAGTCAAGACATAGCTACACAGTG
56446726 CTGCTCACACAAGCTGTCAGTCAAGACATAGCTACACAGTG
1 CTGCTCACACAAGCTGTCAGTCAAGACATAGCTACACAGTG
*
56446767 CTTCTCACACAAGCTGTCA
1 CTGCTCACACAAGCTGTCA
56446786 AGTATCTACA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.21
Consensus pattern (41 bp):
CTGCTCACACAAGCTGTCAGTCAAGACATAGCTACACAGTG
Found at i:56453617 original size:42 final size:42
Alignment explanation
Indices: 56453553--56453696 Score: 198
Period size: 42 Copynumber: 3.4 Consensus size: 42
56453543 TGAGATTTAT
* * * *
56453553 GTGTGAGACCATATTTGAGATATGGCATCGATATGAAACTTC
1 GTGTAAGACCATATCTGGGATATGGAATCGATATGAAACTTC
*
56453595 GTGTAAGACCATATCTGGGATATAGAATCGATATGAAACTTC
1 GTGTAAGACCATATCTGGGATATGGAATCGATATGAAACTTC
* * *
56453637 GTGTAAGACCATATCTGGGTTATGGAATCGGTATAAAACTTC
1 GTGTAAGACCATATCTGGGATATGGAATCGATATGAAACTTC
* *
56453679 GTGTAAGACTATAGCTGG
1 GTGTAAGACCATATCTGG
56453697 CCTATTCGAA
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGAATCGATATGAAACTTC
Found at i:56461854 original size:51 final size:51
Alignment explanation
Indices: 56461778--56461891 Score: 192
Period size: 51 Copynumber: 2.2 Consensus size: 51
56461768 AGTGACAAAC
* * *
56461778 GACAAGCGACAAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
*
56461829 GACAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
56461880 GACAAGTGATAA
1 GACAAGTGATAA
56461892 ATGTGATCAG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (51 bp):
GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
Found at i:56469541 original size:51 final size:51
Alignment explanation
Indices: 56469465--56469578 Score: 183
Period size: 51 Copynumber: 2.2 Consensus size: 51
56469455 AGTGACAAGC
* * *
56469465 GACAAGCGACAAGTGATAAGTGGTAGCTTTAGTTACACTTATCTCATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTCATCAGT
* *
56469516 GACAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTCATCAGT
56469567 GACAAGTGATAA
1 GACAAGTGATAA
56469579 ATGTGATCAA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (51 bp):
GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTCATCAGT
Found at i:56480915 original size:27 final size:27
Alignment explanation
Indices: 56480885--56481061 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 27
56480875 AAATTGTACA
* *
56480885 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
* ** *
56480912 GCACTCAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
56480939 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* *
56480966 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
56480994 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * * *
56481021 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTG
*
56481048 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
56481062 GGCTCAATAT
Statistics
Matches: 123, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:56480998 original size:82 final size:81
Alignment explanation
Indices: 56480885--56481040 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
56480875 AAATTGTACA
* * * *
56480885 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
56480949 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
56480966 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGGGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
56481031 TGCGAGTTGA
65 TGCGAATTGA
56481041 TTATATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.77
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56481052 original size:82 final size:81
Alignment explanation
Indices: 56480881--56481061 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 81
56480871 GATTAAATTG
* * * * *
56480881 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56480946 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
56480962 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56481026 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56481044 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56481062 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:56484052 original size:21 final size:20
Alignment explanation
Indices: 56484024--56484063 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
56484014 GATCTATACG
56484024 AATAAATTT-AACATCAATTT
1 AATAAATTTAAAC-TCAATTT
56484044 AATACAATTTAAACTCAATT
1 AATA-AATTTAAACTCAATT
56484064 CAGTCCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 11 0.61
22 3 0.17
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (20 bp):
AATAAATTTAAACTCAATTT
Found at i:56496624 original size:13 final size:13
Alignment explanation
Indices: 56496606--56496630 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56496596 GTAAGTGATT
56496606 TTGATGATTTTTC
1 TTGATGATTTTTC
56496619 TTGATGATTTTT
1 TTGATGATTTTT
56496631 GCACTTTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:56497481 original size:46 final size:45
Alignment explanation
Indices: 56497428--56497737 Score: 132
Period size: 49 Copynumber: 6.5 Consensus size: 45
56497418 GAGCTATTGC
*
56497428 AAGACATGTCTGAGACATGCATCAGCCTCT-AGATGTAAGCCAGTGT
1 AAGACATGTCTGGGACATGCATCAGCCTCTGAGATGT--GCCAGTGT
* * * *
56497474 AAGACATGTCTGGGACATACATC-GACTATGAGATGTGTCAGTGT
1 AAGACATGTCTGGGACATGCATCAGCCTCTGAGATGTGCCAGTGT
* * ** *
56497518 AAGACCATATCTGGGACATGGCGTCAGCCTCAATTTTGATAGT--CAATGT
1 AAGA-CATGTCTGGGACAT-GCATCAGCCTC---TGAGAT-GTGCCAGTGT
* * * *
56497567 AAGACCATGTCTGGGACATGGCATC-GGCACAGAGATATGAGAGCCAGTGT
1 AAGA-CATGTCTGGGACAT-GCATCAGCCTCTGAG--AT--GTGCCAGTGT
** * ** *
56497617 AAGACCATGTCTGGGACATGGTGTCGGCCT-TGATTTTGATAGTCAGTGT
1 AAGA-CATGTCTGGGACAT-GCATCAGCCTCTGA-GATG-T-GCCAGTGT
* * *
56497666 AAGACCATGTCTGGGACATGGCATCA-ACT-TGATGGATGAGCCAATGT
1 AAGA-CATGTCTGGGACAT-GCATCAGCCTCTGA--GATGTGCCAGTGT
56497713 AAGATCATGTCTGGGACATGGCATC
1 AAGA-CATGTCTGGGACAT-GCATC
56497738 GGCATTACAC
Statistics
Matches: 204, Mismatches: 42, Indels: 35
0.73 0.15 0.12
Matches are distributed among these distances:
44 11 0.05
45 18 0.09
46 30 0.15
47 36 0.18
48 10 0.05
49 61 0.30
50 34 0.17
51 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (45 bp):
AAGACATGTCTGGGACATGCATCAGCCTCTGAGATGTGCCAGTGT
Found at i:56497573 original size:49 final size:48
Alignment explanation
Indices: 56497510--56497687 Score: 212
Period size: 49 Copynumber: 3.6 Consensus size: 48
56497500 TATGAGATGT
*
56497510 GTCAGTGTAAGACCATATCTGGGACATGGCGTCAGCCTCAATTTTGATA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCGTC-GCCTCAATTTTGATA
* * * * * * *
56497559 GTCAATGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATATGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCGTCGCCTCA-A-TTTTGATA
* * **
56497609 GCCAGTGTAAGACCATGTCTGGGACATGGTGTCGGCCTTGATTTTGATA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCGTC-GCCTCAATTTTGATA
56497658 GTCAGTGTAAGACCATGTCTGGGACATGGC
1 GTCAGTGTAAGACCATGTCTGGGACATGGC
56497688 ATCAACTTGA
Statistics
Matches: 105, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
48 4 0.04
49 64 0.61
50 35 0.33
51 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCGTCGCCTCAATTTTGATA
Found at i:56497624 original size:99 final size:99
Alignment explanation
Indices: 56497512--56497690 Score: 304
Period size: 99 Copynumber: 1.8 Consensus size: 99
56497502 TGAGATGTGT
56497512 CAGTGTAAGACCATATCTGGGACATGGCGTCAGCCTCAATTTTGATAGTCAATGTAAGACCATGT
1 CAGTGTAAGACCATATCTGGGACATGGCGTCAGCCTCAATTTTGATAGTCAATGTAAGACCATGT
56497577 CTGGGACATGGCATCGGCACAGAGATATGAGAGC
66 CTGGGACATGGCATCGGCACAGAGATATGAGAGC
* * * ** *
56497611 CAGTGTAAGACCATGTCTGGGACATGGTGTCGGCCTTGATTTTGATAGTCAGTGTAAGACCATGT
1 CAGTGTAAGACCATATCTGGGACATGGCGTCAGCCTCAATTTTGATAGTCAATGTAAGACCATGT
56497676 CTGGGACATGGCATC
66 CTGGGACATGGCATC
56497691 AACTTGATGG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
99 74 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (99 bp):
CAGTGTAAGACCATATCTGGGACATGGCGTCAGCCTCAATTTTGATAGTCAATGTAAGACCATGT
CTGGGACATGGCATCGGCACAGAGATATGAGAGC
Found at i:56503801 original size:13 final size:13
Alignment explanation
Indices: 56503783--56503807 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56503773 ACAAGTGATT
56503783 TTGATGATTTTTC
1 TTGATGATTTTTC
56503796 TTGATGATTTTT
1 TTGATGATTTTT
56503808 GCACTTTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:56504581 original size:47 final size:45
Alignment explanation
Indices: 56504513--56504771 Score: 186
Period size: 47 Copynumber: 5.5 Consensus size: 45
56504503 TTTGTGCGCT
* *
56504513 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTAGGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCATATGAGGAGAGCC
* *
56504559 AGTGTAAGGCCATGTCTGGGACATGGCATCGGCAT-TGAGACGAGAGCT
1 AGTGTAA-GACATGTCTGGGACAT-GCATCGGCATATGAG--GAGAGCC
* * *
56504607 AGTATAAGACATGTCTGGGACATGCATCGGC-TATGA-GATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATATGAGGA-GAGCC
* * * *** * *
56504651 AGTGTAAGACCATGTCTGGGACATGGCGTTGGCCTCGATTTCGATAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAT--ATGAGGAGAGCC
* * *
56504700 AGTGTAAGACCATGTCTGGGACATCGCATCGAC-T-TGATAGATGACCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATATGA-GGA-GAGCC
56504747 AGTGTAAGACAATGTCTGGGACATG
1 AGTGTAAGAC-ATGTCTGGGACATG
56504772 GCATTAGTAT
Statistics
Matches: 172, Mismatches: 26, Indels: 30
0.75 0.11 0.13
Matches are distributed among these distances:
43 2 0.01
44 10 0.06
45 16 0.09
46 31 0.18
47 59 0.34
48 18 0.10
49 34 0.20
50 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATATGAGGAGAGCC
Found at i:56506308 original size:42 final size:42
Alignment explanation
Indices: 56506258--56506344 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
56506248 ATTTTTGTGA
56506258 TGATTGAATACAATGGAGATTTGATGGGATAAGATTTTCCAT
1 TGATTGAATACAATGGAGATTTGATGGGATAAGATTTTCCAT
56506300 TGATTGAATACAATGGAGATTTGATGGGATAAGATTTTCCAT
1 TGATTGAATACAATGGAGATTTGATGGGATAAGATTTTCCAT
56506342 TGA
1 TGA
56506345 AACGAGTAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (42 bp):
TGATTGAATACAATGGAGATTTGATGGGATAAGATTTTCCAT
Found at i:56506634 original size:48 final size:46
Alignment explanation
Indices: 56506533--56506901 Score: 212
Period size: 48 Copynumber: 7.8 Consensus size: 46
56506523 ATGGATGTGT
* * *
56506533 GCTAGTGTAAGACATGTCTGGGACATGCATCGCCAACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCAATATGAGA
* * * *
56506579 GCCAGTGTAAGACTATGTCTGGGACATGGCATCGGCATTAAAACGAGA
1 GCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCATCAATATGAGA
* * *
56506627 GCTAGTGTAAGACATGTTTGGGACATCCATCGGCCTCGAGATATGCA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATC-A-ATATG-AGA
* ** * * *
56506675 GCTAGTGTAAGACCTGTCTGGGACATGGCATCAACAT-GACATGTG-
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCATCAATATGAGA
* * * * * *
56506720 TCT-GTGTAAGACCTATTTGGGACATGGCATCGACACCAATAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCATCAAT--ATGAGA
* * * * *
56506768 GCCAGTGTAAGACCTGTCTGGGACATAGCATCAGCCTCGATATATGAAA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCATC-A-ATATGAGA
* * * * * *
56506817 G-TCAATGTAAGACCTGTCTGGGACATGGCATCGAC-TTAGATGTGTGA
1 GCT-AGTGTAAGACATGTCTGGGACAT-GCATCGGCATCA-ATATGAGA
* *
56506864 GCCAGTGTAAGACAATGTTTGGAGA-ATGGCATCGGCAT
1 GCTAGTGTAAGAC-ATGTCTGG-GACAT-GCATCGGCAT
56506902 TGTACCCTAT
Statistics
Matches: 248, Mismatches: 56, Indels: 35
0.73 0.17 0.10
Matches are distributed among these distances:
44 29 0.12
45 3 0.01
46 24 0.10
47 46 0.19
48 72 0.29
49 71 0.29
50 1 0.00
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCAATATGAGA
Found at i:56506790 original size:49 final size:48
Alignment explanation
Indices: 56506536--56506851 Score: 222
Period size: 49 Copynumber: 6.7 Consensus size: 48
56506526 GATGTGTGCT
* * *
56506536 AGTGTAAGACATGTCTGGGACAT-GCATCGCCAACAT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCATATATGAGAGCC
* * ** * * *
56506582 AGTGTAAGACTATGTCTGGGACATGGCATCGGCATTA-AAACGAGAGCT
1 AGTGTAAGAC-CTGTCTGGGACATGGCATCGACACCATATATGAGAGCC
* * * * * *
56506630 AGTGTAAGACATGTTTGGGACAT-CCATCGGC-CTCGAGATATGCA-AGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-C-ATATATG-AGAGCC
* * *
56506678 AGTGTAAGACCTGTCTGGGACATGGCATC-A-A-CATGACAT--GTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCAT-ATATGAGAGCC
* * * *
56506722 TGTGTAAGACCTATTTGGGACATGGCATCGACACCAATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACC-ATATATGAGAGCC
* * * * * *
56506771 AGTGTAAGACCTGTCTGGGACATAGCATCAGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GACACCATATATGAGAGCC
*
56506820 AATGTAAGACCTGTCTGGGACATGGCATCGAC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC
56506852 TTAGATGTGT
Statistics
Matches: 212, Mismatches: 40, Indels: 34
0.74 0.14 0.12
Matches are distributed among these distances:
44 27 0.13
45 2 0.01
46 22 0.10
47 30 0.14
48 58 0.27
49 70 0.33
50 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACACCATATATGAGAGCC
Found at i:56506805 original size:142 final size:140
Alignment explanation
Indices: 56506583--56506848 Score: 358
Period size: 142 Copynumber: 1.9 Consensus size: 140
56506573 ATGAGAGCCA
* ** * *
56506583 GTGTAAGACTATGTCTGGGACATGGCATCGGCATTAAAACGAGAGCTAGTGTAAGACATGTTTGG
1 GTGTAAGACTATGTCTGGGACATGGCATCGACACCAAAACGAGAGCCAGTGTAAGACATGTCTGG
* * *
56506648 GACATCCATCGGCCTCGAGATATGCAAG-CTAGTGTAAGACCTGTCTGGGACATGGCATCAACAT
66 GACATCCATCAGCCTCGAGATATGAAAGTC-AATGTAAGACCTGTCTGGGACATGGCATCAACAT
56506712 GACATGTGTCT
130 GACATGTGTCT
* *
56506723 GTGTAAGACCTAT-T-TGGGACATGGCATCGACACCAATAGATGAGAGCCAGTGTAAGACCTGTC
1 GTGTAAGA-CTATGTCTGGGACATGGCATCGACACCAA-A-ACGAGAGCCAGTGTAAGACATGTC
* *
56506786 TGGGACATAGCATCAGCCTCGATATATGAAAGTCAATGTAAGACCTGTCTGGGACATGGCATC
63 TGGGACAT-CCATCAGCCTCGAGATATGAAAGTCAATGTAAGACCTGTCTGGGACATGGCATC
56506849 GACTTAGATG
Statistics
Matches: 109, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
139 19 0.17
140 10 0.09
141 32 0.29
142 47 0.43
143 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (140 bp):
GTGTAAGACTATGTCTGGGACATGGCATCGACACCAAAACGAGAGCCAGTGTAAGACATGTCTGG
GACATCCATCAGCCTCGAGATATGAAAGTCAATGTAAGACCTGTCTGGGACATGGCATCAACATG
ACATGTGTCT
Found at i:56508587 original size:22 final size:23
Alignment explanation
Indices: 56508561--56508606 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
56508551 GTTTCGAAGG
*
56508561 CACACAGGC-GTGTCCTTGTGTC
1 CACACAGGCAGTGACCTTGTGTC
*
56508583 CACACGGGCATGTGACCTTGTGTC
1 CACACAGGCA-GTGACCTTGTGTC
56508607 ATGGAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.15, C:0.30, G:0.28, T:0.26
Consensus pattern (23 bp):
CACACAGGCAGTGACCTTGTGTC
Found at i:56509810 original size:26 final size:27
Alignment explanation
Indices: 56509781--56509838 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
56509771 GTGCACTTTT
56509781 AAGGAAAACCTTTGTGGC-AAATATGA
1 AAGGAAAACCTTTGTGGCGAAATATGA
* *
56509807 AAGG-AAACCTTTGTGGCGTAATATGG
1 AAGGAAAACCTTTGTGGCGAAATATGA
56509833 AAGGAA
1 AAGGAA
56509839 TGTCTTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 13 0.46
26 14 0.50
27 1 0.04
ACGTcount: A:0.40, C:0.10, G:0.28, T:0.22
Consensus pattern (27 bp):
AAGGAAAACCTTTGTGGCGAAATATGA
Found at i:56515821 original size:181 final size:181
Alignment explanation
Indices: 56515578--56515908 Score: 466
Period size: 181 Copynumber: 1.8 Consensus size: 181
56515568 TAATTTTCCC
* * * *
56515578 AAAAATTATACTCACATATATTCTTACCATAAAATTTTCAGAATTTTTTGTTTAGCCAATTAGCA
1 AAAAACTATACTCACATATATTATTACCACAAAATTTTCAGAATTTTTGGTTTAGCCAATTAGCA
** *
56515643 CAGTTTATTCATTAAAGTTATC-CCTATTTCACTGTCCAACAGTTCCAACCTCTCTTCACTAAAA
66 CAGTTTATTCATTAAAAATA-CACATATTTCACTGTCCAACAGTTCCAACCTCTCTTCACTAAAA
56515707 ATTATTTATCTCATGGTACAGGACACCAAATTAAGAACAGCTAATTTTACAA
130 ATTATTTATCTCATGGTACAGGACACCAAATTAAGAACAGCTAATTTTACAA
* * * *
56515759 AAAAACTATACTTACATATATTATTACTACAAAATTTTCATAATTTTTGGTTTAGCCAATTAGTA
1 AAAAACTATACTCACATATATTATTACCACAAAATTTTCAGAATTTTTGGTTTAGCCAATTAGCA
* * * *** * * *
56515824 TAGTTTATTCATTAAAAATACACATGTTTCATTGTTTGACAGTTCCAATCTTTCTTCACTAAATA
66 CAGTTTATTCATTAAAAATACACATATTTCACTGTCCAACAGTTCCAACCTCTCTTCACTAAAAA
56515889 TTATTTATCTCATGGTACAG
131 TTATTTATCTCATGGTACAG
56515909 ATCTCGGATG
Statistics
Matches: 129, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
180 1 0.01
181 128 0.99
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (181 bp):
AAAAACTATACTCACATATATTATTACCACAAAATTTTCAGAATTTTTGGTTTAGCCAATTAGCA
CAGTTTATTCATTAAAAATACACATATTTCACTGTCCAACAGTTCCAACCTCTCTTCACTAAAAA
TTATTTATCTCATGGTACAGGACACCAAATTAAGAACAGCTAATTTTACAA
Found at i:56518152 original size:18 final size:18
Alignment explanation
Indices: 56518129--56518165 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
56518119 CTACCTCTAT
56518129 TAGTAGTGCTAGTCTGTC
1 TAGTAGTGCTAGTCTGTC
56518147 TAGTAGTGCTAGTCTGTC
1 TAGTAGTGCTAGTCTGTC
56518165 T
1 T
56518166 GACATTCTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.41
Consensus pattern (18 bp):
TAGTAGTGCTAGTCTGTC
Found at i:56520317 original size:180 final size:178
Alignment explanation
Indices: 56519998--56520333 Score: 505
Period size: 180 Copynumber: 1.9 Consensus size: 178
56519988 TAAGATCTAT
* *
56519998 TAATTTTCCCAAAAACTAGACTCACATATATTCTTACCATAAAACTTTCAGAATTTTTTTTAGCC
1 TAATTTTCCCAAAAACTAGACTCACATATATTCTTACAATAAAACTTTCAGAATTTTGTTTAGCC
* *
56520063 AATTAGTACAGTTTATTCATTAAATTTACCCCTATTTCACTGTCCAACACTTCCGACCTCTCTTC
66 AATTAGTACAGTTTATTCATTAAATATACCCCTATTTCACTGTCCAACACTTCCAACCTCTCTTC
56520128 ACAAAAAATTATTTATCTCATGGTACGGGACTCAAAATTAAGAACCGC
131 ACAAAAAATTATTTATCTCATGGTACGGGACTCAAAATTAAGAACCGC
*
56520176 TAATTTTCCCACAAACTAGACTCACATATATTCTTACAATAAAA-TTTCCAGAATTGTTGGTTTA
1 TAATTTTCCCAAAAACTAGACTCACATATATTCTTACAATAAAACTTT-CAGAATT-TT-GTTTA
* * ** * * * *
56520240 GCCAATTAGTATAGTTTATTCATTAAATATACCCCTGTTTCACTGTCTGATAGTTCCAATCTTTC
63 GCCAATTAGTACAGTTTATTCATTAAATATACCCCTATTTCACTGTCCAACACTTCCAACCTCTC
56520305 TTCA-ATAAAAATTATTTATCTCATGGTAC
128 TTCACA-AAAAATTATTTATCTCATGGTAC
56520334 AGATCTCGGA
Statistics
Matches: 141, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
177 3 0.02
178 49 0.35
179 3 0.02
180 86 0.61
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.37
Consensus pattern (178 bp):
TAATTTTCCCAAAAACTAGACTCACATATATTCTTACAATAAAACTTTCAGAATTTTGTTTAGCC
AATTAGTACAGTTTATTCATTAAATATACCCCTATTTCACTGTCCAACACTTCCAACCTCTCTTC
ACAAAAAATTATTTATCTCATGGTACGGGACTCAAAATTAAGAACCGC
Found at i:56520945 original size:50 final size:50
Alignment explanation
Indices: 56520883--56521100 Score: 258
Period size: 50 Copynumber: 4.3 Consensus size: 50
56520873 GGTACGCATG
*
56520883 GTAGCCTGCACTTAGTACTACGCATGCGACCTATCAATCTGGTACACGTA
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTA
* * * * * *
56520933 GTAGCCTGCACTTAGTACTACACACGTGACTTATCCATCTGATATACGTA
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTA
* * ** * * * *
56520983 GTAGGCTGCACTTAGTACTACACATGTGATCGAAGTTAA-CGGGTACGCATA
1 GTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAATCTGGTACACGTA
**
56521034 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCAGTACACGTA
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTA
56521084 GTAGCCTGCACTTAGTA
1 GTAGCCTGCACTTAGTA
56521101 TGTAACACCC
Statistics
Matches: 138, Mismatches: 27, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
49 3 0.02
50 97 0.70
51 36 0.26
52 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (50 bp):
GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTA
Found at i:56521801 original size:30 final size:30
Alignment explanation
Indices: 56521765--56521866 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
56521755 AACCAAAATG
* *
56521765 AGAATCAGAATCAGAATCAATAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
56521795 AGAATCAGAATCA-ATATTAGTAACAGAATT
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
*
56521825 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
56521856 AGAATCAGAAT
1 AGAATCAGAAT
56521867 TAGGTGACAG
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.02
30 42 0.66
31 21 0.33
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:56521885 original size:6 final size:6
Alignment explanation
Indices: 56521765--56521866 Score: 86
Period size: 6 Copynumber: 16.8 Consensus size: 6
56521755 AACCAAAATG
* *
56521765 AGAATC AGAATC AGAATC A-ATAAC AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AGA-ATC AGAATC AGAATC AGAATC AGA-ATC
* * *
56521813 AGTAA-C AGAATT AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
56521862 AGAAT
1 AGAAT
56521867 TAGGTGACAG
Statistics
Matches: 77, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
5 5 0.06
6 66 0.86
7 4 0.05
8 2 0.03
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:56521891 original size:25 final size:25
Alignment explanation
Indices: 56521825--56521885 Score: 122
Period size: 25 Copynumber: 2.4 Consensus size: 25
56521815 TAACAGAATT
56521825 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATTAGGTGAC
56521850 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATTAGGTGAC
56521875 AGAATCAGAAT
1 AGAATCAGAAT
56521886 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGAATTAGGTGAC
Found at i:56522066 original size:27 final size:27
Alignment explanation
Indices: 56522003--56522068 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
56521993 AGCATGGCTG
*
56522003 CCAGAA-CAGATATCGTGACAGAGTCA
1 CCAGAATCAGATATCGTGACAGAGCCA
* * *
56522029 CTAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATATCGTGACAGAGCCA
56522056 CCAGAATCAGATA
1 CCAGAATCAGATA
56522069 ATATGGCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
25 1 0.03
26 3 0.09
27 26 0.81
28 2 0.06
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATATCGTGACAGAGCCA
Found at i:56522289 original size:22 final size:22
Alignment explanation
Indices: 56522241--56522299 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
56522231 GTAAATACGT
*
56522241 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
56522263 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
56522285 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
56522300 TAATAACGGG
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:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:56522670 original size:27 final size:27
Alignment explanation
Indices: 56522640--56522835 Score: 221
Period size: 27 Copynumber: 7.3 Consensus size: 27
56522630 GGGGCAAAAT
* * *
56522640 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56522667 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
56522694 GGTATTTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
56522721 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
56522748 GGTACTTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
56522775 TGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
56522802 GGAAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56522829 AGTAATT
1 GGTAATT
56522836 TCACAATCAA
Statistics
Matches: 141, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 141 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Done.