Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 121 of 332
Found at i:39072083 original size:38 final size:38
Alignment explanation
Indices: 39072040--39072351 Score: 421
Period size: 38 Copynumber: 8.2 Consensus size: 38
39072030 ATGATATTTG
* ** *
39072040 TATCCGGCTTAAAGACCGCAGGCTAT-ATGCTGG-AATTA
1 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGTAA-TA
39072078 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
39072116 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * *
39072154 TATCCGAGTTAATTCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* *
39072192 TATCTGGGTTAAATCTCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
39072230 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * *
39072268 TATCCGGGTTAATTCCTGCAGGCTTCGTACTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
** * * *
39072306 TATCCGGGTTAAATCCTACAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
39072344 TATTCGGG
1 TATCCGGG
39072352 CCTTTGAGCC
Statistics
Matches: 248, Mismatches: 24, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
37 1 0.00
38 245 0.99
39 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:39072395 original size:45 final size:45
Alignment explanation
Indices: 39072344--39072469 Score: 209
Period size: 45 Copynumber: 2.8 Consensus size: 45
39072334 GCTGGTATTA
*
39072344 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* *
39072389 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
39072434 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCG
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCG
39072470 ATGAAATGAT
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
44 4 0.05
45 72 0.95
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
Found at i:39073953 original size:46 final size:46
Alignment explanation
Indices: 39073900--39074075 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
39073890 TGATTGAGCA
39073900 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
39073946 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
39073991 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39074039 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39074076 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:39074056 original size:93 final size:93
Alignment explanation
Indices: 39073897--39074068 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
39073887 GGATGATTGA
* * *
39073897 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39073962 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
39073990 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39074055 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
39074069 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39080534 original size:43 final size:44
Alignment explanation
Indices: 39080463--39080597 Score: 166
Period size: 43 Copynumber: 3.1 Consensus size: 44
39080453 TATCGAAATG
* * *
39080463 TGATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGGGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * * *
39080507 TGATA-TCGGGCTTTGAGCTTAGTAGGCTATGATGCCGATGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
39080550 T-ATTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATTCG-GGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
39080595 TGA
1 TGA
39080598 AATGTTATGT
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 1 0.01
43 34 0.45
44 8 0.11
45 31 0.41
46 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:39080579 original size:45 final size:43
Alignment explanation
Indices: 39080480--39080597 Score: 148
Period size: 45 Copynumber: 2.7 Consensus size: 43
39080470 CGGGCTTCGG
* *
39080480 GCCTAGCAGGCTATAATGCCGGGGAAATGATATCGGGCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
* * * *
39080523 GCTTAGTAGGCTATGATGCCGATGAAAT-ATTATTCGAGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TCG-GCCTTTGA
39080568 GCCTAGCAGGCTATAATGCCGGTGAAATGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA
39080598 AATGTTATGT
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 1 0.02
43 25 0.41
44 3 0.05
45 31 0.51
46 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (43 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
Found at i:39080910 original size:38 final size:38
Alignment explanation
Indices: 39080867--39081178 Score: 457
Period size: 38 Copynumber: 8.2 Consensus size: 38
39080857 ATGATATTTG
* ** *
39080867 TATCCGGTTTAAAGACCGCAGGCTAT-ATGCTGG-AATTA
1 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGTAA-TA
39080905 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
39080943 TATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* *
39080981 TATCCGGGTTAATTCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* *
39081019 TATCCGGGTTAAATCCTGCAGGCTTCGTACTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
39081057 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* *
39081095 TATCCGGGTTAATTCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * *
39081133 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
39081171 TATTCGGG
1 TATCCGGG
39081179 CCTTTGAGCC
Statistics
Matches: 252, Mismatches: 20, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
37 1 0.00
38 249 0.99
39 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:39081221 original size:45 final size:44
Alignment explanation
Indices: 39081171--39081300 Score: 181
Period size: 45 Copynumber: 2.9 Consensus size: 44
39081161 GCTGGTATTA
*
39081171 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGATGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATG-CGATGAGACAC
* * *
39081216 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCTAGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCGA-TGAGACAC
39081261 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGTCGATGA
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATG-CGATGA
39081301 AATTATAATC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
44 6 0.08
45 68 0.89
46 2 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (44 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCGATGAGACAC
Found at i:39083489 original size:48 final size:48
Alignment explanation
Indices: 39083429--39083662 Score: 252
Period size: 48 Copynumber: 4.9 Consensus size: 48
39083419 GCTTTGGGGT
* * * *
39083429 ATATTTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCA
1 ATATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTA
* * ** *
39083477 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAACATTG
1 ATATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTA
* * ** * * * *
39083525 TTATGAGAATTAGTCTAAGACAATGTCTGGGACATGGCATCGGCCTTA
1 ATATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTA
* * *
39083573 ATATGTGAGCTAGTGTAAGACTATGTTTGGAACATGGCATCGGCATTG
1 ATATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTA
* * * *
39083621 TTATGAGAGCTAGTATAAGACCATGTCTGGGACATGGCATCG
1 ATATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCG
39083663 ACATCTTAGC
Statistics
Matches: 150, Mismatches: 36, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 150 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (48 bp):
ATATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTA
Found at i:39083608 original size:96 final size:96
Alignment explanation
Indices: 39083444--39083662 Score: 348
Period size: 96 Copynumber: 2.3 Consensus size: 96
39083434 TGAGCCAGTG
*
39083444 TAAGACCATGTTTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTGGAA
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTGGAA
* *
39083509 CATGGCATCAACATTGTTATGAGAATTAGTC
66 CATGGCATCAACATTGTTATGAGAACTAGTA
* * * *
39083540 TAAGACAATGTCTGGGACATGGCATCGGCCTTAATATGTGAGCTAGTGTAAGACTATGTTTGGAA
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTGGAA
** *
39083605 CATGGCATCGGCATTGTTATGAGAGCTAGTA
66 CATGGCATCAACATTGTTATGAGAACTAGTA
39083636 TAAGACCATGTCTGGGACATGGCATCG
1 TAAGACCATGTCTGGGACATGGCATCG
39083663 ACATCTTAGC
Statistics
Matches: 112, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 112 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (96 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTGGAA
CATGGCATCAACATTGTTATGAGAACTAGTA
Found at i:39085122 original size:42 final size:42
Alignment explanation
Indices: 39085075--39085162 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
39085065 AGCCTAGCTG
*
39085075 TGGTCTTACATGAAGTCTCATA-TCAATGCCATATCCCAGATA
1 TGGTCTTACACGAAGTCTCATACT-AATGCCATATCCCAGATA
* *
39085117 TGGTCTTACACGTAGTCTCATACTGATGCCATATCCCAGATA
1 TGGTCTTACACGAAGTCTCATACTAATGCCATATCCCAGATA
39085159 TGGT
1 TGGT
39085163 ATTATACGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
42 41 0.98
43 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (42 bp):
TGGTCTTACACGAAGTCTCATACTAATGCCATATCCCAGATA
Found at i:39093958 original size:43 final size:43
Alignment explanation
Indices: 39093911--39094002 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
39093901 CAGATAGTGC
* * *
39093911 CTTACACGAAATCGATTA-ACGATGCCAATGTCCCAGACATGGT
1 CTTACACGAAATC-ATAATACAACGCCAATGTCCCAGACATGGT
*
39093954 CTTACACGTAATCATAATACAACGCCAATGTCCCAGACATGGT
1 CTTACACGAAATCATAATACAACGCCAATGTCCCAGACATGGT
*
39093997 ATTACA
1 CTTACA
39094003 TGTAATCACA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 3 0.07
43 40 0.93
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (43 bp):
CTTACACGAAATCATAATACAACGCCAATGTCCCAGACATGGT
Found at i:39097822 original size:67 final size:64
Alignment explanation
Indices: 39097676--39097855 Score: 166
Period size: 67 Copynumber: 2.7 Consensus size: 64
39097666 CATCATGTGT
* * * * *
39097676 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACG-G-GA-TAT-ATGTAGCTAGGTCGCATGGGTGGTACCATGAGGACACCATG
* *
39097741 TAG
62 CAA
* *
39097744 ACAAGAAAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTACCAGGTGAAGGACACCATGC
1 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGGGTGGTACCA--TG-AGGACACCATGC
39097809 AA
63 AA
* * *
39097811 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGGTAC
1 ACAAGAGAGCTACGGGATATA-TGTAGCTAGGTCGCATGGGTGGTAC
39097856 TAAGTGTTCG
Statistics
Matches: 94, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
64 25 0.27
65 3 0.03
66 22 0.23
67 29 0.31
68 15 0.16
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (64 bp):
ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGGGTGGTACCATGAGGACACCATGCAA
Found at i:39113573 original size:43 final size:43
Alignment explanation
Indices: 39113508--39113632 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 43
39113498 CTTGCATGTT
* * * *
39113508 ATCAC-ATATCGATACCAGTGTCCTAGACAAGGTCTTACACAAA
1 ATCACAATA-CGATGCCAATGTCCCAGACATGGTCTTACACAAA
* **
39113551 ATC-GAATAACGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 ATCACAAT-ACGATGCCAATGTCCCAGACATGGTCTTACACAAA
* *
39113594 ATCACAATACAATGCCAATGTCCCAGACATGGTATTACA
1 ATCACAATACGATGCCAATGTCCCAGACATGGTCTTACA
39113633 TGTAATCACA
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
43 65 0.94
44 4 0.06
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (43 bp):
ATCACAATACGATGCCAATGTCCCAGACATGGTCTTACACAAA
Found at i:39114046 original size:16 final size:19
Alignment explanation
Indices: 39114022--39114062 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
39114012 GTTTTATTAT
39114022 TAAACTTATT-TATT-TCC
1 TAAACTTATTATATTATCC
39114039 TAAA-TTATTATATTATCC
1 TAAACTTATTATATTATCC
*
39114057 TTAACT
1 TAAACT
39114063 AATAAACATG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.25
17 8 0.40
18 6 0.30
19 1 0.05
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (19 bp):
TAAACTTATTATATTATCC
Found at i:39114052 original size:17 final size:18
Alignment explanation
Indices: 39114014--39114062 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 18
39114004 ATTTGTTTGT
39114014 TTTATTAT--TAAACTTA
1 TTTATTATCCTAAACTTA
39114030 TTTATT-TCCTAAA-TTA
1 TTTATTATCCTAAACTTA
*
39114046 TTATATTATCCTTAACT
1 TT-TATTATCCTAAACT
39114063 AATAAACATG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 1 0.04
16 11 0.41
17 8 0.30
18 6 0.22
19 1 0.04
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTATTATCCTAAACTTA
Found at i:39121435 original size:27 final size:27
Alignment explanation
Indices: 39121376--39121436 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
39121366 ATACATATTT
* **
39121376 TAGGGGTATATCAGTCATTTTACCTCA
1 TAGGGGTATAACAGTCATTTTACCAAA
39121403 TAGGGGTATAACAGTCATTTTACCAAA
1 TAGGGGTATAACAGTCATTTTACCAAA
*
39121430 TTGGGGT
1 TAGGGGT
39121437 GTAGGTATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (27 bp):
TAGGGGTATAACAGTCATTTTACCAAA
Found at i:39126021 original size:27 final size:27
Alignment explanation
Indices: 39125961--39126022 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
39125951 CATACATATC
* **
39125961 ATAGGGGTATATCAGTCATTTTACCTC
1 ATAGGGGTATAACAGTCATTTTACCAA
*
39125988 ATAGGGGTATAACAGTCATTTTCCCAA
1 ATAGGGGTATAACAGTCATTTTACCAA
*
39126015 ATTGGGGT
1 ATAGGGGT
39126023 CAAGGTATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (27 bp):
ATAGGGGTATAACAGTCATTTTACCAA
Found at i:39129548 original size:46 final size:48
Alignment explanation
Indices: 39129445--39129561 Score: 130
Period size: 48 Copynumber: 2.5 Consensus size: 48
39129435 CTTCGACATG
** * * *
39129445 GACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAATATG
1 GACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAATATA
* * * *
39129493 GGCTTACATGGCTCATTCCTGTCTCCAAAGTCATATA-A-CTGATATA
1 GACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAATATA
*
39129539 GACTTACATGGCTCATTTCTGTC
1 GACTTACATGGCTCATTCCTGTC
39129562 CTGTCCTGTC
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 26 0.45
47 1 0.02
48 31 0.53
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (48 bp):
GACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAATATA
Found at i:39130995 original size:18 final size:18
Alignment explanation
Indices: 39130946--39130998 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
39130936 TAGACATAAG
39130946 GACACGCTTGTGTGCCCTT
1 GACACGCTTGTGT-CCCTT
**
39130965 GACACGCACGTGTCCCTT
1 GACACGCTTGTGTCCCTT
*
39130983 GACACACTTGTGTCCC
1 GACACGCTTGTGTCCC
39130999 CAGGCCGTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 18 0.62
19 11 0.38
ACGTcount: A:0.15, C:0.36, G:0.23, T:0.26
Consensus pattern (18 bp):
GACACGCTTGTGTCCCTT
Found at i:39132318 original size:48 final size:48
Alignment explanation
Indices: 39132247--39132514 Score: 285
Period size: 48 Copynumber: 5.6 Consensus size: 48
39132237 TAAAATACCA
* *
39132247 ATGCCATGTCCCTAG-CATGGTCTTACAC--GAATCAACATATCATTGTCG
1 ATGCCATGTCCC-AGACATGGTCTTACACTGGCA-C-ACATATCATCGTCG
* * * ** *
39132295 ATGCCACGTCCTAGACATGGTCTTGCACTGGCACACATATCATCACCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTCG
* ** * *
39132343 ATGCCCTGTCCCAGACATGGTCTTATTCTGACATACATATCATCG-CTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTC-G
39132391 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTCG
* * * * *
39132439 ATGCCATGTCCCAGACATGGTCTTACACAGTCACATAGATCGTCG-CTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTC-G
*
39132487 ATGCCATGTGCCAGACATGGTCTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
39132515 AGTCACATTT
Statistics
Matches: 185, Mismatches: 29, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
47 4 0.02
48 177 0.96
49 2 0.01
50 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTCG
Found at i:39132407 original size:96 final size:95
Alignment explanation
Indices: 39132243--39132514 Score: 325
Period size: 96 Copynumber: 2.8 Consensus size: 95
39132233 CAATTAAAAT
* *
39132243 ACCAATGCCATGTCCCTAG-CATGGTCTTACACGA-ATCAACATATCATTG-TCGATGCCACGTC
1 ACCAATGCCATGTCCC-AGACATGGTCTTACACGACAT--ACATATCATCGCT-GATGCCATGTC
* *
39132305 CTAGACATGGTCTTGCACTGGCACACATATCATC
62 CCAGACATGGTCTTACACTGGCACACATATCATC
* **
39132339 ACCAATGCCCTGTCCCAGACATGGTCTTATTCTGACATACATATCATCGCTGATGCCATGTCCCA
1 ACCAATGCCATGTCCCAGACATGGTCTTACAC-GACATACATATCATCGCTGATGCCATGTCCCA
39132404 GACATGGTCTTACACTGGCACACATATCATC
65 GACATGGTCTTACACTGGCACACATATCATC
** * * * * * * *
39132435 GTCGATGCCATGTCCCAGACATGGTCTTACACAGTCACATAGATCGTCGCTGATGCCATGTGCCA
1 ACCAATGCCATGTCCCAGACATGGTCTTACAC-GACATACATATCATCGCTGATGCCATGTCCCA
39132500 GACATGGTCTTACAC
65 GACATGGTCTTACAC
39132515 AGTCACATTT
Statistics
Matches: 152, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
95 2 0.01
96 145 0.95
97 3 0.02
98 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (95 bp):
ACCAATGCCATGTCCCAGACATGGTCTTACACGACATACATATCATCGCTGATGCCATGTCCCAG
ACATGGTCTTACACTGGCACACATATCATC
Found at i:39132507 original size:144 final size:144
Alignment explanation
Indices: 39132247--39132511 Score: 347
Period size: 144 Copynumber: 1.8 Consensus size: 144
39132237 TAAAATACCA
* *
39132247 ATGCCATGTCCCTAGCATGGTCTTACACGAATCAACATATCATTGTCGATGCCACGTCCTAGACA
1 ATGCCATGTCCCTAGCATGGTCTTACACGAATCAACATATCATCGTCGATGCCACGTCCCAGACA
* * * *
39132312 TGGTCTTGCACTGGCACACATATCATCACCAATGCCCTGTCCCAGACATGGTCTTATTCTGACAT
66 TGGTCTTACACAGGCACACAGATCATCACCAATGCCATGTCCCAGACATGGTCTTATTCTGACAT
39132377 ACATATCATCGCTG
131 ACATATCATCGCTG
* *
39132391 ATGCCATGTCCC-AGACATGGTCTTACACTG--GCACACATATCATCGTCGATGCCATGTCCCAG
1 ATGCCATGTCCCTAG-CATGGTCTTACAC-GAATCA-ACATATCATCGTCGATGCCACGTCCCAG
* * * * ** *
39132453 ACATGGTCTTACACAGTCACATAGATCGTCGCTGATGCCATGTGCCAGACATGGTCTTA
63 ACATGGTCTTACACAGGCACACAGATCATCACCAATGCCATGTCCCAGACATGGTCTTA
39132512 CACAGTCACA
Statistics
Matches: 103, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
143 4 0.04
144 98 0.95
145 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (144 bp):
ATGCCATGTCCCTAGCATGGTCTTACACGAATCAACATATCATCGTCGATGCCACGTCCCAGACA
TGGTCTTACACAGGCACACAGATCATCACCAATGCCATGTCCCAGACATGGTCTTATTCTGACAT
ACATATCATCGCTG
Found at i:39134118 original size:12 final size:12
Alignment explanation
Indices: 39134101--39134127 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
39134091 ATGTCCTATG
39134101 AAGCGAGGACTT
1 AAGCGAGGACTT
39134113 AAGCGAGGACTT
1 AAGCGAGGACTT
39134125 AAG
1 AAG
39134128 TTGCCCTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.15, G:0.33, T:0.15
Consensus pattern (12 bp):
AAGCGAGGACTT
Found at i:39139784 original size:48 final size:49
Alignment explanation
Indices: 39139713--39139932 Score: 290
Period size: 48 Copynumber: 4.6 Consensus size: 49
39139703 TAAAGTACCA
* * *
39139713 ATGCCATGTCCCCGACATGGTCTTACA-TGAATC-CTCATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTG-AGCACACATATCATCGCCG
*
39139761 ATGCCATGTCCCAAACATGGTCTTACACT-AGCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGAGCACACATATCATCGCCG
*
39139809 ATGCCATGTCCCAGACATGGTCTTACACTG-GCACACATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGAGCACACATATCATCGCCG
* * * *
39139857 ATGTCATGTCCCAGACATGGTCTTACA-T-AGACACATATATCATCACAG
1 ATGCCATGTCCCAGACATGGTCTTACACTGAG-CACACATATCATCGCCG
*
39139905 ATTCCATGTCCCAGACATGGTCTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
39139933 AGGCACATTT
Statistics
Matches: 154, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
47 4 0.03
48 149 0.97
49 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGAGCACACATATCATCGCCG
Found at i:39141303 original size:17 final size:17
Alignment explanation
Indices: 39141277--39141322 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
39141267 TGATAGATCT
39141277 TCGA-CGAGCTTCCAAA
1 TCGATCGAGCTTCCAAA
39141293 -CTGATCGAGCTTCCAAA
1 TC-GATCGAGCTTCCAAA
39141310 TCGATCGAGCTTC
1 TCGATCGAGCTTC
39141323 TGATGATCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.04
16 2 0.07
17 23 0.85
18 1 0.04
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (17 bp):
TCGATCGAGCTTCCAAA
Found at i:39144736 original size:18 final size:18
Alignment explanation
Indices: 39144713--39144755 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
39144703 AAACACACAA
39144713 AGTAAGCTTAAAAAGCTT
1 AGTAAGCTTAAAAAGCTT
39144731 AGTAAGCTTAAAAAGCTT
1 AGTAAGCTTAAAAAGCTT
39144749 AGTAAGC
1 AGTAAGC
39144756 CATGAGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.26
Consensus pattern (18 bp):
AGTAAGCTTAAAAAGCTT
Found at i:39144755 original size:9 final size:9
Alignment explanation
Indices: 39144713--39144755 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
39144703 AAACACACAA
39144713 AGTAAGCTT
1 AGTAAGCTT
**
39144722 AAAAAGCTT
1 AGTAAGCTT
39144731 AGTAAGCTT
1 AGTAAGCTT
**
39144740 AAAAAGCTT
1 AGTAAGCTT
39144749 AGTAAGC
1 AGTAAGC
39144756 CATGAGCAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.26
Consensus pattern (9 bp):
AGTAAGCTT
Found at i:39145094 original size:43 final size:43
Alignment explanation
Indices: 39145046--39145149 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
39145036 CCCGAATATT
* *
39145046 GTCTTACATGCTATCACA-TATCGATGCCACTGTCCCAGACAGG
1 GTCTTACACGCTATCACACT-TCGATGCCAATGTCCCAGACAGG
* * * *
39145089 GTCTTACACGTTTTCTCACTTCGATGCCAATGTCCCAGACATG
1 GTCTTACACGCTATCACACTTCGATGCCAATGTCCCAGACAGG
*
39145132 GTCTTACACG-AATCACAC
1 GTCTTACACGCTATCACAC
39145150 ATCAGAAGTC
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 5 0.10
43 45 0.88
44 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (43 bp):
GTCTTACACGCTATCACACTTCGATGCCAATGTCCCAGACAGG
Found at i:39150307 original size:22 final size:22
Alignment explanation
Indices: 39150256--39150308 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
39150246 AGCATTAATT
*
39150256 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAGGCCGAATGGCCA
39150278 ATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAGGCCGAATGGCCA
39150300 ATGTGATGA
1 ATGTGATGA
39150309 ATGTGAAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.34, T:0.21
Consensus pattern (22 bp):
ATGTGATGAGGCCGAATGGCCA
Found at i:39151732 original size:14 final size:14
Alignment explanation
Indices: 39151698--39151732 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
39151688 TGTGTAGTAT
*
39151698 TATGTGCAGACTAC
1 TATGTGTAGACTAC
39151712 TATGTGTAGACTAC
1 TATGTGTAGACTAC
39151726 TATGTGT
1 TATGTGT
39151733 TTAAGATGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (14 bp):
TATGTGTAGACTAC
Found at i:39151889 original size:101 final size:100
Alignment explanation
Indices: 39151749--39151931 Score: 285
Period size: 101 Copynumber: 1.8 Consensus size: 100
39151739 TGGTTTTAGG
**
39151749 TCATGTGTGTAGTAATAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCGCATGTATAGTAC
1 TCATGTGTGTAGTAATAAGTGCAGGCTACTACATGTACCAGATAGTT-GGTCGCATGTATAGTAC
* *
39151814 TAAGTGCAGGCTACTATGTGTACCCAACAACTTCGA
65 TAAGTGCAGACAACTATGTGTACCCAACAACTTCGA
* * * *
39151850 TCATGTGTGTAGTAGTAAGTGCAGGCTACTACATTTACCAGATTGTTGGTCGCATGTGTAGTACT
1 TCATGTGTGTAGTAATAAGTGCAGGCTACTACATGTACCAGATAGTTGGTCGCATGTATAGTACT
39151915 AAGTGCAGACAACTATG
66 AAGTGCAGACAACTATG
39151932 CTTACCAGAT
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 32 0.43
101 42 0.57
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (100 bp):
TCATGTGTGTAGTAATAAGTGCAGGCTACTACATGTACCAGATAGTTGGTCGCATGTATAGTACT
AAGTGCAGACAACTATGTGTACCCAACAACTTCGA
Found at i:39151906 original size:51 final size:49
Alignment explanation
Indices: 39151754--39151943 Score: 186
Period size: 50 Copynumber: 3.8 Consensus size: 49
39151744 TTAGGTCATG
*
39151754 TGTGTAGTAATAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTT-GGTCGCA
* * * * ***
39151804 TGTATAGTACTAAGTGCAGGCTACTATGTGTACCCA-ACAACTTCGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCAGA-TAGTT-GGTCGCA
* ** * *
39151855 TGTGTAGTAGTAAGTGCAGGCTACTACATTTACCAGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTGGTCGCA
* *
39151904 TGTGTAGTACTAAGTGCAGACAACTATGCT-TACCAGATAG
1 TGTGTAGTACTAAGTGCAGGCTACTATG-TGTACCAGATAG
39151944 CTTCGGCTAC
Statistics
Matches: 109, Mismatches: 27, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
49 35 0.32
50 37 0.34
51 37 0.34
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTGGTCGCA
Found at i:39160635 original size:96 final size:96
Alignment explanation
Indices: 39160479--39160655 Score: 275
Period size: 96 Copynumber: 1.8 Consensus size: 96
39160469 CACACACTAT
*
39160479 AAGTGCCAATATCATGGCCCGAAGCCAACTCAATATATCTTGCACCCAAAGTGCTAATATCATGG
1 AAGTGCCAATATCATGGCCCGAAGCCAACTCAATATATCTCGCACCCAAAGTGCTAATATCATGG
39160544 CCCGAAGCCAAATCAAAGTAATTCACACCCG
66 CCCGAAGCCAAATCAAAGTAATTCACACCCG
** * * *
39160575 AAGTGCCGGTATCATGGCTCGAAGCCAAAC-CAATGTATCTCGCACCCAAAGTGCTAATATCATT
1 AAGTGCCAATATCATGGCCCGAAGCC-AACTCAATATATCTCGCACCCAAAGTGCTAATATCATG
*
39160639 GCCCGAAGCCAGATCAA
65 GCCCGAAGCCAAATCAA
39160656 TGTTCCCCTA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 70 0.96
97 3 0.04
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.20
Consensus pattern (96 bp):
AAGTGCCAATATCATGGCCCGAAGCCAACTCAATATATCTCGCACCCAAAGTGCTAATATCATGG
CCCGAAGCCAAATCAAAGTAATTCACACCCG
Found at i:39160657 original size:48 final size:48
Alignment explanation
Indices: 39160479--39160658 Score: 218
Period size: 48 Copynumber: 3.8 Consensus size: 48
39160469 CACACACTAT
* * *
39160479 AAGTGCCAATATCATGGCCCGAAGCCAACTCAATATATCTTGCACCCA
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGTATCTCGCACCCA
* * * *
39160527 AAGTGCTAATATCATGGCCCGAAGCCAAATCAAAGTAAT-TCACACCCG
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGT-ATCTCGCACCCA
** * *
39160575 AAGTGCCGGTATCATGGCTCGAAGCCAAACCAATGTATCTCGCACCCA
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGTATCTCGCACCCA
* * *
39160623 AAGTGCTAATATCATTGCCCGAAGCCAGATCAATGT
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGT
39160659 TCCCCTAATG
Statistics
Matches: 108, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
47 2 0.02
48 104 0.96
49 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (48 bp):
AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGTATCTCGCACCCA
Found at i:39163217 original size:15 final size:16
Alignment explanation
Indices: 39163185--39163221 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
39163175 TTGGACTAAA
39163185 TTGAATGAAATTATAT
1 TTGAATGAAATTATAT
*
39163201 TTGAATGAATTTA-AT
1 TTGAATGAAATTATAT
39163216 TTGAAT
1 TTGAAT
39163222 ATGTTTAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.46
Consensus pattern (16 bp):
TTGAATGAAATTATAT
Found at i:39163589 original size:43 final size:43
Alignment explanation
Indices: 39163542--39163695 Score: 210
Period size: 43 Copynumber: 3.7 Consensus size: 43
39163532 TGTGTTCTCA
39163542 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* * * *
39163585 TGTAAGACCATGTCTGGGAC-ATGGCATCG-TATTTTATT-CG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
*
39163625 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATTACG
39163668 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
39163696 TGTACGATAT
Statistics
Matches: 96, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
40 20 0.21
41 15 0.16
42 16 0.17
43 44 0.46
44 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
Found at i:39163874 original size:16 final size:16
Alignment explanation
Indices: 39163850--39163880 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39163840 TGGTTACTTG
*
39163850 ATATGTGATGCAAATT
1 ATATATGATGCAAATT
39163866 ATATATGATGCAAAT
1 ATATATGATGCAAAT
39163881 GAAAATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.35
Consensus pattern (16 bp):
ATATATGATGCAAATT
Found at i:39167849 original size:19 final size:20
Alignment explanation
Indices: 39167812--39167849 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
39167802 ATAAGGTGGT
39167812 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
39167832 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
39167850 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:39183841 original size:46 final size:45
Alignment explanation
Indices: 39183788--39183960 Score: 154
Period size: 46 Copynumber: 3.8 Consensus size: 45
39183778 ATGTTGAGCA
*
39183788 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * * *
39183834 TCCGAACTCGTAGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* *
39183879 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
39183927 CCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
39183961 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.57
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:39183944 original size:93 final size:93
Alignment explanation
Indices: 39183785--39183955 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
39183775 GGAATGTTGA
* * *
39183785 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCCGAACTCGTAGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATAGAGT
39183850 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
** * * *
39183878 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATAGAGT
*
39183943 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
39183956 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATAGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:39184221 original size:19 final size:20
Alignment explanation
Indices: 39184184--39184221 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
39184174 ATAAGGTGGT
39184184 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
39184204 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
39184222 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:39200039 original size:15 final size:15
Alignment explanation
Indices: 39200007--39200035 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
39199997 ATTTTCTGTG
39200007 TTTATATTGTGTGAA
1 TTTATATTGTGTGAA
39200022 TTTATA-TGTGTGAA
1 TTTATATTGTGTGAA
39200036 ATTTTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATATTGTGTGAA
Found at i:39200574 original size:15 final size:15
Alignment explanation
Indices: 39200554--39200583 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
39200544 ATTATGAAAG
39200554 ATATGTTTTGGATTA
1 ATATGTTTTGGATTA
*
39200569 ATATGTTTTGTATTA
1 ATATGTTTTGGATTA
39200584 GAATTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTA
Found at i:39201227 original size:43 final size:41
Alignment explanation
Indices: 39201177--39201324 Score: 147
Period size: 43 Copynumber: 3.5 Consensus size: 41
39201167 TATGTGTTCT
*
39201177 CATGTAAGACCACGTTTGGGACGTTGACATCAATATGTGATTA
1 CATGTAAGACCACGTCTGGGACGTTGACATC-ATATGTGA-TA
* * * * * *
39201220 CATGTAAGACCATGTCTGGGACATCGACATCGTATTTGATC
1 CATGTAAGACCACGTCTGGGACGTTGACATCATATGTGATA
* *
39201261 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGACTA
1 CATGTAAGACCAC-GTCTGGGAC-GTTGACATC-ATATGTGA-TA
39201304 CATGTAAGACCACGTCTGGGA
1 CATGTAAGACCACGTCTGGGA
39201325 GATTGGTGTT
Statistics
Matches: 84, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
41 25 0.30
42 12 0.14
43 46 0.55
44 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (41 bp):
CATGTAAGACCACGTCTGGGACGTTGACATCATATGTGATA
Found at i:39201505 original size:16 final size:16
Alignment explanation
Indices: 39201484--39201516 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
39201474 GTTGGTTACT
*
39201484 TTATATGTGATGCAAA
1 TTATATATGATGCAAA
39201500 TTATATATGATGCAAA
1 TTATATATGATGCAAA
39201516 T
1 T
39201517 GAAAATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.39
Consensus pattern (16 bp):
TTATATATGATGCAAA
Found at i:39210351 original size:24 final size:25
Alignment explanation
Indices: 39210317--39210365 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
39210307 ATTGGCAAGA
39210317 AAAAGAAAAGAAAAAGAGTTTTAGG
1 AAAAGAAAAGAAAAAGAGTTTTAGG
39210342 AAAA-AAAAGAAAAAGAGTTTTAGG
1 AAAAGAAAAGAAAAAGAGTTTTAGG
39210366 GTTCGGCTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.16
Consensus pattern (25 bp):
AAAAGAAAAGAAAAAGAGTTTTAGG
Found at i:39221418 original size:44 final size:44
Alignment explanation
Indices: 39221368--39221527 Score: 214
Period size: 44 Copynumber: 3.5 Consensus size: 44
39221358 TTTGAGTACT
*
39221368 TCTGATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTA
* *
39221412 TCTGATCAGTGATAAGTGAGAAATGATAAGTGGTAG-CTTAGCTACTCTTA
1 TCTGATCAGTGA-CA---AG---TGATAAGTGGTAGCCTTAGCTACACTTA
*
39221462 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTA
39221506 TCTGATCAGTGACAAGTGATAA
1 TCTGATCAGTGACAAGTGATAA
39221528 ATGTGATCAG
Statistics
Matches: 102, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
43 13 0.13
44 46 0.45
45 1 0.01
46 2 0.02
48 2 0.02
49 1 0.01
50 24 0.24
51 13 0.13
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (44 bp):
TCTGATCAGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTA
Found at i:39229283 original size:51 final size:50
Alignment explanation
Indices: 39229135--39229294 Score: 248
Period size: 51 Copynumber: 3.2 Consensus size: 50
39229125 ACTTCTGATC
* * *
39229135 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGATAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACA
* * *
39229186 AGTGAGAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
39229236 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
39229287 AGTGATAA
1 AGTGATAA
39229295 ATGTGATCAG
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 46 0.46
51 54 0.54
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (50 bp):
AGTGATAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
Found at i:39231645 original size:55 final size:55
Alignment explanation
Indices: 39231527--39231645 Score: 130
Period size: 55 Copynumber: 2.2 Consensus size: 55
39231517 GATATGGCCC
* * * * * * *
39231527 TGGTCGAGCCTTCCAAAACAACACGGGTGTGCGACATGCCCGTGTGGAAGAACCA
1 TGGTCGAACCTGCCAAAACAACACAGGCGTGCGACACGCCCGTGTGAAACAACCA
* * * * *
39231582 TGGGCGAACCTGCCAAAACAACATAGGCGTTCGACACGCCCGTGTGAAACACCCG
1 TGGTCGAACCTGCCAAAACAACACAGGCGTGCGACACGCCCGTGTGAAACAACCA
39231637 TGGTCGAAC
1 TGGTCGAAC
39231646 ATGTTAAATT
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.28, C:0.29, G:0.28, T:0.15
Consensus pattern (55 bp):
TGGTCGAACCTGCCAAAACAACACAGGCGTGCGACACGCCCGTGTGAAACAACCA
Found at i:39240920 original size:44 final size:44
Alignment explanation
Indices: 39240857--39240941 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
39240847 TGGTAAGGTA
39240857 ATAGCCTATGCTGCACGACAGTTGAAGCTGCATGAGAAAAAAGT
1 ATAGCCTATGCTGCACGACAGTTGAAGCTGCATGAGAAAAAAGT
**
39240901 ATAGCCTATTTTGCACGACAGTTGAAGCTGCATGAGAAAAA
1 ATAGCCTATGCTGCACGACAGTTGAAGCTGCATGAGAAAAA
39240942 CTATCCTACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (44 bp):
ATAGCCTATGCTGCACGACAGTTGAAGCTGCATGAGAAAAAAGT
Found at i:39247914 original size:30 final size:30
Alignment explanation
Indices: 39247880--39247940 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
39247870 TCCTTAACTC
39247880 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * * *
39247910 AAACTTTTGCATATTTACACTTTTGTCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
39247940 A
1 A
39247941 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:39257961 original size:30 final size:30
Alignment explanation
Indices: 39257926--39257995 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 30
39257916 AGTAGCCCAA
*
39257926 AAATTTCATTTATTTCACATTTTAACCCCT
1 AAATTTCATTTATTTCACAATTTAACCCCT
* *
39257956 AAATTTACA--CATTTCACAATTTAGCCCCT
1 AAATTT-CATTTATTTCACAATTTAACCCCT
* *
39257985 GATTTTCATTT
1 AAATTTCATTT
39257996 TCATTAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
28 2 0.06
29 21 0.68
30 6 0.19
31 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTATTTCACAATTTAACCCCT
Found at i:39260455 original size:41 final size:40
Alignment explanation
Indices: 39260394--39260537 Score: 162
Period size: 40 Copynumber: 3.5 Consensus size: 40
39260384 TGAATTCTCA
* * * *
39260394 CACACTATGTGCCAATACATAGCTGAAGCTATTTTAATATCG
1 CACACTAAGTG-CTATACATAGCTGAAGCTATCTCAA-ATCG
*
39260436 CACACTAAGTGCTATACATAGCCGAAGCTATCTCAAATCG
1 CACACTAAGTGCTATACATAGCTGAAGCTATCTCAAATCG
* * * * * *
39260476 CTCACGAAGTGCTATACATAGTTGATGCTATCCCGAATCG
1 CACACTAAGTGCTATACATAGCTGAAGCTATCTCAAATCG
*
39260516 CACACTAAGTGCCATACATAGC
1 CACACTAAGTGCTATACATAGC
39260538 CAAATTCTTG
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 55 0.64
41 21 0.24
42 10 0.12
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (40 bp):
CACACTAAGTGCTATACATAGCTGAAGCTATCTCAAATCG
Found at i:39260562 original size:21 final size:21
Alignment explanation
Indices: 39260533--39260576 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
39260523 AGTGCCATAC
39260533 ATAGCCAAATTCTTGTCAAAT
1 ATAGCCAAATTCTTGTCAAAT
*
39260554 ATAGTCAAATTCTTGTCAAAT
1 ATAGCCAAATTCTTGTCAAAT
39260575 AT
1 AT
39260577 GACTATAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (21 bp):
ATAGCCAAATTCTTGTCAAAT
Found at i:39264396 original size:30 final size:30
Alignment explanation
Indices: 39264360--39264418 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
39264350 GTTTAAAATG
39264360 CTTATTTGGCTATGTTGATAATATAACATT
1 CTTATTTGGCTATGTTGATAATATAACATT
39264390 CTTATTTGGCTATGTTGATAATATAACAT
1 CTTATTTGGCTATGTTGATAATATAACAT
39264419 GTTTTGATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.46
Consensus pattern (30 bp):
CTTATTTGGCTATGTTGATAATATAACATT
Found at i:39268366 original size:14 final size:15
Alignment explanation
Indices: 39268341--39268369 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
39268331 ATTTTCTATG
39268341 TTTATAATGTGTGAA
1 TTTATAATGTGTGAA
39268356 TTTAT-ATGTGTGAA
1 TTTATAATGTGTGAA
39268370 CTTTTTGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
TTTATAATGTGTGAA
Found at i:39269599 original size:56 final size:56
Alignment explanation
Indices: 39269513--39269647 Score: 225
Period size: 56 Copynumber: 2.4 Consensus size: 56
39269503 CATGGCATCG
* * *
39269513 ATATATGTGTGCGGGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCCA
1 ATATATGTGTGTGAGTAAGACCACATTTAATACGTTGGCATCAATATGTGATTCCA
* *
39269569 ATATATATGTGTGAGTAAGACCACATTTAATACGTTGGCATCAATATGTGATTCCG
1 ATATATGTGTGTGAGTAAGACCACATTTAATACGTTGGCATCAATATGTGATTCCA
39269625 ATATATGTGTGTGAGTAAGACCA
1 ATATATGTGTGTGAGTAAGACCA
39269648 TGTCTGGGAC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 73 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (56 bp):
ATATATGTGTGTGAGTAAGACCACATTTAATACGTTGGCATCAATATGTGATTCCA
Found at i:39269664 original size:56 final size:56
Alignment explanation
Indices: 39269513--39269677 Score: 159
Period size: 56 Copynumber: 2.9 Consensus size: 56
39269503 CATGGCATCG
* * * * * **
39269513 ATATATGTGTGCGGGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCCA
1 ATATATATGTGTGAGTAAGACCACATCTAAGACAATGGCATCGATATGTGATTCCA
* * ** * *
39269569 ATATATATGTGTGAGTAAGACCACATTTAATACGTTGGCATCAATATGTGATTCCG
1 ATATATATGTGTGAGTAAGACCACATCTAAGACAATGGCATCGATATGTGATTCCA
* ** ** *
39269625 ATATATGTGTGTGAGTAAGACCATGTCTGGGACAATGGCATTGATATGTGATT
1 ATATATATGTGTGAGTAAGACCACATCTAAGACAATGGCATCGATATGTGATT
39269678 ACATGTAAGA
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 93 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (56 bp):
ATATATATGTGTGAGTAAGACCACATCTAAGACAATGGCATCGATATGTGATTCCA
Found at i:39272404 original size:47 final size:47
Alignment explanation
Indices: 39272286--39272455 Score: 194
Period size: 47 Copynumber: 3.7 Consensus size: 47
39272276 GGATGGTTGA
*
39272286 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
39272334 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
*
39272377 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-ATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
*
39272426 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
39272456 GCTTATGGGC
Statistics
Matches: 106, Mismatches: 7, Indels: 21
0.79 0.05 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 30 0.28
46 29 0.27
47 32 0.30
48 2 0.02
49 4 0.04
50 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:39272455 original size:92 final size:93
Alignment explanation
Indices: 39272286--39272456 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
39272276 GGATGGTTGA
* *
39272286 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39272351 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
39272379 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39272443 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
39272457 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 41 0.55
93 34 0.45
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39275412 original size:15 final size:15
Alignment explanation
Indices: 39275373--39275450 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
39275363 GTATCTTGGG
*
39275373 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
39275388 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
39275403 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
*
39275416 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
39275431 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
39275445 TTTCTT
1 TTTCTT
39275451 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
12 2 0.04
13 7 0.13
14 12 0.23
15 30 0.57
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:39275439 original size:28 final size:28
Alignment explanation
Indices: 39275364--39275446 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
39275354 CATAGTATCG
* * * *
39275364 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GG-TTTCTC
39275394 TAT-TCTGGATTTCTTTATTCGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGTTTCTC
39275422 TATCTTGGATTTCTTTATTCGGTTT
1 TATCTTGGATTTCTTTATTCGGTTT
39275447 TCTTGTTATC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 27 0.57
29 4 0.09
30 16 0.34
ACGTcount: A:0.11, C:0.17, G:0.16, T:0.57
Consensus pattern (28 bp):
TATCTTGGATTTCTTTATTCGGTTTCTC
Found at i:39277868 original size:46 final size:46
Alignment explanation
Indices: 39277818--39277992 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
39277808 TGGTTGAGCA
39277818 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39277864 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
39277909 CATCCG-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39277956 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39277993 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 6 0.06
46 83 0.76
47 7 0.06
49 4 0.04
50 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:39277980 original size:92 final size:93
Alignment explanation
Indices: 39277815--39277985 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
39277805 GGATGGTTGA
* *
39277815 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39277880 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
39277908 GCATCCG-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39277972 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
39277986 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 68 0.91
93 7 0.09
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39280745 original size:40 final size:40
Alignment explanation
Indices: 39280660--39280839 Score: 199
Period size: 39 Copynumber: 4.5 Consensus size: 40
39280650 GCTACTCGTT
*
39280660 CAAATGCCTTCGGGACATAGCCC-G-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
39280699 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
39280739 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
39280778 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
39280819 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
39280840 TGGACATCAT
Statistics
Matches: 118, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
38 2 0.02
39 52 0.44
40 52 0.44
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:39280803 original size:79 final size:79
Alignment explanation
Indices: 39280662--39280839 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 79
39280652 TACTCGTTCA
* ** * *
39280662 AATGCCTTCGGGACATAGCCCGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGAATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGATA
*
39280727 TAGTAAC-TCGCACC
66 TAGTAACTTAGCA-C
* **
39280741 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACACAAATGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAA-TAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGGA
* *
39280804 TATGGTCACTTAGCAC
64 TATAGTAACTTAGCAC
*
39280820 AAAGCCTTCGGGACTTAGCC
1 AATGCCTTCGGGACTTAGCC
39280840 TGGACATCAT
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
78 12 0.14
79 60 0.72
80 11 0.13
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAGCCCGGAATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGATA
TAGTAACTTAGCAC
Found at i:39286048 original size:5 final size:5
Alignment explanation
Indices: 39286038--39286065 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
39286028 GACTACCCAA
39286038 AAACC AAACC AAACC AAACC AAACC AAA
1 AAACC AAACC AAACC AAACC AAACC AAA
39286066 TATGCCTAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACC
Found at i:39292939 original size:5 final size:5
Alignment explanation
Indices: 39292929--39292956 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
39292919 GACTACCCAA
39292929 AAACC AAACC AAACC AAACC AAACC AAA
1 AAACC AAACC AAACC AAACC AAACC AAA
39292957 TATGCCTAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACC
Found at i:39295959 original size:15 final size:15
Alignment explanation
Indices: 39295928--39295975 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
39295918 TCAAACAGTA
* *
39295928 AAATTAAAACATGAT
1 AAATTAACACATAAT
39295943 AAATTTAACACAT-AT
1 AAA-TTAACACATAAT
*
39295958 AAATTCACACATAAT
1 AAATTAACACATAAT
39295973 AAA
1 AAA
39295976 CACAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 8 0.28
15 13 0.45
16 8 0.28
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.27
Consensus pattern (15 bp):
AAATTAACACATAAT
Found at i:39295967 original size:14 final size:16
Alignment explanation
Indices: 39295926--39295975 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
39295916 AGTCAAACAG
* * *
39295926 TAAAATTAAAACATGA
1 TAAATTTAACACATAA
39295942 TAAATTTAACACAT-A
1 TAAATTTAACACATAA
*
39295957 TAAA-TTCACACATAA
1 TAAATTTAACACATAA
39295972 TAAA
1 TAAA
39295976 CACAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 8 0.27
15 10 0.33
16 12 0.40
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (16 bp):
TAAATTTAACACATAA
Found at i:39309628 original size:27 final size:27
Alignment explanation
Indices: 39309590--39309929 Score: 338
Period size: 27 Copynumber: 12.7 Consensus size: 27
39309580 TAATAAAGAG
* * *
39309590 AAATTACTGAAATACCTTTGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
*
39309617 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
39309644 AAATTACTAAAATACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
39309670 AAATTACTGAAATA-CCTCCGATTTGTA
1 AAATTACTGAAATACCCT-CGATTTGTA
* *
39309697 AAATTACCGAAATACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
39309723 AAATTACTAAAATACCCTTGTTTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
39309750 AAATTA-TCGAAATACCCTTGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
39309777 AAATTACTGAAATACCCCCAATTTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
39309804 AAATTA-TCGAAACACCCTCAATTTTGTA
1 AAATTACT-GAAATACCCTCGA-TTTGTA
*
39309832 AAATTACTGAAATACCC-CTATTTTGTA
1 AAATTACTGAAATACCCTCGA-TTTGTA
** * *
39309859 AAATTACCAAAATACCCTC-AATTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
39309885 AAATTA-TCGAAACACCCCCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
39309912 AAATTA-TCGAAATACCCT
1 AAATTACT-GAAATACCCT
39309930 TGTAGTGTAA
Statistics
Matches: 262, Mismatches: 39, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.01
26 61 0.23
27 173 0.66
28 24 0.09
29 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:39309685 original size:53 final size:54
Alignment explanation
Indices: 39309590--39309929 Score: 338
Period size: 53 Copynumber: 6.3 Consensus size: 54
39309580 TAATAAAGAG
* * * *
39309590 AAATTACTGAAATACCTTTGATTTATAAAATTACCGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* *
39309644 AAATTACTAAAATACCCTCGA-TTGTGAAATTACTGAAATA-CCTCCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCT-CGATTTGTA
* * * * *
39309697 AAATTACCGAAATACCCTCGA-TTGTGAAATTACTAAAATACCCTTGTTTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * * *
39309750 AAATTA-TCGAAATACCCTTGATTTGTAAAATTACTGAAATACCCCCAATTTGTG
1 AAATTACT-GAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * *
39309804 AAATTA-TCGAAACACCCTCAATTTTGTAAAATTACTGAAATACCC-CTATTTTGTA
1 AAATTACT-GAAATACCCTCGA-TTTGTAAAATTACTGAAATACCCTCGA-TTTGTA
** * * * *
39309859 AAATTACCAAAATACCCTC-AATTGTGAAATTA-TCGAAACACCCCCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACT-GAAATACCCTCGATTTGTA
39309912 AAATTA-TCGAAATACCCT
1 AAATTACT-GAAATACCCT
39309930 TGTAGTGTAA
Statistics
Matches: 242, Mismatches: 34, Indels: 21
0.81 0.11 0.07
Matches are distributed among these distances:
52 4 0.02
53 126 0.52
54 69 0.29
55 43 0.18
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (54 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
Found at i:39309754 original size:80 final size:80
Alignment explanation
Indices: 39309590--39309890 Score: 342
Period size: 80 Copynumber: 3.7 Consensus size: 80
39309580 TAATAAAGAG
** * * *
39309590 AAATTACTGAAATACCTTTGATTTATAAAATTACCGAAATACCCTCGATTTGTAAAATTACTAAA
1 AAATTACTGAAATACC-CCGATTTGTAAAATTACCGAAATACCCTCAATTTGTGAAATTACTAAA
* * *
39309655 ATACCCTCG-ATTGTG
65 ATACCCTAGTTTTGTA
*
39309670 AAATTACTGAAATACCTCCGATTTGTAAAATTACCGAAATACCCTCGA-TTGTGAAATTACTAAA
1 AAATTACTGAAATACC-CCGATTTGTAAAATTACCGAAATACCCTCAATTTGTGAAATTACTAAA
*
39309734 ATACCCTTGTTTTGTA
65 ATACCCTAGTTTTGTA
* * * *
39309750 AAATTA-TCGAAATACCCTTGATTTGTAAAATTACTGAAATACCCCCAATTTGTGAAATTA-TCG
1 AAATTACT-GAAATACCC-CGATTTGTAAAATTACCGAAATACCCTCAATTTGTGAAATTACT-A
* *
39309813 AAACACCCTCAATTTTGTA
63 AAATACCCT-AGTTTTGTA
* *
39309832 AAATTACTGAAATACCCCTATTTTGTAAAATTACCAAAATACCCTCAA-TTGTGAAATTA
1 AAATTACTGAAATACCCCGA-TTTGTAAAATTACCGAAATACCCTCAATTTGTGAAATTA
39309891 TCGAAACACC
Statistics
Matches: 193, Mismatches: 20, Indels: 15
0.85 0.09 0.07
Matches are distributed among these distances:
79 25 0.13
80 90 0.47
81 31 0.16
82 46 0.24
83 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.33
Consensus pattern (80 bp):
AAATTACTGAAATACCCCGATTTGTAAAATTACCGAAATACCCTCAATTTGTGAAATTACTAAAA
TACCCTAGTTTTGTA
Found at i:39309938 original size:27 final size:27
Alignment explanation
Indices: 39309590--39309969 Score: 171
Period size: 27 Copynumber: 14.1 Consensus size: 27
39309580 TAATAAAGAG
* *
39309590 AAATTA-CTGAAATACCTTTG-ATTTATA
1 AAATTATC-GAAATACCCTTGTA-TTGTA
* *
39309617 AAATTACCGAAATACCCTCG-ATTTGTA
1 AAATTATCGAAATACCCTTGTA-TTGTA
* * *
39309644 AAATTA-CTAAAATACCCTCG-ATTGTG
1 AAATTATC-GAAATACCCTTGTATTGTA
*
39309670 AAATTA-CTGAAATA-CCTCCG-ATTTGTA
1 AAATTATC-GAAATACCCT-TGTA-TTGTA
* * *
39309697 AAATTACCGAAATACCCTCG-ATTGTG
1 AAATTATCGAAATACCCTTGTATTGTA
* *
39309723 AAATTA-CTAAAATACCCTTGTTTTGTA
1 AAATTATC-GAAATACCCTTGTATTGTA
39309750 AAATTATCGAAATACCCTTG-ATTTGTA
1 AAATTATCGAAATACCCTTGTA-TTGTA
*** *
39309777 AAATTA-CTGAAATACCC-CCAATTTGTG
1 AAATTATC-GAAATACCCTTGTA-TTGTA
* ** *
39309804 AAATTATCGAAACACCCTCAATTTTGTA
1 AAATTATCGAAATACCCT-TGTATTGTA
* * *
39309832 AAATTA-CTGAAATACCCCTATTTTGTA
1 AAATTATC-GAAATACCCTTGTATTGTA
* * ** *
39309859 AAATTACCAAAATACCC-TCAATTGTG
1 AAATTATCGAAATACCCTTGTATTGTA
* **
39309885 AAATTATCGAAACACCCCCG-ATTTGTA
1 AAATTATCGAAATACCCTTGTA-TTGTA
*
39309912 AAATTATCGAAATACCCTTGTAGTGTA
1 AAATTATCGAAATACCCTTGTATTGTA
* * * * **
39309939 AAATGACCGACATACCCCTGTAGGGTA
1 AAATTATCGAAATACCCTTGTATTGTA
39309966 AAAT
1 AAAT
39309970 GATTGTTTTG
Statistics
Matches: 287, Mismatches: 46, Indels: 40
0.77 0.12 0.11
Matches are distributed among these distances:
25 4 0.01
26 62 0.22
27 194 0.68
28 27 0.09
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (27 bp):
AAATTATCGAAATACCCTTGTATTGTA
Found at i:39314805 original size:21 final size:18
Alignment explanation
Indices: 39314786--39314821 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
39314776 GGTTAAATTC
*
39314786 TTTTCAAAAAATAATTAA
1 TTTTTAAAAAATAATTAA
*
39314804 TTTTTATAAAATAATTAA
1 TTTTTAAAAAATAATTAA
39314822 AGTGCACTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTTTAAAAAATAATTAA
Found at i:39317163 original size:41 final size:41
Alignment explanation
Indices: 39317106--39317255 Score: 203
Period size: 41 Copynumber: 3.7 Consensus size: 41
39317096 TCGGGGTTTA
39317106 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
39317147 AATCCGAGCTTGGTCTCAAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * * *
39317188 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCAAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
39317228 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
39317256 TTAGTCACCG
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 30 0.33
41 61 0.67
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:39325397 original size:41 final size:41
Alignment explanation
Indices: 39325336--39325485 Score: 169
Period size: 41 Copynumber: 3.7 Consensus size: 41
39325326 TCGGGGTTTA
** *
39325336 AATCCGAGCTTGGTCGCGAAGGGGTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTTTCGAAGGGCTTTTGAGCCAGTGTCAT
39325377 AATCCGAGCTTGGTTTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTTTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * ** * * *
39325418 AA-CCAAACCTAGTTTCGAAGGGCCGTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTTTCGAAGGGCTTTTGAGCCAGTGTCAT
39325458 AATCCGAGCTTGGTCTT-GAAGGGCTTTT
1 AATCCGAGCTTGGT-TTCGAAGGGCTTTT
39325486 TCAGTCACCG
Statistics
Matches: 88, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
40 31 0.35
41 55 0.62
42 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTTTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:39329945 original size:43 final size:42
Alignment explanation
Indices: 39329778--39329945 Score: 135
Period size: 43 Copynumber: 4.0 Consensus size: 42
39329768 ACATAAGCTC
* * * *
39329778 ATACAATGCC-ATATCCCAGATATGTTCTTACATGTTAA--CA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACG-TAATCCA
* * * * *
39329818 CATATCGATGCCACTGTCCCAGACAGGGTCTTACACGGAATCGA
1 -ATA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCCA
* * * *
39329862 TTAACGATGCCAATGTCCCAAACATGGTCTTACACATAATCTCA
1 AT-ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATC-CA
* *
39329906 ATACAATGCCAATGTCCCAGACATTGTCTTACATGTAATC
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATC
39329946 ACATCTCGAT
Statistics
Matches: 99, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
41 3 0.03
42 8 0.08
43 84 0.85
44 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.27
Consensus pattern (42 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCCA
Found at i:39339027 original size:31 final size:31
Alignment explanation
Indices: 39338992--39339050 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
39338982 CATCTAATCG
39338992 TGGTAGGTGATGACTGTTAGATTGTGGTCTT
1 TGGTAGGTGATGACTGTTAGATTGTGGTCTT
39339023 TGGTAGGTGATGACTGTTAGATTGTGGT
1 TGGTAGGTGATGACTGTTAGATTGTGGT
39339051 TTTACTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.17, C:0.05, G:0.37, T:0.41
Consensus pattern (31 bp):
TGGTAGGTGATGACTGTTAGATTGTGGTCTT
Found at i:39360100 original size:43 final size:43
Alignment explanation
Indices: 39360016--39360101 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
39360006 GTCACAGGCA
* *
39360016 TCGCATCCACAATGAACTTAGACCACTCAATGACCTTGGATGC
1 TCGCATCCACAATGAACTTAGACCACTCAACGACCTCGGATGC
* * *
39360059 TCGCATCCATAATGAA-TTCGAACCACTCAACGAGCTCGGATGC
1 TCGCATCCACAATGAACTTAG-ACCACTCAACGACCTCGGATGC
39360102 CACATATGTC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 3 0.08
43 34 0.92
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (43 bp):
TCGCATCCACAATGAACTTAGACCACTCAACGACCTCGGATGC
Found at i:39361003 original size:18 final size:18
Alignment explanation
Indices: 39360980--39361018 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
39360970 TTTCATATTC
39360980 TACCATTAATCATCCAAA
1 TACCATTAATCATCCAAA
39360998 TACCATTAATCATCCAAA
1 TACCATTAATCATCCAAA
39361016 TAC
1 TAC
39361019 TAACATGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (18 bp):
TACCATTAATCATCCAAA
Found at i:39371377 original size:42 final size:42
Alignment explanation
Indices: 39371266--39371387 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 42
39371256 TACCATACCA
* ** *
39371266 ATGCTATATCCCAGATATGGTCTTACTTGTAATCTCGTATCG
1 ATGCAATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* *
39371308 ATGGCAATAGCCCAGCTATGGTCTTACACG-AAGTCTCATATCG
1 AT-GCAATATCCCAGATATGGTCTTACACGTAA-TCTCATATCG
* * * *
39371351 ATGCCATATCCCAAATATGGTTTTACACATAATCTCA
1 ATGCAATATCCCAGATATGGTCTTACACGTAATCTCA
39371388 GTAACCCTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
42 30 0.46
43 35 0.54
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCAATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:39376589 original size:42 final size:42
Alignment explanation
Indices: 39376478--39376599 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
39376468 TACCGTACCA
* *
39376478 ATGCCATATCCCAGATATGGTCTTGCATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
* * * *
39376520 ATGGCAATAGCCCAGCTATGGTCTTACATG-AAGTCTTATATCG
1 AT-GCCATATCCCAGATATGGTCTTACATGTAA-TCTCATATCG
* *
39376563 ATGCCATATCCCCGATATAGTCTTACATGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
39376600 GTAACCCTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
42 30 0.46
43 35 0.54
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
Found at i:39385122 original size:22 final size:22
Alignment explanation
Indices: 39385095--39385162 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 22
39385085 TTGCTGCAGA
39385095 GTCTACGGCGTTGAGCCGTCCT
1 GTCTACGGCGTTGAGCCGTCCT
* * *
39385117 GTCTACGGCATTGAGCTGTCTT
1 GTCTACGGCGTTGAGCCGTCCT
* *
39385139 GTCTACGACGTTGAGTCGTCCT
1 GTCTACGGCGTTGAGCCGTCCT
39385161 GT
1 GT
39385163 TGACTCAGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.12, C:0.26, G:0.29, T:0.32
Consensus pattern (22 bp):
GTCTACGGCGTTGAGCCGTCCT
Found at i:39385324 original size:27 final size:27
Alignment explanation
Indices: 39385276--39385328 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
39385266 ATATTTGATA
*
39385276 CTGATTCTGTACTGAGCTTAGGCCCAC
1 CTGATTCTGTAATGAGCTTAGGCCCAC
*
39385303 CTGATTCTGTTAATGGGC-TAGGCCCA
1 CTGATTCTG-TAATGAGCTTAGGCCCA
39385329 ACTATTACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.19, C:0.26, G:0.25, T:0.30
Consensus pattern (27 bp):
CTGATTCTGTAATGAGCTTAGGCCCAC
Found at i:39390590 original size:19 final size:19
Alignment explanation
Indices: 39390553--39390591 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
39390543 ATTCAAAAAT
* * *
39390553 TTTTAAGTTTTTGTTTAAA
1 TTTTAAATTTTTATGTAAA
39390572 TTTTAAATTTTTATGTAAA
1 TTTTAAATTTTTATGTAAA
39390591 T
1 T
39390592 AAAAGAGGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (19 bp):
TTTTAAATTTTTATGTAAA
Found at i:39390713 original size:11 final size:11
Alignment explanation
Indices: 39390697--39390721 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
39390687 TGCCGCCCAA
39390697 GTAACCTTAAT
1 GTAACCTTAAT
39390708 GTAACCTTAAT
1 GTAACCTTAAT
39390719 GTA
1 GTA
39390722 GCTAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (11 bp):
GTAACCTTAAT
Found at i:39395671 original size:27 final size:27
Alignment explanation
Indices: 39395590--39395673 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
39395580 CCTTAGGGGC
*
39395590 ATTTTGGTAATTTTACAAGTCGAAGGT
1 ATTTTGGTAATTTTACAAGTCAAAGGT
* * * * * * **
39395617 AATCTGATAATTTCACAAATTAGGGGT
1 ATTTTGGTAATTTTACAAGTCAAAGGT
39395644 ATTTTGGTAATTTTACAAGTCAAAGGT
1 ATTTTGGTAATTTTACAAGTCAAAGGT
39395671 ATT
1 ATT
39395674 CAGTAATTTT
Statistics
Matches: 40, Mismatches: 17, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.39
Consensus pattern (27 bp):
ATTTTGGTAATTTTACAAGTCAAAGGT
Found at i:39395707 original size:53 final size:54
Alignment explanation
Indices: 39395590--39395710 Score: 154
Period size: 54 Copynumber: 2.3 Consensus size: 54
39395580 CCTTAGGGGC
* * * *
39395590 ATTTTGGTAATTTTACAAGTCGAAGGTAATCTGATAATTTCACAAATTAGGGGT
1 ATTTTGGTAATTTTACAAGTCAAAGGTAATCAGATAATTTCACAAACTAAGGGT
* ***
39395644 ATTTTGGTAATTTTACAAGTCAAAGGTATTCAG-TAATTTTGTAAACTAAGGGT
1 ATTTTGGTAATTTTACAAGTCAAAGGTAATCAGATAATTTCACAAACTAAGGGT
*
39395697 ATTTTAGTAATTTT
1 ATTTTGGTAATTTT
39395711 GTAAATCAAG
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
53 28 0.48
54 30 0.52
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.41
Consensus pattern (54 bp):
ATTTTGGTAATTTTACAAGTCAAAGGTAATCAGATAATTTCACAAACTAAGGGT
Found at i:39395734 original size:27 final size:27
Alignment explanation
Indices: 39395668--39395737 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 27
39395658 ACAAGTCAAA
39395668 GGTATTC-AGTAATTTTGTAAACTAAG
1 GGTATTCTAGTAATTTTGTAAACTAAG
*
39395694 GGTATTTTAGTAATTTTGTAAA-TCAAG
1 GGTATTCTAGTAATTTTGTAAACT-AAG
39395721 GGTATATCTA-TAATTTT
1 GGTAT-TCTAGTAATTTT
39395738 CCTTTATTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.18
27 29 0.74
28 3 0.08
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (27 bp):
GGTATTCTAGTAATTTTGTAAACTAAG
Found at i:39396116 original size:29 final size:29
Alignment explanation
Indices: 39396031--39396121 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 29
39396021 AAGTCTACAT
*
39396031 ACATGCATATGGCCCA-CTAGGCCGAATC
1 ACATTCATATGGCCCATCTAGGCCGAATC
** *
39396059 TTATTCATATGGCCCAT-TAGGTCCAAATC
1 ACATTCATATGGCCCATCTAGG-CCGAATC
39396088 ACATTCATATGGCCCATCT-GGCCTGAATC
1 ACATTCATATGGCCCATCTAGGCC-GAATC
39396117 A-ATTC
1 ACATTC
39396122 CAAGCCATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
28 23 0.44
29 28 0.54
30 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATCTAGGCCGAATC
Found at i:39400714 original size:30 final size:30
Alignment explanation
Indices: 39400680--39400741 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
39400670 TATCGAGATG
39400680 TGATTACATGGAAGACCATGTATGGGACAT
1 TGATTACATGGAAGACCATGTATGGGACAT
* *
39400710 TGATTACATGTAAGACCATGTCTGGGACAT
1 TGATTACATGGAAGACCATGTATGGGACAT
39400740 TG
1 TG
39400742 GAATTGTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (30 bp):
TGATTACATGGAAGACCATGTATGGGACAT
Found at i:39400779 original size:43 final size:43
Alignment explanation
Indices: 39400718--39400857 Score: 149
Period size: 43 Copynumber: 3.3 Consensus size: 43
39400708 ATTGATTACA
39400718 TGTAAGACCATGTCTGGGACATTGGAATTG-TATTATGAATACG
1 TGTAAGACCATGTCTGGGACATTGGAATTGTTA-TATGAATACG
* * * **
39400761 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGAATTGTTATATGAATACG
* * * * * *
39400804 TGTAAGACCCTGTCTGGGACAGTGGTATTGATATGTG-ATAACA
1 TGTAAGACCATGTCTGGGACATTGGAATTGTTATATGAAT-ACG
39400847 TGTAAGACCAT
1 TGTAAGACCAT
39400858 ATATGGGATA
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
42 1 0.01
43 76 0.96
44 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGAATTGTTATATGAATACG
Found at i:39404539 original size:25 final size:25
Alignment explanation
Indices: 39404511--39404559 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
39404501 TTAAAATATA
* * *
39404511 AAAAATAACTATTTTGCCCCTAGGT
1 AAAAATAACCATTATACCCCTAGGT
*
39404536 AAAAATGACCATTATACCCCTAGG
1 AAAAATAACCATTATACCCCTAGG
39404560 GTTTAATTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (25 bp):
AAAAATAACCATTATACCCCTAGGT
Found at i:39404754 original size:25 final size:25
Alignment explanation
Indices: 39404682--39404754 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
39404672 GGAGGAAGTG
* * *
39404682 CAAAAAAGGCTTTGCCCGAGTTCAC
1 CAAAAAGGGCTTTGCCCCAGTTTAC
* *
39404707 CGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAAGGGCTTTGCCCCAGTTTAC
* *
39404732 CAAAAAGGGCTTTACCCTAGTTT
1 CAAAAAGGGCTTTGCCCCAGTTT
39404755 TTAAAAGAGG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.26
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTTAC
Found at i:39405039 original size:30 final size:31
Alignment explanation
Indices: 39404972--39405054 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
39404962 CGCTTACAGT
* * *
39404972 AAAGGCTTCCGCCTAGTGATATGAATTCTGA
1 AAAGGCTTCAGCCCAGTGATATGAATTATGA
*
39405003 AAAGGCTTCAGCCCAGTGTTATGAATTATG-
1 AAAGGCTTCAGCCCAGTGATATGAATTATGA
39405033 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCAGCCCAGTGATATG
39405055 TTGAGACTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 4 0.09
30 17 0.36
31 26 0.55
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGAATTATGA
Found at i:39411413 original size:22 final size:22
Alignment explanation
Indices: 39411382--39411438 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
39411372 CATCCAGTTT
*
39411382 CTTTCTTTTCATCTACTACTTC
1 CTTTCCTTTCATCTACTACTTC
39411404 CTTTCCTTTCATCTACTACTTC
1 CTTTCCTTTCATCTACTACTTC
39411426 CTTTCCTTTCATC
1 CTTTCCTTTCATC
39411439 CCCCTTGCCG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.12, C:0.35, G:0.00, T:0.53
Consensus pattern (22 bp):
CTTTCCTTTCATCTACTACTTC
Found at i:39412509 original size:11 final size:10
Alignment explanation
Indices: 39412477--39412513 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
39412467 CATGAGATTT
39412477 TGATAT-ACA
1 TGATATGACA
39412486 TGATATGACA
1 TGATATGACA
39412496 TGATATGCACA
1 TGATATG-ACA
39412507 TGATATG
1 TGATATG
39412514 TTATGAGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 6 0.23
10 10 0.38
11 10 0.38
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (10 bp):
TGATATGACA
Found at i:39412509 original size:21 final size:21
Alignment explanation
Indices: 39412483--39412533 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
39412473 ATTTTGATAT
*
39412483 ACATGATATGACATGATATGC
1 ACATGATATGACATGAGATGC
** *
39412504 ACATGATATGTTATGAGGTGC
1 ACATGATATGACATGAGATGC
39412525 ACATGATAT
1 ACATGATAT
39412534 ACTCATTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (21 bp):
ACATGATATGACATGAGATGC
Found at i:39412615 original size:25 final size:25
Alignment explanation
Indices: 39412579--39412650 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
39412569 GGAGGAAGTG
39412579 CAAAAAGGGCTTTGCCCCAGTTCAC
1 CAAAAAGGGCTTTGCCCCAGTTCAC
* * *
39412604 CGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAAGGGCTTTGCCCCAGTTCAC
39412629 CAAAAAGGGCTTTGCCCCAGTT
1 CAAAAAGGGCTTTGCCCCAGTT
39412651 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTCAC
Found at i:39412663 original size:24 final size:23
Alignment explanation
Indices: 39412581--39412677 Score: 104
Period size: 25 Copynumber: 4.0 Consensus size: 23
39412571 AGGAAGTGCA
*
39412581 AAAAGGGCTTTGCCCCAGTTCACC
1 AAAAGGGCTTTGCCCCAGTT-ATC
39412605 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAG-TTATC
*
39412630 AAAAAGGGCTTTGCCCCAGTTATT
1 -AAAAGGGCTTTGCCCCAGTTATC
**
39412654 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
39412678 GATAAAGCAG
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
23 5 0.08
24 11 0.17
25 46 0.72
26 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:39412674 original size:50 final size:50
Alignment explanation
Indices: 39412579--39412675 Score: 126
Period size: 50 Copynumber: 1.9 Consensus size: 50
39412569 GGAGGAAGTG
**
39412579 CAAAAAGGGCTTTGCCCCAGTTCACCGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAAGGGCTTTGCCCCAGTTCACCGAAAAGGGCTAGGCCCCAGTTTAT
**
39412629 CAAAAAGGGCTTTGCCCCAGTT-A-TTAAAAGAGGCTAGGCCTCCAGTT
1 CAAAAAGGGCTTTGCCCCAGTTCACCGAAAAG-GGCTAGGCC-CCAGTT
39412676 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
48 5 0.12
49 8 0.20
50 28 0.68
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.24
Consensus pattern (50 bp):
CAAAAAGGGCTTTGCCCCAGTTCACCGAAAAGGGCTAGGCCCCAGTTTAT
Found at i:39412936 original size:30 final size:31
Alignment explanation
Indices: 39412869--39412951 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 31
39412859 GGCTTACAGT
* * *
39412869 AAAGGCTTTGGCCCAGTGATATTAATTTTGA
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
*
39412900 AAAGGCTTCGGCCCAGTGTTATGAATTATG-
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
* *
39412930 AAAGGCTTCAGCCTAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
39412952 TTGAGACTGA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 4 0.09
30 15 0.33
31 26 0.58
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATTATGA
Found at i:39417205 original size:45 final size:45
Alignment explanation
Indices: 39417108--39417314 Score: 285
Period size: 45 Copynumber: 4.6 Consensus size: 45
39417098 CCGGTATTTC
* * * * *
39417108 GCCTGCTAGGCTCGAA-GCCCG-ATA-TCATTTCATCAGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACCGGCATCATA
* * *
39417151 GCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACTGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATCATA
*
39417196 GACTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATCATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATCATA
39417241 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATCATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATCATA
* *
39417286 GCCTACTAGGCTCAAAGTCCCGAATAGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
39417315 CCGTACAATA
Statistics
Matches: 150, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
43 16 0.11
44 5 0.03
45 128 0.85
46 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATCATA
Found at i:39424146 original size:6 final size:6
Alignment explanation
Indices: 39424135--39424162 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
39424125 TTTAAACTCA
39424135 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
39424163 TTACTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:39424165 original size:20 final size:20
Alignment explanation
Indices: 39424140--39424185 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
39424130 ACTCATTTTA
* *
39424140 TTTTTATTTTTATTTTTATT
1 TTTTTACTTTTATTTCTATT
39424160 TTTTTACTTTTATTTCTATT
1 TTTTTACTTTTATTTCTATT
39424180 TATTTT
1 T-TTTT
39424186 TGAAGACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTACTTTTATTTCTATT
Found at i:39428066 original size:31 final size:32
Alignment explanation
Indices: 39428020--39428101 Score: 112
Period size: 31 Copynumber: 2.6 Consensus size: 32
39428010 GGTTTGATAT
* * *
39428020 TGAAATGTGCTAGGCCCAACTAATA-TGGTTC
1 TGAAATGAGCTAGGCCCAACCAATAGTGATTC
* *
39428051 TGATATGGGCTAGGCCCAACCAATAGTGATTC
1 TGAAATGAGCTAGGCCCAACCAATAGTGATTC
39428083 TGAAATGAGCTAGGCCCAA
1 TGAAATGAGCTAGGCCCAA
39428102 TTAAGACTCT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 22 0.50
32 22 0.50
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (32 bp):
TGAAATGAGCTAGGCCCAACCAATAGTGATTC
Found at i:39432892 original size:32 final size:32
Alignment explanation
Indices: 39432841--39432929 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 32
39432831 CATATGGGTT
*
39432841 TGATATTGAAATGGGCTAGGCCCAACTGATAC
1 TGATTTTGAAATGGGCTAGGCCCAACTGATAC
* * * *
39432873 TGGTTTTGATATGGGCTAGGCCCAATTGATAT
1 TGATTTTGAAATGGGCTAGGCCCAACTGATAC
** *
39432905 TGATTCAGAGATGGGCTAGGCCCAA
1 TGATTTTGAAATGGGCTAGGCCCAA
39432930 TTAAGACTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (32 bp):
TGATTTTGAAATGGGCTAGGCCCAACTGATAC
Found at i:39432930 original size:32 final size:32
Alignment explanation
Indices: 39432851--39432931 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 32
39432841 TGATATTGAA
* * ** *
39432851 ATGGGCTAGGCCCAACTGATACTGGTTTTGAT
1 ATGGGCTAGGCCCAATTGATACTGATTCAGAG
*
39432883 ATGGGCTAGGCCCAATTGATATTGATTCAGAG
1 ATGGGCTAGGCCCAATTGATACTGATTCAGAG
39432915 ATGGGCTAGGCCCAATT
1 ATGGGCTAGGCCCAATT
39432932 AAGACTATGA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (32 bp):
ATGGGCTAGGCCCAATTGATACTGATTCAGAG
Found at i:39438999 original size:43 final size:42
Alignment explanation
Indices: 39438937--39439091 Score: 188
Period size: 42 Copynumber: 3.7 Consensus size: 42
39438927 TACAGTTCCA
* ** *
39438937 ATGCCATATCCCAGATATGGTCTTACATTTAA-TCTCGTATCG
1 ATGCCATAGCCCAGATATGGTCTTACA-CAAAGTCTCATATCG
* *
39438979 ATGCCAATAGCCCAGCTATGGTCTTACACAAAGTCTCATATCA
1 ATGCC-ATAGCCCAGATATGGTCTTACACAAAGTCTCATATCG
* * *
39439022 ATGCCATATCCCAGATATGGTCTTATACGAAGTCTCATA-CTG
1 ATGCCATAGCCCAGATATGGTCTTACACAAAGTCTCATATC-G
39439064 ATGCCATAGCCCAGATATGGTCTTACAC
1 ATGCCATAGCCCAGATATGGTCTTACAC
39439092 GTAGTTTTAG
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.01
42 63 0.65
43 33 0.34
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAGATATGGTCTTACACAAAGTCTCATATCG
Found at i:39443000 original size:6 final size:6
Alignment explanation
Indices: 39442989--39443199 Score: 136
Period size: 6 Copynumber: 34.8 Consensus size: 6
39442979 AACCAAAATG
* *
39442989 AGAATC AGAATC AGAATC AGTAAT- AGTATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
39443037 AGTAA-C AGAATC AGAATC AGAATC AGAATT A-AGTGAC AGAGA-C AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGA-ATC AGAATC
* * *
39443086 AGAATC AGTAA-C AGAATC AGAATC AGTATT AGTAA-C AGAATC TGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* * * * *
39443134 TGAATC TGAATT ACGTGA-C AGAATC AGAATC AGAATC AGTA-C TAGTAA-C
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC -AG-AATC
39443183 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
39443200 GTGAATGCAA
Statistics
Matches: 164, Mismatches: 20, Indels: 42
0.73 0.09 0.19
Matches are distributed among these distances:
5 16 0.10
6 133 0.81
7 12 0.07
8 3 0.02
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (6 bp):
AGAATC
Found at i:39443086 original size:79 final size:82
Alignment explanation
Indices: 39442995--39443195 Score: 275
Period size: 79 Copynumber: 2.5 Consensus size: 82
39442985 AATGAGAATC
*
39442995 AGAATCAGAATCAGTAATAGTATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTAATAGTAACAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAAT
39443060 CAGAATTAAGTGACAG-
66 CAGAATTAAGTGACAGA
* * *
39443076 AG-A-CAGAATCAG-AATCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCTGAATCTGAA
1 AGAATCAGAATCAGTAAT-AGTAACAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAA
* *
39443138 TCTGAATTACGTGACAGAA
65 TCAGAATTAAGTGACAG-A
*
39443157 TCAGAATCAGAATCAGTACTAGTAACAGAATCAGAATCA
1 --AGAATCAGAATCAGTAATAGTAACAGAATCAGAATCA
39443196 GAATGTGAAT
Statistics
Matches: 105, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
78 3 0.03
79 66 0.63
80 1 0.01
81 2 0.02
83 2 0.02
84 1 0.01
85 28 0.27
86 2 0.02
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.22
Consensus pattern (82 bp):
AGAATCAGAATCAGTAATAGTAACAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAAT
CAGAATTAAGTGACAGA
Found at i:39443354 original size:27 final size:26
Alignment explanation
Indices: 39443317--39443382 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
39443307 AGCATGGCTG
*
39443317 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
39443343 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
39443370 CCAGAATCAGATA
1 CCAGAA-CAGATA
39443383 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:39443387 original size:27 final size:27
Alignment explanation
Indices: 39443317--39443390 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
39443307 AGCATGGCTG
* *
39443317 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
39443343 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
39443370 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
39443391 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:39443397 original size:27 final size:27
Alignment explanation
Indices: 39443341--39443398 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
39443331 GTGACAGAGT
* * *
39443341 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
39443368 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
39443395 CACC
1 CACC
39443399 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:39443588 original size:22 final size:22
Alignment explanation
Indices: 39443556--39443613 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
39443546 TAAATACATT
*
39443556 TGGCACGAAGCCATAGTCAAGA
1 TGGCACAAAGCCATAGTCAAGA
* * * *
39443578 TGGCACAAAGCCATATTTAGGT
1 TGGCACAAAGCCATAGTCAAGA
39443600 TGGCACAAAGCCAT
1 TGGCACAAAGCCAT
39443614 TAATAACGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (22 bp):
TGGCACAAAGCCATAGTCAAGA
Found at i:39443766 original size:27 final size:26
Alignment explanation
Indices: 39443701--39443783 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
39443691 TCGATCGGTC
* * * *
39443701 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAAAGCCACCAG
39443727 ATACAGATATTGTGGCAAAGCCACCAG
1 A-ACAGATATTGTGGCAAAGCCACCAG
* *
39443754 AACAGATATTTGTGGCATAGCCATCAG
1 AACAGATA-TTGTGGCAAAGCCACCAG
39443781 AAC
1 AAC
39443784 GCTTCCTCCG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.16
27 41 0.84
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAAAGCCACCAG
Found at i:39444012 original size:27 final size:27
Alignment explanation
Indices: 39443982--39444177 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
39443972 GGGACAGAAT
* * *
39443982 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
39444009 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
39444036 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
39444063 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
39444090 GGTAATTCTATCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
39444117 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
39444144 AGAAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
39444171 AGTAATT
1 GGTAATT
39444178 TCACAATCAA
Statistics
Matches: 147, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 147 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:39444048 original size:54 final size:54
Alignment explanation
Indices: 39443982--39444177 Score: 268
Period size: 54 Copynumber: 3.6 Consensus size: 54
39443972 GGGACAGAAT
* * * *
39443982 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
39444036 GGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTC
* * * *
39444090 GGTAATTCTATCCTATAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
39444144 AGAAATTCTACCCTACAAGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
39444178 TCACAATCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 122 0.98
55 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Done.