Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 148 of 290
Found at i:50318242 original size:16 final size:16
Alignment explanation
Indices: 50318221--50318257 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
50318211 TGAGAAGTTG
50318221 AACATGGGTTTCCTAA
1 AACATGGGTTTCCTAA
50318237 AACATGGGTTTCCTAA
1 AACATGGGTTTCCTAA
50318253 AACAT
1 AACAT
50318258 AGTTTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (16 bp):
AACATGGGTTTCCTAA
Found at i:50329015 original size:21 final size:20
Alignment explanation
Indices: 50328987--50329031 Score: 81
Period size: 21 Copynumber: 2.2 Consensus size: 20
50328977 TTTAGTGATG
50328987 TGAATTGGCTAATTTGTGTT
1 TGAATTGGCTAATTTGTGTT
50329007 TGAAGTTGGCTAATTTGTGTT
1 TGAA-TTGGCTAATTTGTGTT
50329028 TGAA
1 TGAA
50329032 CTCATAGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.22, C:0.04, G:0.27, T:0.47
Consensus pattern (20 bp):
TGAATTGGCTAATTTGTGTT
Found at i:50332358 original size:41 final size:44
Alignment explanation
Indices: 50332295--50332427 Score: 155
Period size: 45 Copynumber: 3.0 Consensus size: 44
50332285 ATGTTATCTC
* * * *
50332295 ATATCAATGCCACTGTCCCAGACAGGGTCTTACACGAATCA-A-
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAACCACAT
*
50332337 ATAT-GATGCCGATGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACG-AACCACAT
** *
50332381 ATATCGATGCCAACATCCCAGACATGGTCTTACACGAGAACACAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGA-ACCACAT
50332426 AT
1 AT
50332428 CAGAAATCCT
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
41 27 0.35
42 8 0.10
43 1 0.01
44 5 0.06
45 36 0.47
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (44 bp):
ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAACCACAT
Found at i:50334970 original size:39 final size:39
Alignment explanation
Indices: 50334908--50335106 Score: 317
Period size: 39 Copynumber: 5.1 Consensus size: 39
50334898 AATTATATTA
* *
50334908 CCAGCACAAAGCCTACAGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
* *
50334947 CCTGCATGAAGCCTACGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
*
50334986 CCAGCACGAAGCCTACGGGACTTTAGCCCGAATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
* *
50335025 CCAGCACGAAGCTTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
**
50335064 CCAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
50335103 CCAG
1 CCAG
50335107 TGTCTTGCAT
Statistics
Matches: 148, Mismatches: 12, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 148 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
Found at i:50339536 original size:43 final size:43
Alignment explanation
Indices: 50339489--50339583 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 43
50339479 TCCCAGATGG
* * *
50339489 GGTCTTACAC-GAATCACAATTA-CGATGCTGATGTCCTAGACAT
1 GGTCTTACACAAAATCAC-A-TACCGATGCCGATGTCCCAGACAT
*
50339532 GGTCTTACTCAAAATCACATACCGATGCCGATGTCCCAGACAT
1 GGTCTTACACAAAATCACATACCGATGCCGATGTCCCAGACAT
50339575 GGTCTTACA
1 GGTCTTACA
50339584 TGAGAACACA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
42 2 0.04
43 37 0.82
44 6 0.13
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
GGTCTTACACAAAATCACATACCGATGCCGATGTCCCAGACAT
Found at i:50341292 original size:14 final size:15
Alignment explanation
Indices: 50341275--50341303 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
50341265 ACACAAAAAT
50341275 TTCACACA-TATAAA
1 TTCACACATTATAAA
50341289 TTCACACATTATAAA
1 TTCACACATTATAAA
50341304 CACAGAAAAT
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:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
TTCACACATTATAAA
Found at i:50344432 original size:29 final size:29
Alignment explanation
Indices: 50344369--50344436 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
50344359 TAATCAACCG
*
50344369 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
50344398 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
50344427 CGCACACTTA
1 CGCACACTTA
50344437 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:50344548 original size:174 final size:174
Alignment explanation
Indices: 50344258--50345456 Score: 2317
Period size: 174 Copynumber: 6.9 Consensus size: 174
50344248 AACTCAAGGT
* *
50344258 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
50344323 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACTGCGCACACTTAGTGCCATGC
50344388 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
50344432 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
50344497 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACTGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACTGCGCACACTTAGTGCCATGC
50344562 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
50344606 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
50344671 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACTGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACTGCGCACACTTAGTGCCATGC
50344736 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
50344780 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
50344845 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACTGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACTGCGCACACTTAGTGCCATGC
50344910 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
50344954 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
50345019 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACTGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACTGCGCACACTTAGTGCCATGC
50345084 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
50345128 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
50345193 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACTGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACTGCGCACACTTAGTGCCATGC
50345258 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
50345302 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGGAAATAATTTAT
1 ACTTACC-TTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTAT
*
50345367 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATG
65 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACTGCGCACACTTAGTGCCATG
* *
50345432 TACTTTAAACTCGCACACTTAGTGC
130 CACTTTAAACTCACACACTTAGTGC
50345457 TGTACAATTT
Statistics
Matches: 1016, Mismatches: 8, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
174 873 0.86
175 143 0.14
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACTGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:50344606 original size:29 final size:29
Alignment explanation
Indices: 50344538--50344610 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
50344528 CTTAATAATC
50344538 AACTGCGCACACTTAGTGCCATGCACTTTA
1 AACT-CGCACACTTAGTGCCATGCACTTTA
*
50344568 AACTCACACACTTAGTGCCATGCA-TTTCA
1 AACTCGCACACTTAGTGCCATGCACTTT-A
**
50344597 AGTTCGCACACTTA
1 AACTCGCACACTTA
50344611 CCTTTTCCGC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 3 0.08
29 31 0.82
30 4 0.11
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (29 bp):
AACTCGCACACTTAGTGCCATGCACTTTA
Found at i:50344780 original size:29 final size:29
Alignment explanation
Indices: 50344712--50344784 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
50344702 CTTAATAATC
50344712 AACTGCGCACACTTAGTGCCATGCACTTTA
1 AACT-CGCACACTTAGTGCCATGCACTTTA
*
50344742 AACTCACACACTTAGTGCCATGCA-TTTCA
1 AACTCGCACACTTAGTGCCATGCACTTT-A
**
50344771 AGTTCGCACACTTA
1 AACTCGCACACTTA
50344785 CCTTTTCCGC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 3 0.08
29 31 0.82
30 4 0.11
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (29 bp):
AACTCGCACACTTAGTGCCATGCACTTTA
Found at i:50344954 original size:29 final size:29
Alignment explanation
Indices: 50344886--50344958 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
50344876 CTTAATAATC
50344886 AACTGCGCACACTTAGTGCCATGCACTTTA
1 AACT-CGCACACTTAGTGCCATGCACTTTA
*
50344916 AACTCACACACTTAGTGCCATGCA-TTTCA
1 AACTCGCACACTTAGTGCCATGCACTTT-A
**
50344945 AGTTCGCACACTTA
1 AACTCGCACACTTA
50344959 CCTTTTCCGC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 3 0.08
29 31 0.82
30 4 0.11
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (29 bp):
AACTCGCACACTTAGTGCCATGCACTTTA
Found at i:50345128 original size:29 final size:29
Alignment explanation
Indices: 50345060--50345132 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
50345050 CTTAATAATC
50345060 AACTGCGCACACTTAGTGCCATGCACTTTA
1 AACT-CGCACACTTAGTGCCATGCACTTTA
*
50345090 AACTCACACACTTAGTGCCATGCA-TTTCA
1 AACTCGCACACTTAGTGCCATGCACTTT-A
**
50345119 AGTTCGCACACTTA
1 AACTCGCACACTTA
50345133 CCTTTTCCGC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 3 0.08
29 31 0.82
30 4 0.11
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (29 bp):
AACTCGCACACTTAGTGCCATGCACTTTA
Found at i:50345302 original size:29 final size:29
Alignment explanation
Indices: 50345234--50345306 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
50345224 CTTAATAATC
50345234 AACTGCGCACACTTAGTGCCATGCACTTTA
1 AACT-CGCACACTTAGTGCCATGCACTTTA
*
50345264 AACTCACACACTTAGTGCCATGCA-TTTCA
1 AACTCGCACACTTAGTGCCATGCACTTT-A
**
50345293 AGTTCGCACACTTA
1 AACTCGCACACTTA
50345307 CCTTTTTCCG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 3 0.08
29 31 0.82
30 4 0.11
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (29 bp):
AACTCGCACACTTAGTGCCATGCACTTTA
Found at i:50345448 original size:29 final size:30
Alignment explanation
Indices: 50345409--50345487 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
50345399 CTTAATAATC
50345409 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
50345439 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
50345468 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
50345488 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:50350661 original size:40 final size:40
Alignment explanation
Indices: 50350600--50350711 Score: 163
Period size: 40 Copynumber: 2.8 Consensus size: 40
50350590 CGACTGAAAT
* * **
50350600 TACCAAAGTATAAACAGGGGCACGTATGTGTGATCAGGGG
1 TACCAAAGTATAAGCAAGGGCACGTATGTGCAATCAGGGG
50350640 TACCAAAGTATAAGCAAGGGCACGTATGTGCAATCAGGGG
1 TACCAAAGTATAAGCAAGGGCACGTATGTGCAATCAGGGG
*
50350680 TACCAAAGTACAAGC-AGAGGCACGTATGTGCA
1 TACCAAAGTATAAGCAAG-GGCACGTATGTGCA
50350712 GTTAGGTATA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
39 2 0.03
40 64 0.97
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (40 bp):
TACCAAAGTATAAGCAAGGGCACGTATGTGCAATCAGGGG
Found at i:50354690 original size:29 final size:30
Alignment explanation
Indices: 50354637--50354707 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 30
50354627 AAAAATGCTT
* *
50354637 TCCAATTCCTCTCTCCCTAAAATCCTTGTC
1 TCCAATTCCTCTATCCCTAAAATCCTCGTC
* *
50354667 TCTAATTCCTTTATCCC-AAAATCCTCGTC
1 TCCAATTCCTCTATCCCTAAAATCCTCGTC
50354696 TCCAATTCCTCT
1 TCCAATTCCTCT
50354708 TTCCNNNNNN
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
29 21 0.60
30 14 0.40
ACGTcount: A:0.21, C:0.38, G:0.03, T:0.38
Consensus pattern (30 bp):
TCCAATTCCTCTATCCCTAAAATCCTCGTC
Found at i:50363069 original size:32 final size:32
Alignment explanation
Indices: 50363033--50363127 Score: 76
Period size: 32 Copynumber: 3.2 Consensus size: 32
50363023 TGACGATTAG
50363033 GTCCTATTTCTACTATTTTTGTACTGAGGTAA
1 GTCCTATTTCTACTATTTTTGTACTGAGGTAA
* * * ** * * *
50363065 GTCCT-TATGTA--AATAATGCA-T-A-TTAG
1 GTCCTATTTCTACTATTTTTGTACTGAGGTAA
50363091 GTCCTATTTCTACTATTTTTGTACTGAGGTAA
1 GTCCTATTTCTACTATTTTTGTACTGAGGTAA
50363123 GTCCT
1 GTCCT
50363128 TATGTAAATA
Statistics
Matches: 41, Mismatches: 16, Indels: 12
0.59 0.23 0.17
Matches are distributed among these distances:
26 7 0.17
27 5 0.12
28 1 0.02
29 10 0.24
30 1 0.02
31 5 0.12
32 12 0.29
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (32 bp):
GTCCTATTTCTACTATTTTTGTACTGAGGTAA
Found at i:50363118 original size:58 final size:58
Alignment explanation
Indices: 50363028--50363143 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
50363018 GTGTTTGACG
50363028 ATTAGGTCCTATTTCTACTATTTTTGTACTGAGGTAAGTCCTTATGTAAATAATGCAT
1 ATTAGGTCCTATTTCTACTATTTTTGTACTGAGGTAAGTCCTTATGTAAATAATGCAT
50363086 ATTAGGTCCTATTTCTACTATTTTTGTACTGAGGTAAGTCCTTATGTAAATAATGCAT
1 ATTAGGTCCTATTTCTACTATTTTTGTACTGAGGTAAGTCCTTATGTAAATAATGCAT
50363144 TATTTTAATT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.43
Consensus pattern (58 bp):
ATTAGGTCCTATTTCTACTATTTTTGTACTGAGGTAAGTCCTTATGTAAATAATGCAT
Found at i:50363427 original size:43 final size:41
Alignment explanation
Indices: 50363296--50363449 Score: 211
Period size: 41 Copynumber: 3.7 Consensus size: 41
50363286 CCAAGTTTAT
50363296 GTGTAAGACCATATCTGGGATATGGCATC-AGTATGAGATTC
1 GTGTAAGACCATATCTGGGATATGGCATCGA-TATGAGATTC
*
50363337 GTGTAAGACCATATCTGGGATATGGCATCGATGTGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTC
* * *
50363379 GTGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATTAC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATT-C
* *
50363422 ATGTAAGACCATATCTAGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
50363450 TGGTACGATT
Statistics
Matches: 100, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
41 35 0.35
42 32 0.32
43 33 0.33
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTC
Found at i:50368475 original size:50 final size:50
Alignment explanation
Indices: 50368417--50368517 Score: 148
Period size: 50 Copynumber: 2.0 Consensus size: 50
50368407 AAAATATAAA
* * * *
50368417 CTCATTCTTTTGATTATTTCTGAGTAATCCTTGTACATCTGCAAATCTAT
1 CTCATTCTTTCGATCATGTCTGAGTAATCCATGTACATCTGCAAATCTAT
* *
50368467 CTCATTCTTTCGATCATGTCTGAGTAATCCATGTACATTTGCAAATGTAT
1 CTCATTCTTTCGATCATGTCTGAGTAATCCATGTACATCTGCAAATCTAT
50368517 C
1 C
50368518 ATTTCTCATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.43
Consensus pattern (50 bp):
CTCATTCTTTCGATCATGTCTGAGTAATCCATGTACATCTGCAAATCTAT
Found at i:50368534 original size:6 final size:6
Alignment explanation
Indices: 50368516--50368577 Score: 61
Period size: 6 Copynumber: 10.2 Consensus size: 6
50368506 TGCAAATGTA
* * * * *
50368516 TCATTT CTCATTT TCATTT TCATTT CCATTT GCATTT GCATTA GCATTT
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT
*
50368565 CCATTT TCATTT T
1 TCATTT TCATTT T
50368578 GAGAAACCTA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
6 43 0.88
7 6 0.12
ACGTcount: A:0.18, C:0.21, G:0.05, T:0.56
Consensus pattern (6 bp):
TCATTT
Found at i:50381445 original size:48 final size:47
Alignment explanation
Indices: 50381375--50381483 Score: 131
Period size: 48 Copynumber: 2.4 Consensus size: 47
50381365 AAAAGTTATA
*
50381375 AAATTATATAAATATTAAAAATATAAAAACTCT-ATAAATTTATAAAT
1 AAATTATATAAATATTAAAAATATAAAAAATCTAATAAA-TTATAAAT
*
50381422 AAATTATA-AATATTATTGAAAATATAAAAAATCTAATAAATTAT-AA-
1 AAATTATATAA-A-TATTAAAAATATAAAAAATCTAATAAATTATAAAT
50381468 AAA-TATATAAA-ATTAA
1 AAATTATATAAATATTAA
50381484 TAAAATTTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
43 4 0.07
45 5 0.09
46 7 0.13
47 11 0.20
48 23 0.42
49 5 0.09
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (47 bp):
AAATTATATAAATATTAAAAATATAAAAAATCTAATAAATTATAAAT
Found at i:50381537 original size:20 final size:21
Alignment explanation
Indices: 50381463--50381550 Score: 67
Period size: 20 Copynumber: 4.3 Consensus size: 21
50381453 TCTAATAAAT
*
50381463 TATAAAAATATA-TAAAATTA
1 TATAAAAATGTATTAAAATTA
* * *
50381483 -AT-AAAATTTATTTAAATTTTT
1 TATAAAAATGTA-TTAAA-ATTA
* *
50381504 TGTAAAAATGTATTAAAATTC
1 TATAAAAATGTATTAAAATTA
*
50381525 TATAAAAAT-TATTATAATTA
1 TATAAAAATGTATTAAAATTA
50381545 TATAAA
1 TATAAA
50381551 GTATGAAAAG
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
18 7 0.13
19 2 0.04
20 19 0.36
21 12 0.23
22 6 0.11
23 7 0.13
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.43
Consensus pattern (21 bp):
TATAAAAATGTATTAAAATTA
Found at i:50381602 original size:36 final size:36
Alignment explanation
Indices: 50381525--50381604 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
50381515 ATTAAAATTC
* * * *
50381525 TATAAAAATTATTATAATTATATAAAGTATGAAAAG
1 TATAAAAATTATTAAAATTATATAAACTATAAAAAA
50381561 TATAAAAA-TATTAAAATTTATATAAACT-TAAAAAA
1 TATAAAAATTATTAAAA-TTATATAAACTATAAAAAA
50381596 TCATAAAAA
1 T-ATAAAAA
50381605 CTTGAATTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 13 0.34
36 25 0.66
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.34
Consensus pattern (36 bp):
TATAAAAATTATTAAAATTATATAAACTATAAAAAA
Found at i:50382069 original size:8 final size:9
Alignment explanation
Indices: 50382057--50382155 Score: 60
Period size: 9 Copynumber: 10.8 Consensus size: 9
50382047 AGTTTATATA
50382057 AATTTTAAT
1 AATTTTAAT
50382066 -ATTTTAAT
1 AATTTTAAT
*
50382074 AATTTTTAT
1 AATTTTAAT
*
50382083 AATATTTTATT
1 -A-ATTTTAAT
* *
50382094 ATCTTTTAAA
1 A-ATTTTAAT
*
50382104 AATTCTAAT
1 AATTTTAAT
*
50382113 ACTTTT--T
1 AATTTTAAT
*
50382120 AATTTTAAA
1 AATTTTAAT
50382129 AATTTTAAAT
1 AATTTT-AAT
*
50382139 CAATTTTACT
1 -AATTTTAAT
50382149 AATTTTA
1 AATTTTA
50382156 TAAAAAAAAT
Statistics
Matches: 68, Mismatches: 15, Indels: 14
0.70 0.15 0.14
Matches are distributed among these distances:
7 6 0.09
8 8 0.12
9 29 0.43
10 13 0.19
11 12 0.18
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (9 bp):
AATTTTAAT
Found at i:50382084 original size:9 final size:9
Alignment explanation
Indices: 50382033--50382092 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
50382023 AAAAAAAAAA
*
50382033 TTATAGTTT
1 TTATAATTT
50382042 TTATAAGTTT
1 TTATAA-TTT
* *
50382052 ATATAAATT
1 TTATAATTT
50382061 TTA-ATATTT
1 TTATA-ATTT
*
50382070 TAATAATTT
1 TTATAATTT
50382079 TTATAATATT
1 TTATAAT-TT
50382089 TTAT
1 TTAT
50382093 TATCTTTTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
8 1 0.03
9 24 0.60
10 15 0.38
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (9 bp):
TTATAATTT
Found at i:50382087 original size:20 final size:20
Alignment explanation
Indices: 50382062--50382267 Score: 74
Period size: 20 Copynumber: 10.9 Consensus size: 20
50382052 ATATAAATTT
50382062 TAATATTTTAATAATTTTTA
1 TAATATTTTAATAATTTTTA
*
50382082 TAATATTTT-ATTATCTTTTA
1 TAATATTTTAATAAT-TTTTA
* * *
50382102 -AAAATTCTAAT-ACTTTT-
1 TAATATTTTAATAATTTTTA
*
50382119 T-A-ATTTTAA-AAATTTTA
1 TAATATTTTAATAATTTTTA
*
50382136 -AATCAATTTTACTAA-TTTTA
1 TAAT--ATTTTAATAATTTTTA
* ***
50382156 TAAAAAAAATATATAATTTATTA
1 T-AATATTTTA-ATAATTT-TTA
*
50382179 GAAT-TTTT-AT-ATTTTTA
1 TAATATTTTAATAATTTTTA
*
50382196 TAATA-TTT-ATAAGTTTTA
1 TAATATTTTAATAATTTTTA
*
50382214 T-AT-TTTTAATAAGTTTGTA
1 TAATATTTTAATAA-TTTTTA
*
50382233 TTA-ATTTTAAT-ATTTTT-
1 TAATATTTTAATAATTTTTA
*
50382250 TAATA-TTCAATAATTTTT
1 TAATATTTTAATAATTTTT
50382268 TTATTTTTTT
Statistics
Matches: 138, Mismatches: 24, Indels: 50
0.65 0.11 0.24
Matches are distributed among these distances:
16 11 0.08
17 25 0.18
18 30 0.22
19 19 0.14
20 38 0.28
21 6 0.04
22 6 0.04
23 3 0.02
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (20 bp):
TAATATTTTAATAATTTTTA
Found at i:50382194 original size:8 final size:9
Alignment explanation
Indices: 50382167--50382295 Score: 70
Period size: 9 Copynumber: 14.1 Consensus size: 9
50382157 AAAAAAAATA
50382167 TATAATTTAT
1 TATAATTT-T
*
50382177 TAGAATTTT
1 TATAATTTT
50382186 TAT-ATTTT
1 TATAATTTT
*
50382194 TATAATATT
1 TATAATTTT
*
50382203 TATAAGTTT
1 TATAATTTT
50382212 TAT-ATTTT
1 TATAATTTT
*
50382220 TAATAAGTTTG
1 T-ATAA-TTTT
50382231 TATTAATTTT
1 TA-TAATTTT
*
50382241 AAT-ATTTT
1 TATAATTTT
*
50382249 T-TAATATTC
1 TATAAT-TTT
*
50382258 AATAATTTT
1 TATAATTTT
* *
50382267 TTTATTTTTT
1 TATA-ATTTT
*
50382277 TATAGTTTT
1 TATAATTTT
50382286 TCAT-ATTTT
1 T-ATAATTTT
50382295 T
1 T
50382296 CCTGTAATTA
Statistics
Matches: 90, Mismatches: 19, Indels: 21
0.69 0.15 0.16
Matches are distributed among these distances:
7 1 0.01
8 20 0.22
9 36 0.40
10 26 0.29
11 7 0.08
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (9 bp):
TATAATTTT
Found at i:50382218 original size:26 final size:26
Alignment explanation
Indices: 50382183--50382275 Score: 84
Period size: 26 Copynumber: 3.5 Consensus size: 26
50382173 TTATTAGAAT
50382183 TTTTATATTTTTATAATATT-TATAA
1 TTTTATATTTTTATAATATTCTATAA
*
50382208 GTTTTATATTTTTAATAAGT-TTGTATTAA
1 -TTTTATATTTTT-ATAA-TATTCTA-TAA
*
50382237 TTTTAATATTTTT-TAATATTCAATAA
1 TTTT-ATATTTTTATAATATTCTATAA
*
50382263 TTTTTTTATTTTT
1 -TTTTATATTTTT
50382276 TTATAGTTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
26 23 0.40
27 16 0.28
28 7 0.12
29 11 0.19
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (26 bp):
TTTTATATTTTTATAATATTCTATAA
Found at i:50392678 original size:24 final size:24
Alignment explanation
Indices: 50392651--50392699 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
50392641 TAAGCACTCC
50392651 ATTGATCTTCGAGATGTTTGAGCT
1 ATTGATCTTCGAGATGTTTGAGCT
50392675 ATTGATCTTCGAGATGTTTGAGCT
1 ATTGATCTTCGAGATGTTTGAGCT
50392699 A
1 A
50392700 ACAATTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.12, G:0.24, T:0.41
Consensus pattern (24 bp):
ATTGATCTTCGAGATGTTTGAGCT
Found at i:50396237 original size:17 final size:17
Alignment explanation
Indices: 50396215--50396254 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
50396205 TAAAAAAGTG
*
50396215 AAGGTTTACCGGGACAA
1 AAGGTTTACCGGGAAAA
**
50396232 AAGGTTTATTGGGAAAA
1 AAGGTTTACCGGGAAAA
50396249 AAGGTT
1 AAGGTT
50396255 GGACAGTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.07, G:0.30, T:0.25
Consensus pattern (17 bp):
AAGGTTTACCGGGAAAA
Found at i:50397848 original size:14 final size:14
Alignment explanation
Indices: 50397831--50397908 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 14
50397821 CTCAAATGTG
*
50397831 GATTCATACATGCA
1 GATTCATACATACA
* ***
50397845 GATTCATAAATGTG
1 GATTCATACATACA
*
50397859 GATTCATAGATACA
1 GATTCATACATACA
* *
50397873 GATTTATACATACG
1 GATTCATACATACA
*
50397887 GATTCATAGATA-A
1 GATTCATACATACA
50397900 GGATTCATA
1 -GATTCATA
50397909 AGTGAGGATT
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
14 50 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (14 bp):
GATTCATACATACA
Found at i:50397864 original size:28 final size:27
Alignment explanation
Indices: 50397824--50397925 Score: 96
Period size: 28 Copynumber: 3.7 Consensus size: 27
50397814 GTGGACTCTC
*
50397824 AAATGTGGATTCATACATGCAGATTCAT
1 AAATGTGGATTCATAGAT-CAGATTCAT
*
50397852 AAATGTGGATTCATAGATACAGATTTAT
1 AAATGTGGATTCATAGAT-CAGATTCAT
* ** *
50397880 ACATACGGATTCATAGATAAGGATTCAT
1 AAATGTGGATTCATAGATCA-GATTCAT
* * *
50397908 AAGTGAGGATTCAAAGAT
1 AAATGTGGATTCATAGAT
50397926 ATGTATTTAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
27 1 0.02
28 59 0.98
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (27 bp):
AAATGTGGATTCATAGATCAGATTCAT
Found at i:50397916 original size:14 final size:14
Alignment explanation
Indices: 50397858--50397926 Score: 61
Period size: 14 Copynumber: 4.9 Consensus size: 14
50397848 TCATAAATGT
50397858 GGATTCATAGATACA
1 GGATTCATAGATA-A
* * *
50397873 -GATTTATACATAC
1 GGATTCATAGATAA
50397886 GGATTCATAGATAA
1 GGATTCATAGATAA
*
50397900 GGATTCATA-AGTGA
1 GGATTCATAGA-TAA
*
50397914 GGATTCAAAGATA
1 GGATTCATAGATA
50397927 TGTATTTATA
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
13 1 0.02
14 40 0.95
15 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (14 bp):
GGATTCATAGATAA
Found at i:50398618 original size:17 final size:17
Alignment explanation
Indices: 50398575--50398629 Score: 67
Period size: 16 Copynumber: 3.2 Consensus size: 17
50398565 GTTTTATCTG
* *
50398575 TTTAGTCGTTTGTTTAT
1 TTTAGTTGTTTATTTAT
*
50398592 TTT-CTTGTTTATTTAT
1 TTTAGTTGTTTATTTAT
50398608 TTTAGTTGTTTAATTTAT
1 TTTAGTTGTTT-ATTTAT
50398626 TTTA
1 TTTA
50398630 TTAGTTCCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 13 0.41
17 9 0.28
18 10 0.31
ACGTcount: A:0.16, C:0.04, G:0.11, T:0.69
Consensus pattern (17 bp):
TTTAGTTGTTTATTTAT
Found at i:50399617 original size:21 final size:22
Alignment explanation
Indices: 50399591--50399639 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
50399581 ACCCCTCCAT
* *
50399591 GATGCCTTA-TTTTTGTACTCG
1 GATGCCTTAGTTTTCGTACTCA
50399612 GATGCC-TAGTTTTCGTACTCA
1 GATGCCTTAGTTTTCGTACTCA
50399633 GATGCCT
1 GATGCCT
50399640 CATATCCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.41
Consensus pattern (22 bp):
GATGCCTTAGTTTTCGTACTCA
Found at i:50409831 original size:20 final size:20
Alignment explanation
Indices: 50409802--50409849 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
50409792 TTGCACGTCT
*
50409802 GTGCCCCTATTTACACTTCA
1 GTGCCCCTATATACACTTCA
*
50409822 GTGCCGCTATATACACTTCA
1 GTGCCCCTATATACACTTCA
*
50409842 GTGTCCCT
1 GTGCCCCT
50409850 GTTCGCACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.19, C:0.33, G:0.15, T:0.33
Consensus pattern (20 bp):
GTGCCCCTATATACACTTCA
Found at i:50411442 original size:40 final size:40
Alignment explanation
Indices: 50411378--50411525 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
50411368 TTGATGACAG
* *
50411378 TTCGGCTATGTATGGCACTTAGTGTGTGAATCAAGATAGC
1 TTCGACTATGTATGGCACTTAGTGTGCGAATCAAGATAGC
* * * * *
50411418 TTCGACTATCTATGACACTTAGTGTGCGATTCTAGATAGA
1 TTCGACTATGTATGGCACTTAGTGTGCGAATCAAGATAGC
* * *
50411458 TTC-AGTTATGTATGGCACTTAGTGTGCGAGATTAAAATAGC
1 TTCGA-CTATGTATGGCACTTAGTGTGCGA-ATCAAGATAGC
50411499 TTCGACTATGTATTGGCACTTAGTGTG
1 TTCGACTATGTA-TGGCACTTAGTGTG
50411526 TGAGAATTCG
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.01
40 57 0.65
41 15 0.17
42 15 0.17
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (40 bp):
TTCGACTATGTATGGCACTTAGTGTGCGAATCAAGATAGC
Found at i:50421802 original size:13 final size:13
Alignment explanation
Indices: 50421784--50421808 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50421774 ATCAATCGAA
50421784 TTTTCCCAAAATC
1 TTTTCCCAAAATC
50421797 TTTTCCCAAAAT
1 TTTTCCCAAAAT
50421809 TTCTCTCTGT
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:0.32, C:0.28, G:0.00, T:0.40
Consensus pattern (13 bp):
TTTTCCCAAAATC
Found at i:50429679 original size:15 final size:16
Alignment explanation
Indices: 50429661--50429698 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
50429651 TAAAAGCCTG
50429661 TAATATAAA-GAATAA
1 TAATATAAACGAATAA
50429676 TAATAGATAAACGAATAA
1 TAAT--ATAAACGAATAA
50429694 TAATA
1 TAATA
50429699 ATAGGTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.20
16 1 0.05
17 5 0.25
18 10 0.50
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (16 bp):
TAATATAAACGAATAA
Found at i:50429693 original size:18 final size:17
Alignment explanation
Indices: 50429665--50429698 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
50429655 AGCCTGTAAT
50429665 ATAAAGAATAATAATAG
1 ATAAAGAATAATAATAG
50429682 ATAAACGAATAATAATA
1 ATAAA-GAATAATAATA
50429699 ATAGGTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.65, C:0.03, G:0.09, T:0.24
Consensus pattern (17 bp):
ATAAAGAATAATAATAG
Found at i:50429697 original size:21 final size:21
Alignment explanation
Indices: 50429671--50429712 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
50429661 TAATATAAAG
50429671 AATAATAATAGATAAACGAAT
1 AATAATAATAGATAAACGAAT
* *
50429692 AATAATAATAGGTAAATGAAT
1 AATAATAATAGATAAACGAAT
50429713 TCGAAGAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.60, C:0.02, G:0.12, T:0.26
Consensus pattern (21 bp):
AATAATAATAGATAAACGAAT
Found at i:50430816 original size:39 final size:38
Alignment explanation
Indices: 50430772--50430850 Score: 113
Period size: 39 Copynumber: 2.1 Consensus size: 38
50430762 CTCCGTTGAA
* * *
50430772 TGATCATGGTGGTTTCAGGAGTTTATTCTCCTCATTCC
1 TGATCATGATCGTTTCAGGAGTTTATACTCCTCATTCC
*
50430810 TNGATCATGATCGTTTGAGGAGTTTATACTCCTCATTCC
1 T-GATCATGATCGTTTCAGGAGTTTATACTCCTCATTCC
50430849 TG
1 TG
50430851 CTATTAATCT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
38 2 0.06
39 34 0.94
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.41
Consensus pattern (38 bp):
TGATCATGATCGTTTCAGGAGTTTATACTCCTCATTCC
Found at i:50436097 original size:47 final size:48
Alignment explanation
Indices: 50436041--50436306 Score: 232
Period size: 46 Copynumber: 5.7 Consensus size: 48
50436031 TGGGTAAGGT
50436041 GCCGATGCCATGTCCCAGACACGGTCTTACACTGGCTTAT-ATCTC-AA
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTTATCATCTCGAA
* * * *
50436088 GTCGATGCCATGTCCCAGACACAGTCTTACACTGAC-TATCATCTCGTA
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTTATCATCTCGAA
* ** *
50436136 GCCGATG-CATGTCCCAGACATGTCTTACACTGGCTT-TTGTCTCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTTATCATCTCGAA
* * * **
50436182 GCCGATG-CATGTCCCAAACATGTCTTACACTAGCTT-TGGTCTC-AA
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTTATCATCTCGAA
* * *
50436227 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATAT-G--
1 -GCCGATGCCATGTCCCAGACA-GGTCTTACACTGGCT-T-ATCATCTCGAA
* *
50436276 GCCGAT-ACATGTCCCAGACATGTCTTACACT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACT
50436307 AGCTCACAAA
Statistics
Matches: 184, Mismatches: 25, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
45 1 0.01
46 77 0.42
47 77 0.42
48 25 0.14
49 1 0.01
51 3 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTTATCATCTCGAA
Found at i:50436179 original size:46 final size:46
Alignment explanation
Indices: 50436041--50436306 Score: 254
Period size: 47 Copynumber: 5.7 Consensus size: 46
50436031 TGGGTAAGGT
*
50436041 GCCGATGCCATGTCCCAGACACGGTCTTACACTGGCTTAT-ATCTCAA
1 GCCGATGCCATGTCCCAGACA-TGTCTTACACTGGCTT-TCATCTCAA
* * * * *
50436088 GTCGATGCCATGTCCCAGACACAGTCTTACACTGACTATCATCTCGTA
1 GCCGATGCCATGTCCCAGACA-TGTCTTACACTGGCTTTCATCTC-AA
** *
50436136 GCCGATG-CATGTCCCAGACATGTCTTACACTGGCTTTTGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTTCATCTC-AA
* * **
50436182 GCCGATG-CATGTCCCAAACATGTCTTACACTAGCTTTGGTCTCAA
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTTCATCTCAA
* * * *
50436227 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-ATG
1 -GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTTCAT-CTCA-A
*
50436276 GCCGAT-ACATGTCCCAGACATGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGTCTTACACT
50436307 AGCTCACAAA
Statistics
Matches: 185, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 76 0.41
47 79 0.43
48 28 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTTCATCTCAA
Found at i:50436301 original size:140 final size:141
Alignment explanation
Indices: 50436041--50436306 Score: 351
Period size: 140 Copynumber: 1.9 Consensus size: 141
50436031 TGGGTAAGGT
* * * *
50436041 GCCGATGCCATGTCCCAGACACGGTCTTACACTGGCTTATATCTCAAGTCGATGCCATGTCCCAG
1 GCCGATGCCATGTCCCAAACACGGTCTTACACTAGCTTATATCTCAAGCCAATGCCATGTCCCAG
* * *
50436106 ACACAGTCTTACACTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCT
66 ACACAGTCTTACACTGACTATCATATCATAGCCGATACATGTCCCAGACATGTCTTACACTGGCT
50436171 TTTGTCTCGAG
131 TTTGTCTCGAG
* *
50436182 GCCGATG-CATGTCCCAAACA-TGTCTTACACTAGCTT-TGGTCTCAATGCCAATGCCATGTCCC
1 GCCGATGCCATGTCCCAAACACGGTCTTACACTAGCTTAT-ATCTCAA-GCCAATGCCATGTCCC
** * * *
50436244 AGACATGGTCTTACACTGGCTCTCATAAT-ATGGCCGATACATGTCCCAGACATGTCTTACACT
64 AGACACAGTCTTACACTGACTATCAT-ATCATAGCCGATACATGTCCCAGACATGTCTTACACT
50436307 AGCTCACAAA
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
138 1 0.01
139 20 0.19
140 79 0.73
141 8 0.07
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (141 bp):
GCCGATGCCATGTCCCAAACACGGTCTTACACTAGCTTATATCTCAAGCCAATGCCATGTCCCAG
ACACAGTCTTACACTGACTATCATATCATAGCCGATACATGTCCCAGACATGTCTTACACTGGCT
TTTGTCTCGAG
Found at i:50438884 original size:36 final size:36
Alignment explanation
Indices: 50438836--50438907 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
50438826 GGCCCACTCG
*
50438836 GGATTAACCACCTTATTTGTGAAAAACGCTCTTCCA
1 GGATTAACCACCTTATTTGTGAAAAACGCTATTCCA
* *
50438872 GGATTAATCACCTTATTTGTGAAAGACGCTATTCCA
1 GGATTAACCACCTTATTTGTGAAAAACGCTATTCCA
50438908 CTCAAAACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (36 bp):
GGATTAACCACCTTATTTGTGAAAAACGCTATTCCA
Found at i:50445924 original size:93 final size:93
Alignment explanation
Indices: 50445814--50445984 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
50445804 GCCCCTAAGT
* *
50445814 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
50445879 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
50445907 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
50445972 CGAGTTCGGATGC
66 CGAGTTCGGATGC
50445985 TCAACCATCC
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:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:50445981 original size:46 final size:46
Alignment explanation
Indices: 50445809--50445981 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
50445799 AACCCGCCCC
* * * *
50445809 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
50445855 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
50445903 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
50445948 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
50445982 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:50455019 original size:40 final size:40
Alignment explanation
Indices: 50454982--50455207 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 40
50454972 GCTACTCGTT
*
50454982 CAAATGCCTTCGGGACATAGCCCGG-TTGTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
50455022 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
50455062 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
50455101 CAAATGCCTTC-GGATCTTAGTCCAGATATTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAACTCGCA
* * * * *
50455142 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
50455183 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
50455208 CATCATTCAA
Statistics
Matches: 163, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 76 0.47
41 52 0.32
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:50455144 original size:80 final size:80
Alignment explanation
Indices: 50454982--50455154 Score: 235
Period size: 79 Copynumber: 2.2 Consensus size: 80
50454972 GCTACTCGTT
* *
50454982 CAAATGCCTTCGGGACATAGCCCGGTTGTAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATGTAGTAACTCGCACAAATGCCTTCAGGACTTAACCCAG
50455047 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
* * **
50455062 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGG-ATGTAGTAACTCGCACAAATGCCTTCAGGA-CTTAACCC
*
50455124 AGATATTAGTATCTCGCA
64 AGAT-TTAGTAACTCGCA
50455142 CAAATGCCTTCGG
1 CAAATGCCTTCGG
50455155 ATCTTAGTCC
Statistics
Matches: 83, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
78 3 0.04
79 40 0.48
80 40 0.48
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGATGTAGTAACTCGCACAAATGCCTTCAGGACTTAACCCAG
ATTTAGTAACTCGCA
Found at i:50471614 original size:48 final size:47
Alignment explanation
Indices: 50471538--50471758 Score: 271
Period size: 48 Copynumber: 4.6 Consensus size: 47
50471528 TAAGGACCCA
*
50471538 TGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACA-GGCATCGGCGTTGATATGTGAGCCAG
* * * *
50471586 TGTAAGACTATGTCTGGGACAGGTCATCGGGGTTGATATATGAGTCAG
1 TGTAAGACCATGTCTGGGACAGG-CATCGGCGTTGATATGTGAGCCAG
* *
50471634 TGTAAGACCATGTATGGGACAGGGCATCGGCATTGATATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACA-GGCATCGGCGTTGATATGTGAGCCAG
* * * * *
50471682 TGTAAGACAATGTCTAGGACATGACATCGGCCTGGATATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACA-GGCATCGGCGTTGATATGTGAGCCAG
* *
50471730 TGTAAGACCAAGTTTGGGACATGGCATCG
1 TGTAAGACCATGTCTGGGACA-GGCATCG
50471759 ACATTGACAT
Statistics
Matches: 149, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
47 2 0.01
48 145 0.97
49 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.25
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACAGGCATCGGCGTTGATATGTGAGCCAG
Found at i:50471702 original size:96 final size:96
Alignment explanation
Indices: 50471538--50471765 Score: 312
Period size: 96 Copynumber: 2.4 Consensus size: 96
50471528 TAAGGACCCA
* ** * *
50471538 TGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCCAGTGTAAGACTATGTCTGG
1 TGTAAGACCATGTATGGGACATGGCATCGGCATTGATATGTGAGCCAGTGTAAGACAATGTCTAG
* ** * *
50471603 GACAGGTCATCGGGGTTGATATATGAGTCAG
66 GACAGGACATCGGCCTGGATATATGAGCCAG
*
50471634 TGTAAGACCATGTATGGGACAGGGCATCGGCATTGATATGTGAGCCAGTGTAAGACAATGTCTAG
1 TGTAAGACCATGTATGGGACATGGCATCGGCATTGATATGTGAGCCAGTGTAAGACAATGTCTAG
* *
50471699 GACATGACATCGGCCTGGATATGTGAGCCAG
66 GACAGGACATCGGCCTGGATATATGAGCCAG
* * *
50471730 TGTAAGACCAAGTTTGGGACATGGCATCGACATTGA
1 TGTAAGACCATGTATGGGACATGGCATCGGCATTGA
50471766 CATGAGATTT
Statistics
Matches: 115, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 115 1.00
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (96 bp):
TGTAAGACCATGTATGGGACATGGCATCGGCATTGATATGTGAGCCAGTGTAAGACAATGTCTAG
GACAGGACATCGGCCTGGATATATGAGCCAG
Found at i:50477828 original size:79 final size:79
Alignment explanation
Indices: 50477666--50477839 Score: 271
Period size: 79 Copynumber: 2.2 Consensus size: 79
50477656 ATGATAACCG
* *
50477666 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCGAAGGCATTTGTGCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCGAAGGCATTTGAGCA
50477731 AGTTACTATATCCA
66 AGTTACTATATCCA
*
50477745 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAACCGGGCTAAGTCCCGAAGGCATTTGAGC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGT-CCGAAGGCATTTGAGC
50477810 AAG-TAGCTATATCC-
65 AAGTTA-CTATATCCA
* *
50477824 GGCTAAATTCCGAAGG
1 GGCTAAGTCCCGAAGG
50477840 TACTTGGTTT
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
79 63 0.72
80 25 0.28
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCGAAGGCATTTGAGCA
AGTTACTATATCCA
Found at i:50477839 original size:39 final size:40
Alignment explanation
Indices: 50477659--50477806 Score: 262
Period size: 40 Copynumber: 3.7 Consensus size: 40
50477649 TATTCGGATG
50477659 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
50477699 ATAACCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
50477738 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
50477778 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
50477807 AGCAAGTAGC
Statistics
Matches: 102, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
39 37 0.36
40 65 0.64
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:50479414 original size:94 final size:92
Alignment explanation
Indices: 50479255--50479439 Score: 325
Period size: 94 Copynumber: 2.0 Consensus size: 92
50479245 CGTTTGGGTC
*
50479255 TAGCTATACATGCCATTATGTGATTATTTGATAGTGTGGTGATTTCTGACAATTGAAAATGTGTT
1 TAGCTATACATGCCATTATGTGATTACTTGATAGTGTGGTGATTTCTGACAATTGAAAATGTGTT
*
50479320 TATTTTTAGTAATGGATCCCGATCCCA
66 TATTTATAGTAATGGATCCCGATCCCA
*
50479347 TAGCTATACATGCCATTTTATGTGATTACTTGATAGTGTGGTGATTTCTGACAATTGTAAATGTG
1 TAGCTATACATGCCA--TTATGTGATTACTTGATAGTGTGGTGATTTCTGACAATTGAAAATGTG
50479412 TTTATTTATAGTAATGGATCCCGATCCC
64 TTTATTTATAGTAATGGATCCCGATCCC
50479440 GACCGAGCGG
Statistics
Matches: 88, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
92 15 0.17
94 73 0.83
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (92 bp):
TAGCTATACATGCCATTATGTGATTACTTGATAGTGTGGTGATTTCTGACAATTGAAAATGTGTT
TATTTATAGTAATGGATCCCGATCCCA
Found at i:50481902 original size:95 final size:95
Alignment explanation
Indices: 50481732--50481905 Score: 258
Period size: 95 Copynumber: 1.8 Consensus size: 95
50481722 CGGATCTTCA
* * * * * *
50481732 GACCGTATTTGGATCGGTTTGTAGTTGTGTTTATCGATGATATTTTGGTCTATTCGAGAAATGAA
1 GACCATATTTGGATCGGTTCGTAGTTGTGTTCATCGATGACATCTTGGTCTATTCAAGAAATGAA
*
50481797 ACCGATCATGCTGAACACCTGGGATTAGTG
66 ACCGAACATGCTGAACACCTGGGATTAGTG
* * *
50481827 GACCATATTTGGATCGGTTCGTAGTTGTGTTCATTGATGACATCTTGGTCTATTCAAGAGATGAG
1 GACCATATTTGGATCGGTTCGTAGTTGTGTTCATCGATGACATCTTGGTCTATTCAAGAAATGAA
50481892 ACCGAACATGCTGA
66 ACCGAACATGCTGA
50481906 GCATCTGAGG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
95 69 1.00
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (95 bp):
GACCATATTTGGATCGGTTCGTAGTTGTGTTCATCGATGACATCTTGGTCTATTCAAGAAATGAA
ACCGAACATGCTGAACACCTGGGATTAGTG
Found at i:50483488 original size:76 final size:76
Alignment explanation
Indices: 50483393--50483544 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
50483383 CAAACCGATG
50483393 GTCAATCCGAGCGGATAATTCAGATACTTGAGGATATGTTGAGATGTTGCATCCTCGAGTTTAGT
1 GTCAATCCGAGCGGATAATTCAGATACTTGAGGATATGTTGAGATGTTGCATCCTCGAGTTTAGT
*
50483458 GGTTTATGGGA
66 GGTTCATGGGA
50483469 GTCAATCCGAGCGGATAATTCAGATACTTGAGGATATGTTGAGATGTTGCATCCTCGAGTTTAGT
1 GTCAATCCGAGCGGATAATTCAGATACTTGAGGATATGTTGAGATGTTGCATCCTCGAGTTTAGT
50483534 GGTTCATGGGA
66 GGTTCATGGGA
50483545 ACGGTATTTA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (76 bp):
GTCAATCCGAGCGGATAATTCAGATACTTGAGGATATGTTGAGATGTTGCATCCTCGAGTTTAGT
GGTTCATGGGA
Found at i:50486103 original size:40 final size:40
Alignment explanation
Indices: 50485948--50486089 Score: 221
Period size: 40 Copynumber: 3.5 Consensus size: 40
50485938 ATGATAACCG
* *
50485948 GGCTAAGTCTCGAAGGCATTTGTGCCAGTTACTATATCCA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCA
*
50485988 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCA
* * * *
50486028 GGCTAAGTCCCGAAGGCATTAGTGCGAGTTGCTATAACTA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCA
50486068 GGCTAAGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
50486090 AGCAAGTAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 93 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCA
Found at i:50486103 original size:80 final size:80
Alignment explanation
Indices: 50485945--50486122 Score: 234
Period size: 80 Copynumber: 2.2 Consensus size: 80
50485935 CGGATGATAA
* * *
50485945 CCGGGCTAAGTCTCGAAGGCATTTGTGCCAGTTACTATATCCAGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTAGTGCCAGTTACTATAACCAGGCTAAGTCCCGAAGGCATTTG
* *
50486010 TGCGAGTTACTATAT
66 AGCAAGTTACTATAT
* * *
50486025 CCGGGCTAAGTCCCGAAGGCATTAGTGCGAGTTGCTATAACTAGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTAGTGCCAGTTACTATAACCAGGCTAAGTCCCGAAGGCATTTG
50486090 AGCAAG-TAGCTATAT
66 AGCAAGTTA-CTATAT
* * *
50486105 TC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
50486123 TACTTGGTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
79 16 0.19
80 70 0.81
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTAGTGCCAGTTACTATAACCAGGCTAAGTCCCGAAGGCATTTG
AGCAAGTTACTATAT
Found at i:50488919 original size:45 final size:45
Alignment explanation
Indices: 50488855--50489268 Score: 819
Period size: 45 Copynumber: 9.2 Consensus size: 45
50488845 TATCGTACAG
50488855 TATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
50488900 TATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
50488945 TATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
50488990 TATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
50489035 TATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
50489080 TATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
50489125 TATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
50489170 TATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
50489215 TATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
*
50489260 TACTATTCG
1 TATTATTCG
50489269 ACTCATGATC
Statistics
Matches: 368, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 368 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (45 bp):
TATTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
Found at i:50492455 original size:27 final size:27
Alignment explanation
Indices: 50492424--50492573 Score: 151
Period size: 27 Copynumber: 5.6 Consensus size: 27
50492414 TTAGTTTACC
* *
50492424 AAATTACTGAAATACCCTCAACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
50492451 AAATTAC-CAAAGTACCCTCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** * *
50492478 AAATTACCCAAATATCCTCGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
** * *
50492505 AAATTACAAAAATACCCT-TAGTTTGCA
1 AAATTACTGAAATACCCTCGA-TTTGTA
*
50492532 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
50492559 AAATTACTGAAATAC
1 AAATTACTGAAATAC
50492574 TCCTGTAAGA
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
26 4 0.04
27 93 0.91
28 5 0.05
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:50492615 original size:27 final size:27
Alignment explanation
Indices: 50492585--50492769 Score: 255
Period size: 27 Copynumber: 6.9 Consensus size: 27
50492575 CCTGTAAGAT
50492585 AGAATTACTATTTTACCCTCGATTTAC
1 AGAATTACTATTTTACCCTCGATTTAC
* * *
50492612 AGAATTA-TCGTTTTACCCTCAATTTAT
1 AGAATTACT-ATTTTACCCTCGATTTAC
50492639 AGAATTACTATTTTACCCTCGATTTAC
1 AGAATTACTATTTTACCCTCGATTTAC
** *
50492666 AGAATTACCGTTTTACCCTCGATTTAT
1 AGAATTACTATTTTACCCTCGATTTAC
50492693 AGAATTACTATTTTACCCTCGATTTAC
1 AGAATTACTATTTTACCCTCGATTTAC
* * *
50492720 AAAATTACTGTCTTACCCTCGATTTAC
1 AGAATTACTATTTTACCCTCGATTTAC
* *
50492747 AGAGTTACCATTTTACCCTCGAT
1 AGAATTACTATTTTACCCTCGAT
50492770 CAATAAAATT
Statistics
Matches: 136, Mismatches: 20, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 134 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
AGAATTACTATTTTACCCTCGATTTAC
Found at i:50492618 original size:54 final size:52
Alignment explanation
Indices: 50492544--50492769 Score: 220
Period size: 54 Copynumber: 4.2 Consensus size: 52
50492534 ATTATTGAAA
** *** *
50492544 TACCCTCGATTTGTAAAATTACTGAAATACTCCTGTAAGATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTTTAC-CCTG-AATATAGAATTACTATTT
* *
50492598 TACCCTCGATTTACAGAATTA-TCGTTTTACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACT-GTTTTACCCTGAA--TATAGAATTACTATTT
* * *
50492652 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCT-GA-ATATAGAATTACTATTT
* * * * *
50492706 TACCCTCGATTTACAAAATTACTGTCTTACCCTCGATTTACAGAGTTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCT-GA-ATATAGAATTACTATTT
50492760 TACCCTCGAT
1 TACCCTCGAT
50492770 CAATAAAATT
Statistics
Matches: 149, Mismatches: 17, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
52 2 0.01
53 4 0.03
54 142 0.95
55 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (52 bp):
TACCCTCGATTTACAAAATTACTGTTTTACCCTGAATATAGAATTACTATTT
Found at i:50492629 original size:81 final size:82
Alignment explanation
Indices: 50492544--50492769 Score: 221
Period size: 81 Copynumber: 2.8 Consensus size: 82
50492534 ATTATTGAAA
* * *
50492544 TACCCTCGATTTGTAAAATTACTGA-AATACTCCT-G-TAAGATAGAATTACTATTTTACCCTCG
1 TACCCTCGATTTATAAAATTACTGATAATAC-CCTCGAT-AGACAGAATTACCATTTTACCCTCG
*
50492606 ATTTACAGAATTA-TCGTTT
64 ATTTACAGAATTACT-ATTT
* * ** ** *
50492625 TACCCTCAATTTATAGAATTACT-ATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAT
1 TACCCTCGATTTATAAAATTACTGATAATACCCTCGATAGACAGAATTACCATTTTACCCTCGAT
*
50492689 TTATAGAATTACTATTT
66 TTACAGAATTACTATTT
* ** ** *
50492706 TACCCTCGATTTACAAAATTACTG-TCTTACCCTCGATTTACAGAGTTACCATTTTACCCTCGAT
1 TACCCTCGATTTATAAAATTACTGATAATACCCTCGATAGACAGAATTACCATTTTACCCTCGAT
50492770 CAATAAAATT
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
80 4 0.03
81 116 0.95
82 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (82 bp):
TACCCTCGATTTATAAAATTACTGATAATACCCTCGATAGACAGAATTACCATTTTACCCTCGAT
TTACAGAATTACTATTT
Found at i:50492781 original size:54 final size:54
Alignment explanation
Indices: 50492583--50492769 Score: 286
Period size: 54 Copynumber: 3.5 Consensus size: 54
50492573 CTCCTGTAAG
* *
50492583 ATAGAATTACTATTTTACCCTCGATTTACAGAATTA-TCGTTTTACCCTCAATTT
1 ATAGAATTACTATTTTACCCTCGATTTACAAAATTACT-GTTTTACCCTCGATTT
* *
50492637 ATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
1 ATAGAATTACTATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTT
*
50492691 ATAGAATTACTATTTTACCCTCGATTTACAAAATTACTGTCTTACCCTCGATTT
1 ATAGAATTACTATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTT
* * *
50492745 ACAGAGTTACCATTTTACCCTCGAT
1 ATAGAATTACTATTTTACCCTCGAT
50492770 CAATAAAATT
Statistics
Matches: 124, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
54 124 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (54 bp):
ATAGAATTACTATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTT
Found at i:50492803 original size:27 final size:27
Alignment explanation
Indices: 50492773--50492844 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
50492763 CCTCGATCAA
*
50492773 TAAAATTACCAAAATACCATTAG-TTTG
1 TAAAATTACCAAAATACCACT-GCTTTG
*
50492800 TAAAATTACCAAAATACCCCTGCTTTG
1 TAAAATTACCAAAATACCACTGCTTTG
* *
50492827 TGAAATTACCGAAATACC
1 TAAAATTACCAAAATACC
50492845 CTTGTAGGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.03
27 39 0.98
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
TAAAATTACCAAAATACCACTGCTTTG
Found at i:50492808 original size:81 final size:81
Alignment explanation
Indices: 50492641--50492790 Score: 192
Period size: 81 Copynumber: 1.9 Consensus size: 81
50492631 CAATTTATAG
* * ** * * ***
50492641 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTT
1 AATTACTATCTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATCAATAAAATTACCAAAA
*
50492706 TACCCTCGATTTACAA
66 TACCCTAGATTTACAA
* *
50492722 AATTACTGTCTTACCCTCGATTTACAGAGTTACCATTTTACCCTCGATCAATAAAATTACCAAAA
1 AATTACTATCTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATCAATAAAATTACCAAAA
50492787 TACC
66 TACC
50492791 ATTAGTTTGT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 58 1.00
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (81 bp):
AATTACTATCTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATCAATAAAATTACCAAAA
TACCCTAGATTTACAA
Found at i:50492860 original size:27 final size:27
Alignment explanation
Indices: 50492830--50493322 Score: 743
Period size: 27 Copynumber: 18.3 Consensus size: 27
50492820 TGCTTTGTGA
*
50492830 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
50492857 AATTACTGAAATACCCCTGTAGGTTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
50492884 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
50492911 AATTACTGAAATACCCCTGTAGGTTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
50492938 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
50492965 AATTACTGAAATACCCCTGTAGGTTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
50492992 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
50493019 AATTACTGAAATACCCCTGTAGGTTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
50493046 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
50493073 AATTACTGAAATACCCCTGTAGGTTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
50493100 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
50493127 AATTACTGAAATACCCCTGTAGGTTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
50493154 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
50493181 AATAACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
50493208 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
50493235 AATGACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
50493262 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
50493289 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
50493316 AATTACC
1 AATTACC
50493323 ATTTTGCCCC
Statistics
Matches: 417, Mismatches: 49, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 417 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:50493333 original size:54 final size:54
Alignment explanation
Indices: 50492830--50493322 Score: 842
Period size: 54 Copynumber: 9.1 Consensus size: 54
50492820 TGCTTTGTGA
50492830 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGTTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGTTAG
50492884 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGTTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGTTAG
50492938 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGTTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGTTAG
50492992 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGTTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGTTAG
50493046 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGTTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGTTAG
50493100 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGTTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGTTAG
* * *
50493154 AATTACCGAAATACCCTTGTAGGGTAGAATAACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGTTAG
* * * * *
50493208 AATTACCGAAATACCCCTGTAGGGTAGAATGACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGTTAG
* * * * * * * *
50493262 AAATACCGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGTTAG
50493316 AATTACC
1 AATTACC
50493323 ATTTTGCCCC
Statistics
Matches: 427, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 427 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (54 bp):
AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGTTAG
Found at i:50493762 original size:31 final size:31
Alignment explanation
Indices: 50493724--50493794 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
50493714 TTGCATTCAC
*
50493724 ATTCTGATTTTGATTCTGTTACCTGATACCA
1 ATTCTGATTTTGATTCTATTACCTGATACCA
**
50493755 ATTCTGATTTTGATTCTATTACCTGATACTG
1 ATTCTGATTTTGATTCTATTACCTGATACCA
50493786 ATTCTGATT
1 ATTCTGATT
50493795 CTGTCACCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTATTACCTGATACCA
Found at i:50493794 original size:6 final size:6
Alignment explanation
Indices: 50493724--50493836 Score: 63
Period size: 6 Copynumber: 18.3 Consensus size: 6
50493714 TTGCATTCAC
* * ** *
50493724 ATTCTG ATTTTG ATTCTG -TTACCTG ATACCA ATTCTG ATTTTG ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
50493772 ATTACCTG ATACTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
50493823 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
50493837 AATGTTTCTT
Statistics
Matches: 80, Mismatches: 16, Indels: 22
0.68 0.14 0.19
Matches are distributed among these distances:
5 7 0.09
6 61 0.76
7 8 0.10
8 4 0.05
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:50493822 original size:25 final size:25
Alignment explanation
Indices: 50493754--50493822 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
50493744 ACCTGATACC
* * *
50493754 AATTCTGATTTTGATTCTATTACCT
1 AATTCTGATTCTGATTCTGTCACCT
* *
50493779 GATACTGATTCTGATTCTGTCACCT
1 AATTCTGATTCTGATTCTGTCACCT
50493804 AATTCTGATTCTGATTCTG
1 AATTCTGATTCTGATTCTG
50493823 ATTCTAGTTC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.22, C:0.19, G:0.13, T:0.46
Consensus pattern (25 bp):
AATTCTGATTCTGATTCTGTCACCT
Found at i:50495193 original size:104 final size:104
Alignment explanation
Indices: 50495064--50495271 Score: 398
Period size: 104 Copynumber: 2.0 Consensus size: 104
50495054 GATTATATTA
*
50495064 CAATTAGTAATTCGGCACTTGTTCCATGATATAATATTTGGATGTGTATGTATATTAATTAATGA
1 CAATTAGTAATTCGGCACTTGTTCCATGATATAATATTTGGATGTGTATGTATAATAATTAATGA
*
50495129 AATTCGGATATGCAAGGTAATGAGTTAGGAAAATGTTCC
66 AATTAGGATATGCAAGGTAATGAGTTAGGAAAATGTTCC
50495168 CAATTAGTAATTCGGCACTTGTTCCATGATATAATATTTGGATGTGTATGTATAATAATTAATGA
1 CAATTAGTAATTCGGCACTTGTTCCATGATATAATATTTGGATGTGTATGTATAATAATTAATGA
50495233 AATTAGGATATGCAAGGTAATGAGTTAGGAAAATGTTCC
66 AATTAGGATATGCAAGGTAATGAGTTAGGAAAATGTTCC
50495272 ATGATGGTTT
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 102 1.00
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (104 bp):
CAATTAGTAATTCGGCACTTGTTCCATGATATAATATTTGGATGTGTATGTATAATAATTAATGA
AATTAGGATATGCAAGGTAATGAGTTAGGAAAATGTTCC
Found at i:50495995 original size:45 final size:45
Alignment explanation
Indices: 50495931--50496061 Score: 189
Period size: 45 Copynumber: 3.0 Consensus size: 45
50495921 TATCGTGTAG
* *
50495931 TACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
50495976 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* *
50496021 TGA-TA-TCGGG-CTTTGAGCCTGGCAGGCGA-AATGCCGGTGAA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAA
50496062 TGAATTCGGG
Statistics
Matches: 81, Mismatches: 4, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
42 12 0.15
43 17 0.21
44 5 0.06
45 46 0.57
46 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:50496087 original size:41 final size:41
Alignment explanation
Indices: 50495963--50496101 Score: 106
Period size: 41 Copynumber: 3.3 Consensus size: 41
50495953 AGTAGGCTAT
* * *
50495963 AATGCCGGTGAGAT-ACTATTCGGGCCTTTGAGCCTAGCAGGCTA
1 AATGCCGGTGA-ATGA-TA-TCGGG-CTTTAAACCTAGCAGGCGA
* * *
50496007 TAATGCCGGTGAAATGATATCGGGCTTTGAGCCTGGCAGGCGA
1 -AATGCCGGTG-AATGATATCGGGCTTTAAACCTAGCAGGCGA
50496050 AATGCCGGTGAATGA-ATTCGGG-TTTAAAACCTAGCAGGCTG-
1 AATGCCGGTGAATGATA-TCGGGCTTT-AAACCTAGCAGGC-GA
*
50496091 AATGCCAGTGA
1 AATGCCGGTGA
50496102 TTTGATAAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 14
0.81 0.06 0.14
Matches are distributed among these distances:
40 4 0.05
41 30 0.36
42 11 0.13
43 17 0.20
44 5 0.06
45 14 0.17
46 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (41 bp):
AATGCCGGTGAATGATATCGGGCTTTAAACCTAGCAGGCGA
Found at i:50496995 original size:50 final size:50
Alignment explanation
Indices: 50496920--50497248 Score: 245
Period size: 50 Copynumber: 6.9 Consensus size: 50
50496910 CAAGGGTAAA
*
50496920 GTGCCAATGCCATGTCCCAGACATGGTCTTACACTCA-CTCTCACATAACC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCACATAACC
*
50496970 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAATC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACC
* * *
50497020 GTGCCGATGCTATGTCCTAGACATGGTCTTACACT-G---ACACAT--CTC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAAC-C
* * * * *
50497065 GTAGCCGTTG-CATGTCCCAGACAT-GTCTTATACTGGCT-T-ACGT-CCC
1 GT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACC
* * * * * *
50497111 GAGGCTGATG-CATGTCCCAGACAT-GTCCTATACTAGCACTCGTC-TCAA--
1 G-TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-ACAT-AACC
* * * *
50497159 -TGCCGATGCCATGTTCTAGACATGGTCTTACACTGGCTCT--CATAA-T
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACC
*
50497205 GTAGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCACACA
1 GT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA
50497249 AATGACCCAA
Statistics
Matches: 226, Mismatches: 32, Indels: 44
0.75 0.11 0.15
Matches are distributed among these distances:
44 9 0.04
45 19 0.08
46 67 0.30
47 27 0.12
48 22 0.10
49 3 0.01
50 79 0.35
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (50 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACC
Found at i:50497167 original size:46 final size:44
Alignment explanation
Indices: 50496972--50497241 Score: 155
Period size: 46 Copynumber: 5.8 Consensus size: 44
50496962 ACATAACCGT
* * **
50496972 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAATCGT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC-CT--CGT-CTCAA
* * * * *
50497022 GCCGATGCTATGTCCTAGACATGGTCTTACACT-GACACATCTCGTA
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTAGCCTCGTCTC-AA
* * * * * *
50497068 GCCGTTGCATGTCCCAGACATGTCTTATACTGGCTTACGTCCCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCCT-CGTCTC-AA
* * *
50497114 GCTGATGCATGTCCCAGACATGTCCTATACTAGCACTCGTCTCAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-CTCGTCTCAA
* * * * * **
50497159 TGCCGATGCCATGTTCTAGACATGGTCTTACACTGGCTCTCATAATGTA
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC-CTCGT-CTCAA
50497208 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
50497242 TCACACAAAT
Statistics
Matches: 174, Mismatches: 37, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
44 9 0.05
45 16 0.09
46 68 0.39
47 25 0.14
48 22 0.13
49 4 0.02
50 30 0.17
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCCTCGTCTCAA
Found at i:50497215 original size:94 final size:94
Alignment explanation
Indices: 50496930--50497246 Score: 283
Period size: 94 Copynumber: 3.3 Consensus size: 94
50496920 GTGCCAATGC
* * *
50496930 CATGTCCCAGACATGGTCTTACACTCACTCTCACATAAC-CGTGCCGATGCCATGTCCCAGACAT
1 CATGTCCCAGACAT-GTCTTACACT-A-GCACACAT--CTCATGCCGATGCCATGTCCCAGACAT
*
50496994 GGTCTTACACTAGCTCTCACATAATCGT-GCCGATG
61 GGTCTTACACTGGCTCT-ACATAAT-GTAGCCGATG
* * *
50497029 CTATGTCCTAGACATGGTCTTACACT-G-ACACATCTCGTAGCCGTTG-CATGTCCCAGACAT-G
1 C-ATGTCCCAGACAT-GTCTTACACTAGCACACATCTCAT-GCCGATGCCATGTCCCAGACATGG
* * *** *
50497090 TCTTATACTGGCT-TACGTCCCG-AGGCTGATG
63 TCTTACACTGGCTCTACATAATGTA-GCCGATG
* * * * * *
50497121 CATGTCCCAGACATGTCCTATACTAGCACTCGTCTCAATGCCGATGCCATGTTCTAGACATGGTC
1 CATGTCCCAGACATGTCTTACACTAGCACACATCTC-ATGCCGATGCCATGTCCCAGACATGGTC
50497186 TTACACTGGCTCT-CATAATGTAGCCGATG
65 TTACACTGGCTCTACATAATGTAGCCGATG
*
50497215 CATGTCCCAGACATGTCTTACACTAGCTCACA
1 CATGTCCCAGACATGTCTTACACTAGCACACA
50497247 CAAATGACCC
Statistics
Matches: 175, Mismatches: 31, Indels: 29
0.74 0.13 0.12
Matches are distributed among these distances:
90 8 0.05
91 14 0.08
92 23 0.13
93 14 0.08
94 62 0.35
95 19 0.11
96 11 0.06
99 1 0.01
100 23 0.13
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCACACATCTCATGCCGATGCCATGTCCCAGACATGGTCT
TACACTGGCTCTACATAATGTAGCCGATG
Found at i:50501145 original size:37 final size:37
Alignment explanation
Indices: 50501095--50501173 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
50501085 TTATTACGAA
* *
50501095 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
50501132 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
50501169 GTCTT
1 GTCTT
50501174 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:50501368 original size:47 final size:47
Alignment explanation
Indices: 50501292--50501405 Score: 147
Period size: 47 Copynumber: 2.4 Consensus size: 47
50501282 CTTCGGGACT
* * * * *
50501292 TATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
50501339 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
50501386 TATCACATATATACACTTTC
1 TATCACATATATACACTTTC
50501406 TTGGCTGAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.26, C:0.32, G:0.10, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:50508810 original size:50 final size:50
Alignment explanation
Indices: 50508735--50508863 Score: 204
Period size: 50 Copynumber: 2.6 Consensus size: 50
50508725 TAAAGTGCTA
*
50508735 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTACATAACCGTACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACCGTACCG
*
50508785 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACCGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACCGTACCG
** **
50508835 ATGTTATGTCTTAGACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
50508864 GACACATCTT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 73 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACCGTACCG
Found at i:50513930 original size:96 final size:96
Alignment explanation
Indices: 50513765--50514077 Score: 396
Period size: 96 Copynumber: 3.3 Consensus size: 96
50513755 ATAATGTCCC
*
50513765 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCCAGTGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCCAGTGTAAGACCATGTCTA
* *
50513830 GGACATGGCATCGGCATTGATATGTGATCCA
66 GGACATGGCATCGGCATGGATATGTGAGCCA
* * * * *
50513861 GTGTAAGACCATGTTTAGGACATGGCATCGGCGTTGATATGTAAGCCAGTGCAAGACCATGTCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCCAGTGTAAGACCATGTCTA
**
50513926 GGACATGGCATCGGTGTGGATATGTGAGCCA
66 GGACATGGCATCGGCATGGATATGTGAGCCA
* * * *
50513957 GTGTAAGACCATGTCTGGGACATGGCATCGGTGCTGATATGTGTGCTAGTGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCCAGTGTAAGACCATGTCTA
* ** * ** **
50514022 GGAAATTTCATCGGCACT-GACATAAGATTTC-
66 GGACATGGCATCGGCA-TGGATATGTGA-GCCA
50514053 GTGTAAGACCATGTCTGGGACATGG
1 GTGTAAGACCATGTCTGGGACATGG
50514078 ATTTGGCACT
Statistics
Matches: 186, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
96 184 0.99
97 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.27
Consensus pattern (96 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCCAGTGTAAGACCATGTCTA
GGACATGGCATCGGCATGGATATGTGAGCCA
Found at i:50514035 original size:48 final size:48
Alignment explanation
Indices: 50513765--50514024 Score: 403
Period size: 48 Copynumber: 5.4 Consensus size: 48
50513755 ATAATGTCCC
50513765 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCCA
** *
50513813 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGATCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCCA
* * * *
50513861 GTGTAAGACCATGTTTAGGACATGGCATCGGCGTTGATATGTAAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCCA
* * *
50513909 GTGCAAGACCATGTCTAGGACATGGCATCGGTGTGGATATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCCA
* * *
50513957 GTGTAAGACCATGTCTGGGACATGGCATCGGTGCTGATATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCCA
50514005 GTGTAAGACCATGTCTGGGA
1 GTGTAAGACCATGTCTGGGA
50514025 AATTTCATCG
Statistics
Matches: 193, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 193 1.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCCA
Found at i:50514061 original size:144 final size:142
Alignment explanation
Indices: 50513763--50514077 Score: 418
Period size: 144 Copynumber: 2.2 Consensus size: 142
50513753 AGATAATGTC
*
50513763 CCGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCCAGTGTAAGACCATGTC
1 CCGTGTAAGACCATGTCTGGGACATGGCATCGGTGTGGATATGTGAGCCAGTGTAAGACCATGTC
* * *
50513828 TGGGACATGGCATCGGCATTGATATGTGATCCAGTGTAAGACCATGTTTAGGACATGGCATCGGC
66 TGGGACATGGCATCGGCACTGATATGTGATCCAGTGTAAGACCATGTCTAGGAAATGGCATCGGC
** *
50513893 GTTGATATGTAAG
131 ACTGACA-GTAAG
* *
50513906 CCAGTGCAAGACCATGTCTAGGACATGGCATCGGTGTGGATATGTGAGCCAGTGTAAGACCATGT
1 CC-GTGTAAGACCATGTCTGGGACATGGCATCGGTGTGGATATGTGAGCCAGTGTAAGACCATGT
** * * **
50513971 CTGGGACATGGCATCGGTGCTGATATGTG-TGCTAGTGTAAGACCATGTCTGGGAAATTTCATCG
65 CTGGGACATGGCATCGGCACTGATATGTGAT-CCAGTGTAAGACCATGTCTAGGAAATGGCATCG
50514035 GCACTGACA-TAAG
129 GCACTGACAGTAAG
*
50514048 ATTTCGTGTAAGACCATGTCTGGGACATGG
1 ---CCGTGTAAGACCATGTCTGGGACATGG
50514078 ATTTGGCACT
Statistics
Matches: 149, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
142 4 0.03
143 3 0.02
144 141 0.95
145 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (142 bp):
CCGTGTAAGACCATGTCTGGGACATGGCATCGGTGTGGATATGTGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCACTGATATGTGATCCAGTGTAAGACCATGTCTAGGAAATGGCATCGGC
ACTGACAGTAAG
Found at i:50520630 original size:32 final size:32
Alignment explanation
Indices: 50520594--50520696 Score: 77
Period size: 32 Copynumber: 3.2 Consensus size: 32
50520584 AGACCATATC
50520594 TGGGATATGGCATTGGTATGGAACCATGTGTA
1 TGGGATATGGCATTGGTATGGAACCATGTGTA
* * ** * * *
50520626 TGGGACGATGCGAGATT-ACATGTAAGACCA--TATC
1 TGGGA-TATG-G-CATTGGTATG-GA-ACCATGTGTA
50520660 TGGGATATGGCATTGGTATGGAACCATGTGTA
1 TGGGATATGGCATTGGTATGGAACCATGTGTA
50520692 TGGGA
1 TGGGA
50520697 CGATGCGAGA
Statistics
Matches: 49, Mismatches: 14, Indels: 16
0.62 0.18 0.20
Matches are distributed among these distances:
30 4 0.08
31 4 0.08
32 16 0.33
33 6 0.12
34 11 0.22
35 4 0.08
36 4 0.08
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.28
Consensus pattern (32 bp):
TGGGATATGGCATTGGTATGGAACCATGTGTA
Found at i:50520643 original size:66 final size:66
Alignment explanation
Indices: 50520572--50520763 Score: 357
Period size: 66 Copynumber: 2.9 Consensus size: 66
50520562 CATCGAAACA
50520572 AGATTACATGTAAGACCATATCTGGGATATGGCATTGGTATGGAACCATGTGTATGGGACGATGC
1 AGATTACATGTAAGACCATATCTGGGATATGGCATTGGTATGGAACCATGTGTATGGGACGATGC
50520637 G
66 G
50520638 AGATTACATGTAAGACCATATCTGGGATATGGCATTGGTATGGAACCATGTGTATGGGACGATGC
1 AGATTACATGTAAGACCATATCTGGGATATGGCATTGGTATGGAACCATGTGTATGGGACGATGC
50520703 G
66 G
* * *
50520704 AGATTACATGTAAGACCATATCTGGGATATGGTATTGGTATGGTACCATGTGTACGGGAC
1 AGATTACATGTAAGACCATATCTGGGATATGGCATTGGTATGGAACCATGTGTATGGGAC
50520764 TCCCGAGTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 123 1.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.28
Consensus pattern (66 bp):
AGATTACATGTAAGACCATATCTGGGATATGGCATTGGTATGGAACCATGTGTATGGGACGATGC
G
Found at i:50520664 original size:34 final size:34
Alignment explanation
Indices: 50520626--50520730 Score: 85
Period size: 34 Copynumber: 3.1 Consensus size: 34
50520616 ACCATGTGTA
50520626 TGGGACGATGCGAGATTACATGTAAGACCATATC
1 TGGGACGATGCGAGATTACATGTAAGACCATATC
* * ** * * *
50520660 TGGGA-TATG-G-CATTGGTATG-GA-ACCATGTGTA
1 TGGGACGATGCGAGATT-ACATGTAAGACCA--TATC
50520692 TGGGACGATGCGAGATTACATGTAAGACCATATC
1 TGGGACGATGCGAGATTACATGTAAGACCATATC
50520726 TGGGA
1 TGGGA
50520731 TATGGTATTG
Statistics
Matches: 49, Mismatches: 14, Indels: 16
0.62 0.18 0.20
Matches are distributed among these distances:
30 4 0.08
31 4 0.08
32 11 0.22
33 6 0.12
34 16 0.33
35 4 0.08
36 4 0.08
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (34 bp):
TGGGACGATGCGAGATTACATGTAAGACCATATC
Found at i:50526874 original size:23 final size:23
Alignment explanation
Indices: 50526816--50526901 Score: 68
Period size: 23 Copynumber: 3.7 Consensus size: 23
50526806 AAAGAAGTGT
* *
50526816 AGAAAAATAAAATAAACAGAAAA
1 AGAAAAAGAAAATAAAAAGAAAA
*
50526839 TA-AATATAG-AAATAAAAAGAAAA
1 -AGAA-AAAGAAAATAAAAAGAAAA
* **
50526862 AGAAAAAGAAAATTAAAATTAAA
1 AGAAAAAGAAAATAAAAAGAAAA
**
50526885 ATTAAAAGAAAATAAAA
1 AGAAAAAGAAAATAAAA
50526902 TAAATGGACT
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
22 4 0.08
23 42 0.86
24 3 0.06
ACGTcount: A:0.76, C:0.01, G:0.08, T:0.15
Consensus pattern (23 bp):
AGAAAAAGAAAATAAAAAGAAAA
Found at i:50528535 original size:23 final size:23
Alignment explanation
Indices: 50528483--50528539 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
50528473 GAATATAACA
* * *
50528483 AAATAATAGATAAAATTGAAAAG
1 AAATACTAGATAAAATAGAAAAC
50528506 AAA-ACTAGAATAAAA-AGAAAAC
1 AAATACTAG-ATAAAATAGAAAAC
50528528 AAATACTA-ATAA
1 AAATACTAGATAA
50528540 TACTTAGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 4 0.14
22 12 0.41
23 13 0.45
ACGTcount: A:0.68, C:0.05, G:0.09, T:0.18
Consensus pattern (23 bp):
AAATACTAGATAAAATAGAAAAC
Found at i:50529528 original size:146 final size:146
Alignment explanation
Indices: 50529226--50529529 Score: 423
Period size: 146 Copynumber: 2.1 Consensus size: 146
50529216 TCGCTTCTTC
*
50529226 CATGCCCGTGTGACCTCTCACACGTCCGTGTTCCTTACCCGTATAACTCTCTGACTTGTTTTAAA
1 CATGCCCGTGTGACCTCTCACACGTCCGTGTGCCTTACCCGTATAACTCTCTGACTTGTTTTAAA
* * * * * *
50529291 TTTGAAAAATTAAACTCCATGTTTCAAACGGCCTAGGATACGCCCGTGTTTCCAAGCCATATGGT
66 TTTGAAAAATTAAACTCCAGGTTTCAAACGGCCTAGGACAAGCCCGTATGTCCAAGCCACATGGT
* *
50529356 CTACGTGCCTGTGTCA
131 CCACGTGCCTATGTCA
* * *
50529372 CACGCCCGTGTGACCTCTCACACGTCCGTGTGCCTTACCCGTGTAACTCTTTGACTTGTTTTAAA
1 CATGCCCGTGTGACCTCTCACACGTCCGTGTGCCTTACCCGTATAACTCTCTGACTTGTTTTAAA
* * * *
50529437 TTTGAAAAATTAAACTCCAGGTTTCAAACGGCCTAGGACAAGCTCGTATGTCCAGGCCGCGTGGT
66 TTTGAAAAATTAAACTCCAGGTTTCAAACGGCCTAGGACAAGCCCGTATGTCCAAGCCACATGGT
50529502 CCACACG-GCC-ATGTCA
131 -C-CACGTGCCTATGTCA
*
50529518 CATGCTCGTGTG
1 CATGCCCGTGTG
50529530 GACTAATTTA
Statistics
Matches: 138, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
146 131 0.95
147 4 0.03
148 3 0.02
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (146 bp):
CATGCCCGTGTGACCTCTCACACGTCCGTGTGCCTTACCCGTATAACTCTCTGACTTGTTTTAAA
TTTGAAAAATTAAACTCCAGGTTTCAAACGGCCTAGGACAAGCCCGTATGTCCAAGCCACATGGT
CCACGTGCCTATGTCA
Found at i:50540648 original size:34 final size:33
Alignment explanation
Indices: 50540596--50540665 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 33
50540586 TGCATCTCTA
* *
50540596 ATACTGTACTGAATTGGGCTATGGCCCACACTG
1 ATACTGTACTGAACTGGGCTAAGGCCCACACTG
*
50540629 ATACTGTTACTGCACTGGGCTAAGGCCCACACTG
1 ATACTG-TACTGAACTGGGCTAAGGCCCACACTG
50540663 ATA
1 ATA
50540666 TTGCCACTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 6 0.18
34 27 0.82
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (33 bp):
ATACTGTACTGAACTGGGCTAAGGCCCACACTG
Found at i:50543662 original size:27 final size:27
Alignment explanation
Indices: 50543571--50543663 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
50543561 GAATCTTTAG
* **
50543571 TTTACCAAATTACTGAAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* **
50543598 CTTGTAAAATTACCAAAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ***
50543625 TTTACAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
50543652 TTTACAAAATTA
1 TTTACAAAATTA
50543664 TTGAAATACC
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCGA
Found at i:50543673 original size:27 final size:27
Alignment explanation
Indices: 50543571--50543674 Score: 93
Period size: 27 Copynumber: 3.9 Consensus size: 27
50543561 GAATCTTTAG
* *
50543571 TTTACCAAATTACTGAAATACCCTCGA
1 TTTACAAAATTACCGAAATACCCTCGA
* ** *
50543598 CTTGTAAAATTACCAAAATACCCTCGA
1 TTTACAAAATTACCGAAATACCCTCGA
* **
50543625 TTTACAGAATTACC-ATTTTACCCTCGA
1 TTTACAAAATTACCGA-AATACCCTCGA
**
50543652 TTTACAAAATTATTGAAATACCC
1 TTTACAAAATTACCGAAATACCC
50543675 CTGTAGGGTA
Statistics
Matches: 58, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
26 1 0.02
27 56 0.97
28 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACCGAAATACCCTCGA
Found at i:50543689 original size:27 final size:27
Alignment explanation
Indices: 50543659--50543826 Score: 194
Period size: 27 Copynumber: 6.2 Consensus size: 27
50543649 CGATTTACAA
*
50543659 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
50543686 AATTACTGAAATACCTCAGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
50543713 AATTACTGAAATACCTCTGTAGGGCAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** *
50543740 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
50543767 AAATACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
50543794 AATTA-TCGAGATACCCTTGTGGGGTAA
1 AATTACT-GAAATACCCCTGTAGGGTAG
50543821 AATTAC
1 AATTAC
50543827 CATTTTGCCC
Statistics
Matches: 118, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 117 0.99
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:50544230 original size:20 final size:20
Alignment explanation
Indices: 50544190--50544230 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
50544180 TGTGTGCCAT
* *
50544190 TATTGTGGGCTTCGTATCGA
1 TATTGTGGGCTTCATACCGA
*
50544210 TATTGTGGGCTTCATGCCGA
1 TATTGTGGGCTTCATACCGA
50544230 T
1 T
50544231 TATAGACCCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.17, G:0.29, T:0.39
Consensus pattern (20 bp):
TATTGTGGGCTTCATACCGA
Found at i:50544451 original size:6 final size:6
Alignment explanation
Indices: 50544442--50544572 Score: 81
Period size: 6 Copynumber: 21.3 Consensus size: 6
50544432 TTGCATTCAC
* * * *
50544442 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * *
50544492 ATTCTA ATTCTG ATTCTG ATTCTA ATTCTG ATTCT- ATAACCTG ATTCTA
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
50544541 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
50544573 AATGTTTCTT
Statistics
Matches: 96, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
5 6 0.06
6 78 0.81
7 8 0.08
8 4 0.04
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:50544476 original size:25 final size:24
Alignment explanation
Indices: 50544442--50544551 Score: 115
Period size: 25 Copynumber: 4.7 Consensus size: 24
50544432 TTGCATTCAC
*
50544442 ATTCTGATTCTGATTCTGTTACCTG
1 ATTCTAATTCTGATTCTG-TACCTG
* *
50544467 ATACTAATTCTGATTCTGTCACCTA
1 ATTCTAATTCTGATTCTGT-ACCTG
50544492 ATTCTAATTCTGA---T-T--CTG
1 ATTCTAATTCTGATTCTGTACCTG
*
50544510 ATTCTAATTCTGATTCTATAACCTG
1 ATTCTAATTCTGATTCTGT-ACCTG
50544535 ATTCTAATTCTGATTCT
1 ATTCTAATTCTGATTCT
50544552 CATTTTGATT
Statistics
Matches: 72, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
18 15 0.21
21 2 0.03
22 2 0.03
24 1 0.01
25 52 0.72
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (24 bp):
ATTCTAATTCTGATTCTGTACCTG
Found at i:50544518 original size:43 final size:43
Alignment explanation
Indices: 50544464--50544551 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
50544454 ATTCTGTTAC
* *
50544464 CTGATACTAATTCTGATTCTGTCACCTAATTCTAATTCTGATT
1 CTGATACTAATTCTGATTCTATAACCTAATTCTAATTCTGATT
* *
50544507 CTGATTCTAATTCTGATTCTATAACCTGATTCTAATTCTGATT
1 CTGATACTAATTCTGATTCTATAACCTAATTCTAATTCTGATT
50544550 CT
1 CT
50544552 CATTTTGATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.25, C:0.20, G:0.09, T:0.45
Consensus pattern (43 bp):
CTGATACTAATTCTGATTCTATAACCTAATTCTAATTCTGATT
Found at i:50547734 original size:40 final size:40
Alignment explanation
Indices: 50546933--50547727 Score: 1477
Period size: 40 Copynumber: 19.9 Consensus size: 40
50546923 ATTCGGATTG
* * *
50546933 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
* *
50546972 ATATCCGGGCTAAGTCCCA-AAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCCAAGT-CCAGAAGGCAATTGTGCGAGTTACT
50547012 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
50547052 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
50547092 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
50547132 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
50547172 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
50547212 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
50547252 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
50547292 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
50547332 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
50547372 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
50547412 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
50547452 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
50547492 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
50547532 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
50547572 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
50547612 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
*
50547652 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
* * * *
50547692 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGT
50547728 AGCTATATCC
Statistics
Matches: 744, Mismatches: 9, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
39 16 0.02
40 726 0.98
41 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.20
Consensus pattern (40 bp):
ATAACCGGGCCAAGTCCAGAAGGCAATTGTGCGAGTTACT
Found at i:50547988 original size:56 final size:56
Alignment explanation
Indices: 50547899--50548010 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
50547889 TGAGCTTTCG
50547899 GGCCTTTGGTTAAGTTGATCCCTTATGTATGAATATAAGGGTTGGAAATGTGAAGT
1 GGCCTTTGGTTAAGTTGATCCCTTATGTATGAATATAAGGGTTGGAAATGTGAAGT
* *
50547955 GGCCTTTGGTTAAGTTGATCCCTTATGTGTGAATATGAGGGTTGGAAATGTGAAGT
1 GGCCTTTGGTTAAGTTGATCCCTTATGTATGAATATAAGGGTTGGAAATGTGAAGT
50548011 AGGACTGATT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.25, C:0.09, G:0.30, T:0.36
Consensus pattern (56 bp):
GGCCTTTGGTTAAGTTGATCCCTTATGTATGAATATAAGGGTTGGAAATGTGAAGT
Found at i:50558038 original size:29 final size:29
Alignment explanation
Indices: 50557976--50558039 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
50557966 TTGAGTAATT
* *
50557976 TGGACTAAATTGTGAAATTTATAAATTGA
1 TGGACTAAAATGTGAAATTAATAAATTGA
*
50558005 GGGACTAAAATGTGAAA-TAATGAAATATG-
1 TGGACTAAAATGTGAAATTAAT-AAAT-TGA
50558034 TGGACT
1 TGGACT
50558040 TGTATGAGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 3 0.10
29 24 0.83
30 2 0.07
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (29 bp):
TGGACTAAAATGTGAAATTAATAAATTGA
Found at i:50566284 original size:44 final size:45
Alignment explanation
Indices: 50566234--50566356 Score: 160
Period size: 46 Copynumber: 2.7 Consensus size: 45
50566224 TATACATGCT
* * *
50566234 AATGCATGTCCCAGACATGTCTTACACTAGCACAAC-TCTTA-GCC
1 AATGCATGTCCCAAACATGTCTTACACTGGCACAACATC-GAGGCC
* * *
50566278 GATGCATGTCTCAAACATGTCTTACACTGGCTATAACATCGAGGCC
1 AATGCATGTCCCAAACATGTCTTACACTGGC-ACAACATCGAGGCC
50566324 AATGCATGTCCCAAACATGTCTTACACTGGCAC
1 AATGCATGTCCCAAACATGTCTTACACTGGCAC
50566357 TCATCTCTAC
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
44 27 0.40
45 6 0.09
46 34 0.51
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (45 bp):
AATGCATGTCCCAAACATGTCTTACACTGGCACAACATCGAGGCC
Found at i:50566373 original size:46 final size:43
Alignment explanation
Indices: 50566234--50566403 Score: 146
Period size: 46 Copynumber: 3.7 Consensus size: 43
50566224 TATACATGCT
* *
50566234 AATGCATGTCCCAGACATGTCTTACACTAGCA-CAACTCTTAGCC
1 AATGCATGTCCCAAACATGTCTTACACTGGCATCAACTC-TA-CC
* * *
50566278 GATGCATGTCTCAAACATGTCTTACACTGGCTAT-AACATCGAGGCC
1 AATGCATGTCCCAAACATGTCTTACACTGGC-ATCAAC-TCTA--CC
*
50566324 AATGCATGTCCCAAACATGTCTTACACTGGCACTCATCTCTACATC
1 AATGCATGTCCCAAACATGTCTTACACTGGCA-TCAACTCTAC--C
* * *
50566370 AATGCCATGTCCTAGACTTGGTCTTACACTGGCA
1 AATG-CATGTCCCAAACAT-GTCTTACACTGGCA
50566404 CACAAAAAAT
Statistics
Matches: 104, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
44 28 0.27
45 6 0.06
46 43 0.41
47 13 0.12
48 14 0.13
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (43 bp):
AATGCATGTCCCAAACATGTCTTACACTGGCATCAACTCTACC
Found at i:50578403 original size:48 final size:48
Alignment explanation
Indices: 50578335--50578659 Score: 542
Period size: 48 Copynumber: 6.8 Consensus size: 48
50578325 CAAGATAAAT
* * *
50578335 ATATATATGTGTGGTGAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
* *
50578383 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
*
50578431 ATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
*
50578479 ATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
*
50578527 ATATTTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
* * * *
50578575 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
50578623 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
50578660 TGTTGTAACA
Statistics
Matches: 259, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 259 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
Found at i:50578756 original size:37 final size:37
Alignment explanation
Indices: 50578703--50578805 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
50578693 GGAAATGTAT
50578703 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
50578740 TCCGGGTAAGAGCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
**
50578777 TCCGGGTAAGACCCGAAAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
50578806 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:50579720 original size:28 final size:28
Alignment explanation
Indices: 50579688--50579744 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
50579678 AACATAGTAG
50579688 GAATGGAGTTAAATAGTGAATGAATTAT
1 GAATGGAGTTAAATAGTGAATGAATTAT
50579716 GAATGGAGTTAAATAGTGAATGAATTAT
1 GAATGGAGTTAAATAGTGAATGAATTAT
50579744 G
1 G
50579745 TAATTGAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (28 bp):
GAATGGAGTTAAATAGTGAATGAATTAT
Found at i:50580009 original size:119 final size:119
Alignment explanation
Indices: 50579798--50580035 Score: 467
Period size: 119 Copynumber: 2.0 Consensus size: 119
50579788 ACGATCATAT
50579798 GAACAGTATTTTATGAGATTTTAAGGTTTTCGTGAAACAGGGCCAGAACGGTTTCTGGATCCCCT
1 GAACAGTATTTTATGAGATTTTAAGGTTTTCGTGAAACAGGGCCAGAACGGTTTCTGGATCCCCT
50579863 GTTCAGACTTAGGAAATTCACTATAAATCAACCAGAGATAATTAGAAGTCATGC
66 GTTCAGACTTAGGAAATTCACTATAAATCAACCAGAGATAATTAGAAGTCATGC
50579917 GAACAGTATTTTATGAGATTTTAAGGTTTTCGTGAAACAGGGCCAGAACGGTTTCTGGATCCCCT
1 GAACAGTATTTTATGAGATTTTAAGGTTTTCGTGAAACAGGGCCAGAACGGTTTCTGGATCCCCT
*
50579982 GTTCAGACTTAGGAAATTCACTATAAATCAACCAGAGATAATTAGAGGTCATGC
66 GTTCAGACTTAGGAAATTCACTATAAATCAACCAGAGATAATTAGAAGTCATGC
50580036 CTTATATGTA
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
119 118 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (119 bp):
GAACAGTATTTTATGAGATTTTAAGGTTTTCGTGAAACAGGGCCAGAACGGTTTCTGGATCCCCT
GTTCAGACTTAGGAAATTCACTATAAATCAACCAGAGATAATTAGAAGTCATGC
Found at i:50581291 original size:40 final size:40
Alignment explanation
Indices: 50580902--50581279 Score: 576
Period size: 40 Copynumber: 9.4 Consensus size: 40
50580892 GTATAGTCGA
*
50580902 GCTAAGTCCCGAAGAGCATTCGAGCTAGTGATGTATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
* *
50580942 GTTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
* * *
50580982 GCTAAGTCTCGAATAGCATTCGTGCTAGTGATGTAACCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
50581022 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
* * *
50581062 GCTAAGTCTCGAATAGCATTCGTGCTAGTGATGTAACCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
50581102 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
*
50581142 GTTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
* * *
50581182 GCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGT
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
** * * * *
50581222 GCTAAACCCCGAAGAGCGTTCGTGCTGGTGTTATATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
*
50581262 GCTAGGTCCCGAAGAGCA
1 GCTAAGTCCCGAAGAGCA
50581280 ATCATGCTGG
Statistics
Matches: 307, Mismatches: 31, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 307 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
Found at i:50581505 original size:25 final size:25
Alignment explanation
Indices: 50581455--50581505 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
50581445 TGTGTAACAA
* *
50581455 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
50581480 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
50581505 C
1 C
50581506 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:50585923 original size:29 final size:29
Alignment explanation
Indices: 50585888--50585964 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
50585878 CATGAGATTG
* *
50585888 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGGGTTTAAAGTGCACA
* * **
50585917 GCACTAAGTGTGTGAGTTTAAAGTGCATG
1 GCACTAAGTGTGCGGGTTTAAAGTGCACA
50585946 GCACTAAGTGTGCGCGGTT
1 GCACTAAGTGTGCG-GGTT
50585965 GATTATTGAG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 36 0.92
30 3 0.08
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTTAAAGTGCACA
Found at i:50586207 original size:174 final size:174
Alignment explanation
Indices: 50585917--50586242 Score: 589
Period size: 174 Copynumber: 1.9 Consensus size: 174
50585907 AAATTGTACA
* * *
50585917 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTATGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
50585982 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
50586047 TTTTGGACAGCGGAAAAGGTAATTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAATTGTGCGAACTTGAAATGCATG
*
50586091 GCACTAAGTGTATGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTATGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
50586156 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
50586221 TTTTGGACAGCGGAAAAGGTAA
131 TTTTGGACAGCGGAAAAGGTAA
50586243 GTACCTTGAG
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 145 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (174 bp):
GCACTAAGTGTATGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAATTGTGCGAACTTGAAATGCATG
Found at i:50589372 original size:55 final size:53
Alignment explanation
Indices: 50589285--50589523 Score: 256
Period size: 55 Copynumber: 4.5 Consensus size: 53
50589275 ATTAAGGTTT
* *
50589285 AAGGATACCATGTAAGAGCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * * * *
50589340 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * *
50589395 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* *
50589448 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
* *
50589497 AAGGATACCACGTAAGACCATGACAAG
1 AAGGATACCATGTAAGACCATGCCAAG
50589524 TAATGGAAAT
Statistics
Matches: 156, Mismatches: 22, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
49 25 0.16
52 7 0.04
53 42 0.27
54 11 0.07
55 67 0.43
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:50589491 original size:108 final size:110
Alignment explanation
Indices: 50589292--50589492 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
50589282 TTTAAGGATA
* *
50589292 CCATGTAAGAGCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
50589357 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
50589402 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
50589464 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
50589493 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:50589752 original size:16 final size:16
Alignment explanation
Indices: 50589731--50589761 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50589721 ATAAATTTGA
50589731 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
50589747 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
50589762 AGTTAAGAAG
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:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:50603655 original size:13 final size:13
Alignment explanation
Indices: 50603637--50603661 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50603627 AAATAATCGT
50603637 ACACGGGCGTGTC
1 ACACGGGCGTGTC
50603650 ACACGGGCGTGT
1 ACACGGGCGTGT
50603662 GCCTGCCGGG
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:0.28, G:0.40, T:0.16
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:50615780 original size:22 final size:23
Alignment explanation
Indices: 50615716--50615805 Score: 101
Period size: 23 Copynumber: 3.9 Consensus size: 23
50615706 TCAGATCGTA
* * *
50615716 AGAGCTTACTTTTTTTAGCTCACT
1 AGAGCTTAC-TGTTTCAGCTCAAT
* *
50615740 GGAGCTTACCGTTTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
*
50615763 AGAGCTTACTG-TTCAGCTCGAT
1 AGAGCTTACTGTTTCAGCTCAAT
*
50615785 AGAGCTTATTGTTTCAGCTCA
1 AGAGCTTACTGTTTCAGCTCA
50615806 TTTAAGCTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
22 20 0.36
23 27 0.49
24 8 0.15
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:50616758 original size:30 final size:30
Alignment explanation
Indices: 50616724--50616789 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
50616714 ACGGGCAGAG
50616724 ACACGGGCATGTGTCTCAGCCATGTGTGAC
1 ACACGGGCATGTGTCTCAGCCATGTGTGAC
*
50616754 ACACGGGCATGTGTCTCAGCCGTGTGTGAC
1 ACACGGGCATGTGTCTCAGCCATGTGTGAC
50616784 ACACGG
1 ACACGG
50616790 TTATGTTACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.20, C:0.27, G:0.32, T:0.21
Consensus pattern (30 bp):
ACACGGGCATGTGTCTCAGCCATGTGTGAC
Found at i:50619377 original size:42 final size:41
Alignment explanation
Indices: 50619270--50619385 Score: 110
Period size: 43 Copynumber: 2.8 Consensus size: 41
50619260 GTCTGAGACA
* *
50619270 TCGTGTAAGACCGTGTTTGGGACACAGGCATCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATT-AGATT
* * *
50619312 TACATATAAGACCATGTGTGGGACATC-GGCATCGTATCT-GATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGCATCG-AT-TAGATT
* *
50619355 TCGTGTAAGACCCTGTCTGGGACAGAGGCAT
1 TCGTGTAAGACCATGTCTGGGACACAGGCAT
50619386 TGATATTGAA
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
42 25 0.42
43 31 0.52
44 3 0.05
45 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTAGATT
Found at i:50635344 original size:12 final size:12
Alignment explanation
Indices: 50635327--50635352 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50635317 GATGGACAAA
50635327 TATTTTTGTTTT
1 TATTTTTGTTTT
50635339 TATTTTTGTTTT
1 TATTTTTGTTTT
50635351 TA
1 TA
50635353 ATTCATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.81
Consensus pattern (12 bp):
TATTTTTGTTTT
Done.