Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 134 of 356
Found at i:43001496 original size:45 final size:45
Alignment explanation
Indices: 43001423--43001559 Score: 195
Period size: 45 Copynumber: 3.0 Consensus size: 45
43001413 TTGTAACCGC
*
43001423 ATATCGATGCCAACATCCCAGACATGGTCTTACACGAAAACACAT
1 ATATCGATGCCAACATCCCAGACGTGGTCTTACACGAAAACACAT
* * *
43001468 ATATTGATGCCAACATCCTAGATGTGGTCTTACACGAAAACACAT
1 ATATCGATGCCAACATCCCAGACGTGGTCTTACACGAAAACACAT
** *
43001513 ATATCGATGCCAATGTCCCAGACGTCGTCTTACA-GAAAAACACAT
1 ATATCGATGCCAACATCCCAGACGTGGTCTTACACG-AAAACACAT
43001558 AT
1 AT
43001560 CAGAATCCTA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 1 0.01
45 80 0.99
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (45 bp):
ATATCGATGCCAACATCCCAGACGTGGTCTTACACGAAAACACAT
Found at i:43002131 original size:15 final size:15
Alignment explanation
Indices: 43002111--43002143 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
43002101 CAAAAATTCC
43002111 AATACAAAACATGTT
1 AATACAAAACATGTT
43002126 AATACAAAACATGTT
1 AATACAAAACATGTT
43002141 AAT
1 AAT
43002144 CTATTACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (15 bp):
AATACAAAACATGTT
Found at i:43007563 original size:42 final size:43
Alignment explanation
Indices: 43007473--43007585 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 43
43007463 TATGTGTGTG
* * *
43007473 AGTAAGACCACGTCTGGGAC-GTTGGCATCGATATGTGTTTATG
1 AGTAAGACCAAGTCTGGGACAG-TGGCATCGATATGTGATTATC
* *
43007516 AGTAAGCCCTA-TCTGGGACAGTGGCATCGATATGTGATTA-C
1 AGTAAGACCAAGTCTGGGACAGTGGCATCGATATGTGATTATC
*
43007557 ATGTAAGACCAAGTCTGGGACATTGGCAT
1 A-GTAAGACCAAGTCTGGGACAGTGGCAT
43007586 TGCACGATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.02
42 34 0.58
43 24 0.41
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (43 bp):
AGTAAGACCAAGTCTGGGACAGTGGCATCGATATGTGATTATC
Found at i:43012020 original size:45 final size:45
Alignment explanation
Indices: 43011956--43012042 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
43011946 CCAAAACATG
*
43011956 TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGAA
1 TGTCACATATATCACGAACTCAGACCACAAATCAATGAGTTCGAA
* *
43012001 TGTCACGTATATCATGAACTCAGACCACAAATCAATGAGTTC
1 TGTCACATATATCACGAACTCAGACCACAAATCAATGAGTTC
43012043 AGAGCACATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (45 bp):
TGTCACATATATCACGAACTCAGACCACAAATCAATGAGTTCGAA
Found at i:43028517 original size:27 final size:27
Alignment explanation
Indices: 43028487--43028664 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43028477 ATATTGAGTC
* * * *
43028487 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
43028514 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43028541 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
43028569 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
43028596 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
43028623 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43028650 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43028665 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:43028626 original size:82 final size:81
Alignment explanation
Indices: 43028508--43028663 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43028498 TGCTATATAA
* *
43028508 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
43028573 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
43028590 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
43028654 CACTTAGTGC
65 CACTTAGTGC
43028664 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:43032576 original size:68 final size:67
Alignment explanation
Indices: 43032404--43032583 Score: 181
Period size: 68 Copynumber: 2.6 Consensus size: 67
43032394 CACTTAGTAC
* * * *
43032404 CACACATGTGACCTAGC--CAATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGG
1 CACACATGTGACCTAGCTACAATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCG
43032467 AAT
65 AAT
* * *
43032470 CACACATGCGACCTAGCTACATTTATCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C
1 CACACATGTGACCTAGCTACA-ATATATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCAC
*
43032533 -CGTAT
62 TCGAAT
43032538 CACACATGTGACCTAGCTACTACATAGTATCTCGTAGCTCTCTTGT
1 CACACATGTGACCTAGCTAC-A-ATA-TATCTCGTAGCTCTCTTGT
43032584 ACACATGATG
Statistics
Matches: 94, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
66 16 0.17
68 38 0.40
69 8 0.09
70 6 0.06
71 26 0.28
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (67 bp):
CACACATGTGACCTAGCTACAATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGA
AT
Found at i:43036474 original size:35 final size:35
Alignment explanation
Indices: 43036411--43036590 Score: 180
Period size: 35 Copynumber: 5.1 Consensus size: 35
43036401 TACTTACTTG
* * * *
43036411 TATGGTCAAATACACATGGTTCATTATATCATCACA
1 TATGGCCAAATATACA-AGTTCAATATATCATCACA
* * *
43036447 TATGGCCGAATATACAAGTACAATATATCATCATA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* * *
43036482 TATGACCAAATATACAAGTTCAATAAAACATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* * * * * * *
43036517 TGTAGTCGAATATTCAAGTTTAATATAACATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* *
43036552 TGTGGCCAAATATACAAGTTCAATACATCATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
43036587 TATG
1 TATG
43036591 TACATACCTA
Statistics
Matches: 115, Mismatches: 29, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
35 102 0.89
36 13 0.11
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (35 bp):
TATGGCCAAATATACAAGTTCAATATATCATCACA
Found at i:43054389 original size:35 final size:35
Alignment explanation
Indices: 43054339--43054494 Score: 127
Period size: 35 Copynumber: 4.5 Consensus size: 35
43054329 CATGGTTCAT
* *
43054339 TATATCATCACATATGGCCGAATATACAAGTACAA
1 TATACCATCACATATGACCGAATATACAAGTACAA
*
43054374 TATACCATCATATATGACCGAATATACAAGTACAA
1 TATACCATCACATATGACCGAATATACAAGTACAA
* * * * * **
43054409 TAAAACATCACACGTA-G-TCAAATATTCAAGTTTAA
1 TATACCATCACA--TATGACCGAATATACAAGTACAA
* * * * *
43054444 TATAACATCACATGTGGCCAAATATACAAGTTCAA
1 TATACCATCACATATGACCGAATATACAAGTACAA
* *
43054479 TACATCATCACATATG
1 TATACCATCACATATG
43054495 TACATACCTA
Statistics
Matches: 98, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
33 1 0.01
34 1 0.01
35 93 0.95
36 1 0.01
37 2 0.02
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.27
Consensus pattern (35 bp):
TATACCATCACATATGACCGAATATACAAGTACAA
Found at i:43078305 original size:93 final size:93
Alignment explanation
Indices: 43078141--43078312 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
43078131 CGCCCATAAG
* * * *
43078141 CGAACTCGGACTCAACTCAAAGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACGCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCA
*
43078206 ATGAGTTCGGATGCCTAGTTACATCTGA
66 ACGAGTTCGGATGCCTAGTTACATCTGA
* *
43078234 CGAACTCGGACGCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCA
1 CGAACTCGGACGCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCA
43078299 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
43078313 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACGCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTGA
Found at i:43078309 original size:46 final size:46
Alignment explanation
Indices: 43078134--43078309 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
43078124 TGTAACCCGC
* * * *
43078134 CCATAAGCGAACTCGGACTCAACTCAAAGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
43078180 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
43078230 -C-TGA-CGAACTCGGACGCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
43078273 CCATAAGTGAAATCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
43078310 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.57
47 27 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:43098416 original size:46 final size:47
Alignment explanation
Indices: 43098261--43098428 Score: 150
Period size: 46 Copynumber: 3.6 Consensus size: 47
43098251 AGGTTGACGC
* * * *
43098261 CATGTCCCAAACATGGTCTTACACTAGCTCTCAAATATCCGTGCCAATG
1 CATGTCCCAAACATGGTCTTACACTGGCT-T-ACATATTCGAGCCAATG
* * * **
43098310 CCATGTCCCAGACATGGTCTTACACTGAC--ACATCTT-GTAGCTGATG
1 -CATGTCCCAAACATGGTCTTACACTGGCTTACATATTCG-AGCCAATG
* *
43098356 CATGTCCTAGACAT-GTCTTACACTGGCTTACAT-TTCGAGGCCAATG
1 CATGTCCCAAACATGGTCTTACACTGGCTTACATATTCGA-GCCAATG
43098402 CATGTCCCAAACAT-GTCTTACACTGGC
1 CATGTCCCAAACATGGTCTTACACTGGC
43098429 AAACAAATAA
Statistics
Matches: 98, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
44 12 0.12
45 17 0.17
46 44 0.45
50 25 0.26
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (47 bp):
CATGTCCCAAACATGGTCTTACACTGGCTTACATATTCGAGCCAATG
Found at i:43105950 original size:46 final size:46
Alignment explanation
Indices: 43105894--43106063 Score: 154
Period size: 46 Copynumber: 3.7 Consensus size: 46
43105884 TGGTTGAGCA
*
43105894 TCCGAACTCGTTGAGTTGGGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* * *
43105940 TCCGAACTCGTTGAGTTGAGTCAGAGTT---C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G
* * *
43105985 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
43106033 -CCTGAGCTCGTTGAGTTGGGTCCGAGTTCAC
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCAC
43106064 TTAGAGGCGG
Statistics
Matches: 99, Mismatches: 13, Indels: 24
0.73 0.10 0.18
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 3 0.03
46 51 0.52
47 26 0.26
48 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:43106050 original size:93 final size:93
Alignment explanation
Indices: 43105891--43106061 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
43105881 GGATGGTTGA
* * *
43105891 GCATCCGAACTCGTTGAGTTGGGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAGT
43105956 TGAGTCAGAGTTCGTGAGATGTAACTAG
66 TGAGTCAGAGTTCGTGAGATGTAACTAG
* *
43105984 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCC-GAACTCGTTGAG
* *
43106048 TTGGGTCCGAGTTC
65 TTGAGTCAGAGTTC
43106062 ACTTAGAGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCAGAGTTCGTGAGATGTAACTAG
Found at i:43113634 original size:93 final size:93
Alignment explanation
Indices: 43113475--43113645 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
43113465 GGATGGTTGA
* *
43113475 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATAGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATAGATGCGAACGCCCGAACTCGTTGAGT
43113540 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * **
43113568 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGTTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATAGATGCGAACGCCCGAACTCGTTGAGT
43113633 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
43113646 ACTTAGGGGT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATAGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43113648 original size:46 final size:45
Alignment explanation
Indices: 43113479--43113650 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 45
43113469 GGTTGAGCAT
* * *
43113479 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATAGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAACGC
* * *
43113525 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAAC---GC
43113570 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAACGC
**
43113618 CCGAGTTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
43113651 GGGGTGGGTT
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 59 0.56
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAACGC
Found at i:43115116 original size:46 final size:44
Alignment explanation
Indices: 43115027--43115149 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 44
43115017 ACATATCCAT
43115027 GCCAATGCCATGTCCCAAACATGGTCTTACACTGACAAGTCTCGTA-
1 GCCAATG-CATGTCCCAAACAT-GTCTTACACTGACAAGTCTCG-AG
* *
43115073 GCCAATGCATGTCCGAAACATGTCTTACACTGGCTTACA-TCTCGAG
1 GCCAATGCATGTCCCAAACATGTCTTACACTGAC--A-AGTCTCGAG
* *
43115119 GCCTATGCATGTCCCAGACATGTCTTACACT
1 GCCAATGCATGTCCCAAACATGTCTTACACT
43115150 AGCACACAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
44 12 0.18
45 14 0.21
46 41 0.60
47 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (44 bp):
GCCAATGCATGTCCCAAACATGTCTTACACTGACAAGTCTCGAG
Found at i:43119928 original size:48 final size:48
Alignment explanation
Indices: 43119860--43119996 Score: 220
Period size: 48 Copynumber: 2.9 Consensus size: 48
43119850 CAAGATATAT
* * *
43119860 ATATATATGTGTGGTGAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
*
43119908 ATATGTGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
* *
43119956 ATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATAT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
43119997 GTATGGTAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
Found at i:43120009 original size:33 final size:33
Alignment explanation
Indices: 43119967--43120029 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
43119957 TATGTATATG
43119967 TGGTAAAGCCGAATGACGAATGTGAAATATGTA
1 TGGTAAAGCCGAATGACGAATGTGAAATATGTA
* *
43120000 TGGTAAAGCCGAATGGCTAATGTGAAATAT
1 TGGTAAAGCCGAATGACGAATGTGAAATAT
43120030 ATGTGTGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.25
Consensus pattern (33 bp):
TGGTAAAGCCGAATGACGAATGTGAAATATGTA
Found at i:43120021 original size:81 final size:81
Alignment explanation
Indices: 43119919--43120082 Score: 319
Period size: 81 Copynumber: 2.0 Consensus size: 81
43119909 TATGTGTATG
*
43119919 TGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGAC
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCAAATGAC
43119984 GAATGTGAAATATGTA
66 GAATGTGAAATATGTA
43120000 TGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCAAATGAC
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCAAATGAC
43120065 GAATGTGAAATATGTA
66 GAATGTGAAATATGTA
43120081 TG
1 TG
43120083 AGATATGTAT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (81 bp):
TGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCAAATGAC
GAATGTGAAATATGTA
Found at i:43120070 original size:48 final size:48
Alignment explanation
Indices: 43120000--43120313 Score: 493
Period size: 48 Copynumber: 6.5 Consensus size: 48
43119990 GAAATATGTA
* *
43120000 TGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
* * * *
43120048 TGGTAAAGCCAAATGACGAATGTGAAATATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
*
43120096 TGGTAAAGCCGAATGGCTAATGTGGAATATATATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
* * *
43120144 TGGTAAAACCGAATGGCTAATGTGAAATATATGTGTGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
* * *
43120192 TGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATA
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
* *
43120240 TGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
43120288 TGGTAAAGCCGAATGGCTAATGTGAA
1 TGGTAAAGCCGAATGGCTAATGTGAA
43120314 TGTTGTAACA
Statistics
Matches: 243, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 243 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
TGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
Found at i:43130744 original size:80 final size:80
Alignment explanation
Indices: 43130611--43130774 Score: 310
Period size: 80 Copynumber: 2.0 Consensus size: 80
43130601 CATCAATACA
43130611 CATCCCAAACCATTCAATGAGGCATAGCTGTAAACTATAAATTCCTTACCCGATTTAGGTTGGAC
1 CATCCCAAACCATTCAATGAGGCATAGCTGTAAACTATAAATTCCTTACCCGATTTAGGTTGGAC
*
43130676 TAATATAGGCGTTTC
66 TAATATAGGAGTTTC
*
43130691 CATCCCAAACCATTCAATGAGGCATAGCTGTAAACTATAAATTTCTTACCCGATTTAGGTTGGAC
1 CATCCCAAACCATTCAATGAGGCATAGCTGTAAACTATAAATTCCTTACCCGATTTAGGTTGGAC
43130756 TAATATAGGAGTTTC
66 TAATATAGGAGTTTC
43130771 CATC
1 CATC
43130775 AATAAAGCTT
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (80 bp):
CATCCCAAACCATTCAATGAGGCATAGCTGTAAACTATAAATTCCTTACCCGATTTAGGTTGGAC
TAATATAGGAGTTTC
Found at i:43132512 original size:43 final size:42
Alignment explanation
Indices: 43132449--43132568 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 42
43132439 TACCATACCA
** * *
43132449 ATGCCATATACCAAATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATAGCCCAGATATGGTCTTACATGTAATCTCATATCG
* **
43132491 ATGCCAATAGCCCAGCTATGGTCTTAC-TCAAAGTCTCATATCG
1 ATGCC-ATAGCCCAGATATGGTCTTACATGTAA-TCTCATATCG
* *
43132534 ATGCCATATCCCAGATATGGTCTTACACGTAATCT
1 ATGCCATAGCCCAGATATGGTCTTACATGTAATCT
43132569 TAGTAACCCT
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATAGCCCAGATATGGTCTTACATGTAATCTCATATCG
Found at i:43135570 original size:48 final size:48
Alignment explanation
Indices: 43135508--43136073 Score: 900
Period size: 48 Copynumber: 11.8 Consensus size: 48
43135498 ATGTTACAAC
* * * *
43135508 ATTT-ACATTAGCCATTCAGCTTTACCACATATACATATCTCATACAT
1 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATAT
*
43135555 ATTTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATAT
1 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATAT
43135603 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATAT
1 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATAT
* * *
43135651 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
1 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATAT
* * *
43135699 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
1 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATAT
* *
43135747 ATTTCACATTCGTCATTCGGCTTTACCACATATACATATCACACATAT
1 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATAT
43135795 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATAT
1 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATAT
* *
43135843 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATAT
* * *
43135891 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
1 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATAT
* * *
43135939 ATTTCACATTCGTCATTCAGCTTTACCACATATACATATCACACATAT
1 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATAT
*
43135987 ATTTCACATTAGCCATTCGGCTTTACCACATACACATATCACACATAT
1 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATAT
* * *
43136035 ATTTCACATTAGCCATTCGGCTTCACCACACATATATAT
1 ATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
43136074 TTATCTTGTA
Statistics
Matches: 485, Mismatches: 33, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
47 4 0.01
48 481 0.99
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATAT
Found at i:43142290 original size:43 final size:41
Alignment explanation
Indices: 43142228--43142347 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 41
43142218 TACAATACCA
* *
43142228 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACA-GTAATCTCATATCG
* *
43142270 ATGCCAATAGCCCAGCTATGGTC-T-CAGTCAAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACAGT--AA-TCTCATATCG
43142313 ATGCCATATCCCAGATATGGTCTTACACGTAATCT
1 ATGCCATATCCCAGATATGGTCTTACA-GTAATCT
43142348 TAGTAGCCCT
Statistics
Matches: 65, Mismatches: 6, Indels: 14
0.76 0.07 0.16
Matches are distributed among these distances:
40 2 0.03
41 2 0.03
42 26 0.40
43 31 0.48
44 2 0.03
45 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACAGTAATCTCATATCG
Found at i:43145373 original size:13 final size:13
Alignment explanation
Indices: 43145355--43145380 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43145345 TACTCGGACA
43145355 CTGTCATATTTCC
1 CTGTCATATTTCC
43145368 CTGTCATATTTCC
1 CTGTCATATTTCC
43145381 TTATTTGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.08, T:0.46
Consensus pattern (13 bp):
CTGTCATATTTCC
Found at i:43147600 original size:38 final size:38
Alignment explanation
Indices: 43147557--43147632 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
43147547 TTCATCCTTT
43147557 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGAAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGAAGGAA
*
43147595 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGAAGGAA
43147633 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGAAGGAA
Found at i:43148913 original size:40 final size:40
Alignment explanation
Indices: 43148819--43148963 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
43148809 TACTCGAATG
* *
43148819 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
43148860 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
43148900 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
43148940 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
43148964 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:43156367 original size:49 final size:47
Alignment explanation
Indices: 43156307--43156857 Score: 877
Period size: 47 Copynumber: 11.6 Consensus size: 47
43156297 GATAATTGTG
* *
43156307 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
43156354 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
43156401 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
43156450 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
43156499 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
43156548 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
43156595 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
43156644 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCTATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
43156691 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
43156738 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
43156785 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
43156832 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
43156858 TCCCGAAGGG
Statistics
Matches: 474, Mismatches: 26, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 286 0.60
49 188 0.40
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:43156414 original size:96 final size:96
Alignment explanation
Indices: 43156307--43156857 Score: 907
Period size: 96 Copynumber: 5.8 Consensus size: 96
43156297 GATAATTGTG
43156307 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
43156370 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
43156401 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
43156466 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
43156499 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
43156564 ATGTGATAAGGCCGAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
43156595 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
43156660 ATGTGATAAGGCCTAATGGCCTATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
43156691 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
43156754 ATGTGATGAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
43156785 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
43156848 ATGTGATAAG
66 ATGTGATAAG
43156858 TCCCGAAGGG
Statistics
Matches: 433, Mismatches: 20, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
94 148 0.34
95 2 0.00
96 190 0.44
98 93 0.21
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:43161508 original size:40 final size:40
Alignment explanation
Indices: 43161414--43161558 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
43161404 TACTCGAATG
* *
43161414 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
43161455 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
43161495 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
43161535 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
43161559 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:43177390 original size:29 final size:29
Alignment explanation
Indices: 43177357--43177413 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
43177347 AATGAATGAG
43177357 ATTGGTGAGTTTAGTTTCCATTATACGAT
1 ATTGGTGAGTTTAGTTTCCATTATACGAT
43177386 ATTGGTGAGTTTAGTTTCCATTATACGA
1 ATTGGTGAGTTTAGTTTCCATTATACGA
43177414 ACTTACGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.44
Consensus pattern (29 bp):
ATTGGTGAGTTTAGTTTCCATTATACGAT
Found at i:43182247 original size:21 final size:21
Alignment explanation
Indices: 43182221--43182297 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
43182211 CGGCCTGTAG
* * *
43182221 CACGGGCATGTCCCAGTGTTA
1 CACGGGCGTGTCCCAGGGTCA
*
43182242 CACGGGTGTGTCCCAGGGTCA
1 CACGGGCGTGTCCCAGGGTCA
*
43182263 CACGGGTGTGTCCCAGGGTCA
1 CACGGGCGTGTCCCAGGGTCA
43182284 CACGGGCGTGTCCC
1 CACGGGCGTGTCCC
43182298 TTGGACCATA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.14, C:0.31, G:0.35, T:0.19
Consensus pattern (21 bp):
CACGGGCGTGTCCCAGGGTCA
Found at i:43184086 original size:37 final size:37
Alignment explanation
Indices: 43184040--43184110 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
43184030 TGTTTTCGAT
*
43184040 TGGACTAGCTATTT-GGAGCAATTGGCGTCTTATCGGG
1 TGGACTAGCT-TTTCAGAGCAATTGGCGTCTTATCGGG
* * *
43184077 TGGATTAGCTTTTCAGAGTAATTGGCGTGTTATC
1 TGGACTAGCTTTTCAGAGCAATTGGCGTCTTATC
43184111 AAGCGGATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 3 0.10
37 26 0.90
ACGTcount: A:0.20, C:0.14, G:0.30, T:0.37
Consensus pattern (37 bp):
TGGACTAGCTTTTCAGAGCAATTGGCGTCTTATCGGG
Found at i:43188740 original size:24 final size:24
Alignment explanation
Indices: 43188713--43188758 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
43188703 TATGTAGTGT
*
43188713 ATCATGGAGAGATATTA-GGAGAAA
1 ATCAAGGAGAGAT-TTATGGAGAAA
*
43188737 ATCAAGGAGTGATTTATGGAGA
1 ATCAAGGAGAGATTTATGGAGA
43188759 GATTTAAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.41, C:0.04, G:0.30, T:0.24
Consensus pattern (24 bp):
ATCAAGGAGAGATTTATGGAGAAA
Found at i:43193492 original size:47 final size:48
Alignment explanation
Indices: 43193428--43193518 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
43193418 TGCAAACCAA
43193428 TGGTGGCTTGCCCACAAAGTGTT-TCAGTGGCAGTATATCTGCATATG
1 TGGTGGCTTGCCCACAAAGTGTTATCAGTGGCAGTATATCTGCATATG
** * *
43193475 TGGTGGCTTTTCCACAAAGTGTTATCAGTGGCAGTTTATTTGCA
1 TGGTGGCTTGCCCACAAAGTGTTATCAGTGGCAGTATATCTGCA
43193519 AATCAATGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 21 0.54
48 18 0.46
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (48 bp):
TGGTGGCTTGCCCACAAAGTGTTATCAGTGGCAGTATATCTGCATATG
Found at i:43197765 original size:27 final size:27
Alignment explanation
Indices: 43197735--43197788 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
43197725 ATGAATAAAA
*
43197735 TACCCCTATAGGGTAAAATGACT-ATTT
1 TACCCCTAGAGGGT-AAATGACTGATTT
*
43197762 TACCCCTCGAGGGTAAATGACTGATTT
1 TACCCCTAGAGGGTAAATGACTGATTT
43197789 GTGCTATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (27 bp):
TACCCCTAGAGGGTAAATGACTGATTT
Found at i:43197972 original size:26 final size:26
Alignment explanation
Indices: 43197941--43197990 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
43197931 TTTACCACAT
43197941 ATACTGTTACTCGCAGCTTTGCTGAG
1 ATACTGTTACTCGCAGCTTTGCTGAG
* *
43197967 ATACTGTTACTGGTAGCTTTGCTG
1 ATACTGTTACTCGCAGCTTTGCTG
43197991 CGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (26 bp):
ATACTGTTACTCGCAGCTTTGCTGAG
Found at i:43198006 original size:26 final size:26
Alignment explanation
Indices: 43197955--43198019 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
43197945 TGTTACTCGC
* * *
43197955 AGCTTTGCTGAGATACTGTTACTGGT
1 AGCTTTGCTGCGAAACTATTACTGGT
*
43197981 AGCTTTGCTGCGAAACTATTATTGGT
1 AGCTTTGCTGCGAAACTATTACTGGT
*
43198007 AGCCTTGCTGCGA
1 AGCTTTGCTGCGA
43198020 TATTGGTGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.35
Consensus pattern (26 bp):
AGCTTTGCTGCGAAACTATTACTGGT
Found at i:43200457 original size:27 final size:29
Alignment explanation
Indices: 43200407--43200460 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
43200397 CACTATGTGC
*
43200407 TATATTGGTGTGTTTTGGATGGATTATAT
1 TATACTGGTGTGTTTTGGATGGATTATAT
43200436 TATACTGGTGTG-TTTGGA-GGATTAT
1 TATACTGGTGTGTTTTGGATGGATTAT
43200461 TTAATTACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 7 0.29
28 6 0.25
29 11 0.46
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (29 bp):
TATACTGGTGTGTTTTGGATGGATTATAT
Found at i:43200860 original size:26 final size:25
Alignment explanation
Indices: 43200803--43200861 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
43200793 AAGTATGAAA
**
43200803 AAGTGAAATTATGAATTGAAATGTG
1 AAGTGAAATTATGAATTGAAATAAG
*
43200828 AATTGAAATTGA-GATATTGAAATAAG
1 AAGTGAAATT-ATGA-ATTGAAATAAG
43200854 AAGTGAAA
1 AAGTGAAA
43200862 ATAGAATGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (25 bp):
AAGTGAAATTATGAATTGAAATAAG
Found at i:43202938 original size:29 final size:31
Alignment explanation
Indices: 43202890--43202953 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
43202880 TTTATAATTA
*
43202890 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
43202921 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
43202950 TTTA
1 TTTA
43202954 TTTAGTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:43202942 original size:8 final size:8
Alignment explanation
Indices: 43202931--43202955 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
43202921 TTTAATAAGA
43202931 TATTTTAT
1 TATTTTAT
43202939 TATTTTAT
1 TATTTTAT
43202947 TATTTTAT
1 TATTTTAT
43202955 T
1 T
43202956 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:43206437 original size:26 final size:26
Alignment explanation
Indices: 43206408--43206483 Score: 125
Period size: 26 Copynumber: 2.9 Consensus size: 26
43206398 TTCGCCACAT
43206408 ATACTGTTACTGGCGGATTTGCTGAG
1 ATACTGTTACTGGCGGATTTGCTGAG
*
43206434 ATACTGTTATTGGCGGATTTGCTGAG
1 ATACTGTTACTGGCGGATTTGCTGAG
* *
43206460 ATACTGTTACTGGCAGCTTTGCTG
1 ATACTGTTACTGGCGGATTTGCTG
43206484 CGGTATTGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.18, C:0.16, G:0.29, T:0.37
Consensus pattern (26 bp):
ATACTGTTACTGGCGGATTTGCTGAG
Found at i:43207762 original size:52 final size:52
Alignment explanation
Indices: 43207677--43207778 Score: 159
Period size: 52 Copynumber: 2.0 Consensus size: 52
43207667 GATCACATAG
* * * *
43207677 CTGTGTCTTACCCTGTGTAGCTCTCTGACGGGTCACACGGCCATCCACACGT
1 CTGTGTCCTACCCTGTGTAACTCTCTAACGGGTCACACGGCCAACCACACGT
*
43207729 CTGTGTCCTACCCTGTGTAACTCTCTAAGGGGTCACACGGCCAACCACAC
1 CTGTGTCCTACCCTGTGTAACTCTCTAACGGGTCACACGGCCAACCACAC
43207779 ACTTGTGTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.19, C:0.35, G:0.22, T:0.25
Consensus pattern (52 bp):
CTGTGTCCTACCCTGTGTAACTCTCTAACGGGTCACACGGCCAACCACACGT
Found at i:43221840 original size:15 final size:15
Alignment explanation
Indices: 43221822--43221850 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
43221812 GCCTTTGGGC
43221822 CCCACATGAGAAAAT
1 CCCACATGAGAAAAT
43221837 CCCACATGAGAAAA
1 CCCACATGAGAAAA
43221851 CCAGACGGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.28, G:0.14, T:0.10
Consensus pattern (15 bp):
CCCACATGAGAAAAT
Found at i:43223457 original size:13 final size:13
Alignment explanation
Indices: 43223441--43223466 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43223431 TTGATTCCAA
43223441 AAGTGCTATGTTT
1 AAGTGCTATGTTT
43223454 AAGTGCTATGTTT
1 AAGTGCTATGTTT
43223467 TATGCTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
AAGTGCTATGTTT
Found at i:43226059 original size:39 final size:40
Alignment explanation
Indices: 43225964--43226264 Score: 390
Period size: 39 Copynumber: 7.7 Consensus size: 40
43225954 TTGAATGATG
*
43225964 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
43226002 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
43226043 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
43226082 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
43226121 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
43226160 TCCGGGCTAAG-CTCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
43226199 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
43226238 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
43226265 AACGAGGAGC
Statistics
Matches: 238, Mismatches: 15, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
39 168 0.71
40 58 0.24
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:43234127 original size:39 final size:40
Alignment explanation
Indices: 43234032--43234293 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
43234022 TTGAATGATG
*
43234032 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
43234070 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
43234111 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
43234150 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
43234189 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
43234228 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
43234267 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
43234294 AATGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:43244183 original size:40 final size:40
Alignment explanation
Indices: 43244120--43244215 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
43244110 ACTCGATATC
* *
43244120 TCGCA-ACTAAGTGTCGTACATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
* * *
43244159 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
43244199 TCGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
43244216 CAAATAACTG
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 5 0.10
40 46 0.90
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
Found at i:43247976 original size:22 final size:22
Alignment explanation
Indices: 43247948--43247990 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
43247938 CCATTCTTGT
43247948 TTCAGCTCTACAGAGCTTACCG
1 TTCAGCTCTACAGAGCTTACCG
*
43247970 TTCAGCTCTTCAGAGCTTACC
1 TTCAGCTCTACAGAGCTTACC
43247991 ATTTATCAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.33, G:0.16, T:0.30
Consensus pattern (22 bp):
TTCAGCTCTACAGAGCTTACCG
Found at i:43255352 original size:46 final size:45
Alignment explanation
Indices: 43255285--43255460 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
43255275 TGTAACCCGC
* * *
43255285 CCATAAGCGAAATCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTT-ACAT
* *
43255331 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-G--GAC--GTTACAT
* * *
43255381 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAC-GTTACAT
* *
43255424 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
43255461 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
43 6 0.05
44 3 0.03
45 2 0.02
46 60 0.55
47 27 0.25
48 2 0.02
49 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTACAT
Found at i:43255425 original size:93 final size:93
Alignment explanation
Indices: 43255292--43255463 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
43255282 CGCCCATAAG
* * *
43255292 CGAAATCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAAATCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCA
43255357 ACGAGTTCAGATGCCTAGTTACATCTCA
66 ACGAGTTCAGATGCCTAGTTACATCTCA
* * **
43255385 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAAATCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCA
*
43255450 ACGAGTTCGGATGC
66 ACGAGTTCAGATGC
43255464 TCAACCATCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAAATCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:43256450 original size:28 final size:28
Alignment explanation
Indices: 43256385--43256535 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
43256375 GAGATTGGCG
* * * *
43256385 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
43256414 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
43256442 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
43256470 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
43256498 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
43256525 CTGAGTGTGCG
1 CTAAGTGTGCG
43256536 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.20
28 75 0.66
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:43258325 original size:29 final size:29
Alignment explanation
Indices: 43258266--43258339 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
43258256 GTTGTGAGTT
* *
43258266 TGGCACTAGGTGTGCGAACTTGAAATGCA
1 TGGCACTAAGTGTGCGAACTTGAAATACA
* *
43258295 TGGCACTAAGTGTGCG-AGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAACTTGAAA-TACA
*
43258324 TGGCAATAAGTGTGCG
1 TGGCACTAAGTGTGCG
43258340 CGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.15
29 33 0.85
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAACTTGAAATACA
Found at i:43261852 original size:22 final size:22
Alignment explanation
Indices: 43261827--43261869 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
43261817 TTTCTGTTTC
43261827 AGCTTTACGAAGCTTACCGTTA
1 AGCTTTACGAAGCTTACCGTTA
* *
43261849 AGCTTTTCGGAGCTTACCGTT
1 AGCTTTACGAAGCTTACCGTT
43261870 TATTAGCTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (22 bp):
AGCTTTACGAAGCTTACCGTTA
Found at i:43262841 original size:27 final size:27
Alignment explanation
Indices: 43262811--43263151 Score: 346
Period size: 27 Copynumber: 12.7 Consensus size: 27
43262801 TTTGGTTTAC
* *
43262811 AAAATTACAAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * *
43262838 AAAATTACTAAAATACCCTTTGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
43262865 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * **
43262892 AAAATTACCAAAATATCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
*
43262919 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * *
43262946 AAAATTA-CTAAATACCCTTTGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
43262972 AAAATTACCAAAATACCCCTGGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
43262999 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
43263026 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
43263053 AAAATTATCAAAATATCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* ** **
43263080 GAAATTACTGAAATA-CCCTCGACTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
*** **
43263107 AAAATTATTGAAATA-CCCTCGACTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
*
43263134 AAAATTACCAAAGTACCC
1 AAAATTACCAAAATACCC
43263152 TTGATTTACA
Statistics
Matches: 271, Mismatches: 40, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
26 27 0.10
27 242 0.89
28 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:43263002 original size:107 final size:108
Alignment explanation
Indices: 43262802--43263072 Score: 422
Period size: 107 Copynumber: 2.5 Consensus size: 108
43262792 TTAGAATACT
*
43262802 TTGGTTTACAAAATTACAAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATAA
1 TTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATAA
*
43262867 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATATCC-
66 AATTACCAAAATACCCCTGGTTTATAAAATTACCAAAATA-CCA
* *
43262910 TTGGTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACT-AAATACCCTTTGTTTATAA
1 TTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATAA
43262974 AATTACCAAAATACCCCTGGTTTATAAAATTACCAAAATACCA
66 AATTACCAAAATACCCCTGGTTTATAAAATTACCAAAATACCA
* ** *
43263017 CTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTA-TCAAAATATCCCT
1 TTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACT-AAAATA-CCCT
43263073 GATTTGTGAA
Statistics
Matches: 149, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
106 3 0.02
107 95 0.64
108 47 0.32
109 4 0.03
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (108 bp):
TTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATAA
AATTACCAAAATACCCCTGGTTTATAAAATTACCAAAATACCA
Found at i:43263325 original size:81 final size:81
Alignment explanation
Indices: 43263178--43263331 Score: 213
Period size: 81 Copynumber: 1.9 Consensus size: 81
43263168 CCGTTTTACC
* * *
43263178 ATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCTCTATAGGATGGAATTATCGGAAT
1 ATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAGGATAGAATTATCGAAAT
*
43263243 ACCTCTGTAGGGTAAA
66 ACCCCTGTAGGGTAAA
* * *
43263259 ATTACCGGAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGCG-TAGAATTA-CTGAA
1 ATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAG-GATAGAATTATC-GAA
43263322 ATACCCCTGT
64 ATACCCCTGT
43263332 TGGTATATGA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 1 0.02
81 62 0.97
82 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (81 bp):
ATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAGGATAGAATTATCGAAAT
ACCCCTGTAGGGTAAA
Found at i:43263328 original size:27 final size:27
Alignment explanation
Indices: 43263178--43263331 Score: 182
Period size: 27 Copynumber: 5.7 Consensus size: 27
43263168 CCGTTTTACC
*
43263178 ATTACCGAAATACCCTTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* * * * *
43263205 AATACCGAAATACCTCTATAGGATGGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* * * *
43263232 ATTATCGGAATACCTCTGTAGGGTAAA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* *
43263259 ATTACCGGAATACCCTTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
*
43263286 ATTACCGAAATACCCCTGTAGCGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
*
43263313 ATTACTGAAATACCCCTGT
1 ATTACCGAAATACCCCTGT
43263332 TGGTATATGA
Statistics
Matches: 106, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
ATTACCGAAATACCCCTGTAGGGTAGA
Found at i:43263715 original size:22 final size:22
Alignment explanation
Indices: 43263663--43263727 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
43263653 TTAAAGCCTT
* *
43263663 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
* *
43263685 CT-ACATATGGCTCTATGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
43263707 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
43263728 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:43263916 original size:27 final size:27
Alignment explanation
Indices: 43263886--43263987 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
43263876 ATTCTATTAA
* *
43263886 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
43263913 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
* *
43263940 GTGGCTCTACCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
43263967 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
43263988 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.12
27 50 0.77
28 7 0.11
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:43264170 original size:31 final size:31
Alignment explanation
Indices: 43264124--43264195 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
43264114 TTGCATTCAC
*
43264124 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTATTACCTGATACTG
43264156 ATTCTGATTTTGATTCTATTACCTGATACTG
1 ATTCTGATTTTGATTCTATTACCTGATACTG
43264187 ATTCTGATT
1 ATTCTGATT
43264196 CTGTCACCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
31 32 0.82
32 7 0.18
ACGTcount: A:0.21, C:0.15, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTATTACCTGATACTG
Found at i:43264181 original size:25 final size:25
Alignment explanation
Indices: 43264153--43264220 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
43264143 TTACCTGATA
* *
43264153 CTGATTCTGATTTTGATTCTATTAC
1 CTGATTCTGATTCTGATTCTATCAC
* *
43264178 CTGATACTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTATCAC
**
43264203 CAAATTCTGATTCTGATT
1 CTGATTCTGATTCTGATT
43264221 ATGATTCTAG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.13, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTATCAC
Found at i:43264218 original size:6 final size:6
Alignment explanation
Indices: 43264124--43264198 Score: 55
Period size: 6 Copynumber: 12.0 Consensus size: 6
43264114 TTGCATTCAC
* * *
43264124 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCT-
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
43264173 ATTACCTG ATACTG ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG
43264199 TCACCAAATT
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
5 5 0.09
6 36 0.67
7 10 0.19
8 3 0.06
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:43267746 original size:40 final size:40
Alignment explanation
Indices: 43267687--43267874 Score: 322
Period size: 40 Copynumber: 4.7 Consensus size: 40
43267677 GAGCATTGGA
* *
43267687 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
43267727 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
43267767 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
43267807 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
43267847 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
43267875 ATGTGTTTGC
Statistics
Matches: 142, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
Found at i:43272028 original size:40 final size:40
Alignment explanation
Indices: 43271930--43272192 Score: 291
Period size: 40 Copynumber: 6.6 Consensus size: 40
43271920 TCCTCGTTCA
* * * ** *
43271930 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* *
43271969 AATGCCTTTGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
43272009 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
43272049 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
43272089 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
43272129 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
43272169 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
43272193 CAGCATTCAA
Statistics
Matches: 195, Mismatches: 24, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
39 36 0.18
40 151 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:43272075 original size:80 final size:79
Alignment explanation
Indices: 43271930--43272192 Score: 325
Period size: 80 Copynumber: 3.3 Consensus size: 79
43271920 TCCTCGTTCA
* * * * * *
43271930 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTTGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
43271995 TAACAACTCGCACG
66 TAACAACTCGCACG
*
43272009 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
43272074 TTAACAACTCGCACG
65 TTAACAACTCGCACG
* * *
43272089 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGA-CTTAACCCGGA
* * *
43272153 TATATTC-ACTTAGCAC-
64 TTTA-ACAAC-TCGCACG
* *
43272169 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
43272193 CAGCATTCAA
Statistics
Matches: 163, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
79 37 0.23
80 120 0.74
81 6 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACG
Found at i:43279263 original size:40 final size:40
Alignment explanation
Indices: 43279208--43279399 Score: 314
Period size: 40 Copynumber: 4.8 Consensus size: 40
43279198 CATGAGCATT
* *
43279208 GTTGATATATCCGGGCTATGACCCGAAGGCAATTACGCGA
1 GTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGA
*
43279248 GTTGATATATCCGGGCTATGACCCGAAGGCAATTATGCGA
1 GTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGA
*
43279288 GTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCAA
1 GTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGA
43279328 GTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGC-A
1 GTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGA
* *
43279367 GGTTGATATGTCCGGGTTAAGACCCGAAGGCAA
1 -GTTGATATATCCGGGCTAAGACCCGAAGGCAA
43279400 ATGTGTTTGC
Statistics
Matches: 146, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
39 1 0.01
40 145 0.99
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (40 bp):
GTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGA
Found at i:43281332 original size:27 final size:27
Alignment explanation
Indices: 43281302--43281587 Score: 349
Period size: 27 Copynumber: 10.6 Consensus size: 27
43281292 TTAGTTTACC
*
43281302 AAATTATCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** * *
43281329 AAATTATGAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
43281356 AAATCACCAAAATACTCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** **
43281383 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
43281410 AAATTACAAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
43281437 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
43281464 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
43281491 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
43281518 AAATTATCAAAATACCCCTAGTTTG-A
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
43281544 AAATTACCAAAATATCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
43281571 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
43281588 TCGACCTGTA
Statistics
Matches: 221, Mismatches: 37, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 23 0.10
27 198 0.90
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:43281640 original size:27 final size:27
Alignment explanation
Indices: 43281302--43281648 Score: 235
Period size: 27 Copynumber: 12.9 Consensus size: 27
43281292 TTAGTTTACC
* *
43281302 AAATTATCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
** * * *
43281329 AAATTATGAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
43281356 AAATCACCAAAATACTCCT-GGTTTGTA
1 AAATTACCAAAATAC-CCTCGATTTGTA
* * * **
43281383 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
43281410 AAATTACAAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
43281437 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
*
43281464 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
43281491 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
43281518 AAATTATCAAAATACCC-CTAGTTTG-A
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
43281544 AAATTACCAAAATATCCCT-AATTTGTG
1 AAATTACCAAAATA-CCCTCGATTTGTA
** **
43281571 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *** *
43281598 AATTTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
43281625 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCTCGATTT
43281649 ACAGAATTAT
Statistics
Matches: 263, Mismatches: 44, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
26 25 0.10
27 234 0.89
28 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:43281719 original size:27 final size:27
Alignment explanation
Indices: 43281689--43281928 Score: 320
Period size: 27 Copynumber: 8.9 Consensus size: 27
43281679 AAATGATCGA
*
43281689 AATA-CCCTCGTAGGGTAGAAATACCGG
1 AATACCCCT-GTAGGGTAGAATTACCGG
*
43281716 AATACCCCTGTAGGGTAAAATTACCGG
1 AATACCCCTGTAGGGTAGAATTACCGG
*
43281743 AATACCCCTGTAGGGTGGAATTACCGG
1 AATACCCCTGTAGGGTAGAATTACCGG
43281770 AATACCCCTGTAGGGTAGAATTACCGG
1 AATACCCCTGTAGGGTAGAATTACCGG
* *
43281797 AATACCCCTGTAGGGTAGAATTATCGC
1 AATACCCCTGTAGGGTAGAATTACCGG
* *
43281824 AATACCCCTGTAGGGTAGAATTATCGC
1 AATACCCCTGTAGGGTAGAATTACCGG
* * *
43281851 AATACCCATGTAGGGTAGAATTACTGA
1 AATACCCCTGTAGGGTAGAATTACCGG
* * ***
43281878 AATACCCTTGTATGGTAGAATTACTAA
1 AATACCCCTGTAGGGTAGAATTACCGG
*
43281905 AATACCCCTGTAGGGTGGAATTAC
1 AATACCCCTGTAGGGTAGAATTAC
43281929 TGAGATACCT
Statistics
Matches: 195, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
27 191 0.98
28 4 0.02
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAGAATTACCGG
Found at i:43281929 original size:54 final size:54
Alignment explanation
Indices: 43281686--43281955 Score: 303
Period size: 54 Copynumber: 5.0 Consensus size: 54
43281676 ACAAAATGAT
* * * *
43281686 CGAAATA-CCCTCGTAGGGTAGAAATACCGGAATACCCCTGTAGGGTAAAATTAC
1 CGAAATACCCCT-GTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC
* * * *
43281740 CGGAATACCCCTGTAGGGTGGAATTACCGGAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC
* * *
43281794 CGGAATACCCCTGTAGGGTAGAATTA-TCGCAATACCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTACT-GAAATACCCCTGTAGGGTAGAATTAC
* * * *
43281848 CGCAATACCCATGTAGGGTAGAATTACTGAAATACCCTTGTATGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC
** * * * * *
43281902 TAAAATACCCCTGTAGGGTGGAATTACTGAGATA-CCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC
43281955 C
1 C
43281956 ATTTTGCCCC
Statistics
Matches: 189, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
53 16 0.08
54 168 0.89
55 5 0.03
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (54 bp):
CGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC
Found at i:43281937 original size:81 final size:80
Alignment explanation
Indices: 43281690--43281955 Score: 306
Period size: 81 Copynumber: 3.3 Consensus size: 80
43281680 AATGATCGAA
* * * *
43281690 ATACCCTCGTAGGGTAGAAATACCGGAATACCCCTGTAGGGTAAAATTACCGGAATACCCCTGTA
1 ATACCCT-GTAGGGTAGAATTACCGGAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTA
*
43281755 GGGTGGAATTACCG-G
65 GGGTGGAATTACTGAG
*
43281770 AATACCCCTGTAGGGTAGAATTACCGGAATACCCCTGTAGGGTAGAATTA-TCGCAATACCCCTG
1 -ATA-CCCTGTAGGGTAGAATTACCGGAATACCCCTGTAGGGTAGAATTACT-GAAATACCCCTG
*
43281834 TAGGGTAGAATTA-TCGCA-
63 TAGGGTGGAATTACT-G-AG
* * * * *
43281852 ATACCCATGTAGGGTAGAATTACTGAAATACCCTTGTATGGTAGAATTACTAAAATACCCCTGTA
1 ATACCC-TGTAGGGTAGAATTACCGGAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTA
43281917 GGGTGGAATTACTGAG
65 GGGTGGAATTACTGAG
* * *
43281933 ATACCTTGTGGGGTAAAATTACC
1 ATACCCTGTAGGGTAGAATTACC
43281956 ATTTTGCCCC
Statistics
Matches: 159, Mismatches: 17, Indels: 19
0.82 0.09 0.10
Matches are distributed among these distances:
80 18 0.11
81 135 0.85
82 6 0.04
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (80 bp):
ATACCCTGTAGGGTAGAATTACCGGAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAG
GGTGGAATTACTGAG
Found at i:43282434 original size:22 final size:22
Alignment explanation
Indices: 43282382--43282446 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
43282372 TTAAAGCCTT
*
43282382 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
43282404 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
43282426 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
43282447 ACGTATCTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 35 0.95
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:43282635 original size:27 final size:27
Alignment explanation
Indices: 43282605--43282706 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
43282595 GTTCTGTTAA
*
43282605 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTTTGCCACAATATCTGTTTCTG
*
43282632 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTTTGCCAC-AATATCTGTTTCTG
* * *
43282659 GTGGCTCTACCACAATATCTGTATCTG
1 GTGGCTTTGCCACAATATCTGTTTCTG
* **
43282686 GTGACTTTATCACAATATCTG
1 GTGGCTTTGCCACAATATCTG
43282707 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.12
27 50 0.77
28 7 0.11
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (27 bp):
GTGGCTTTGCCACAATATCTGTTTCTG
Found at i:43282889 original size:31 final size:31
Alignment explanation
Indices: 43282851--43282914 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
43282841 ACATTCTGTT
43282851 TTTTGATTCTATTACCTGATACTGATTCGGA
1 TTTTGATTCTATTACCTGATACTGATTCGGA
* *
43282882 TTTTGATTCTGTTACCTGATACTGATTCTGA
1 TTTTGATTCTATTACCTGATACTGATTCGGA
43282913 TT
1 TT
43282915 CTGTCACCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (31 bp):
TTTTGATTCTATTACCTGATACTGATTCGGA
Found at i:43282900 original size:25 final size:25
Alignment explanation
Indices: 43282872--43282939 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
43282862 TTACCTGATA
* * *
43282872 CTGATTCGGATTTTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGTCAC
*
43282897 CTGATACTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTGTCAC
*
43282922 CTAATTCTGATTCTGATT
1 CTGATTCTGATTCTGATT
43282940 ATGATTCTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTGTCAC
Found at i:43282914 original size:6 final size:6
Alignment explanation
Indices: 43282866--43282956 Score: 53
Period size: 6 Copynumber: 14.8 Consensus size: 6
43282856 ATTCTATTAC
* * * *
43282866 CTGATA CTGATT CGGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
43282915 CTG-TCAC CTAATT CTGATT CTGATT ATGATT CT-AGTT CTGAT
1 CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
43282957 AATGTTTCTT
Statistics
Matches: 64, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
5 4 0.06
6 52 0.81
7 6 0.09
8 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (6 bp):
CTGATT
Found at i:43282965 original size:18 final size:18
Alignment explanation
Indices: 43282925--43282977 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
43282915 CTGTCACCTA
* *
43282925 ATTCTGATTCTGATTATG
1 ATTCTTATTCTGATAATG
43282943 ATTC-TAGTTCTGATAATG
1 ATTCTTA-TTCTGATAATG
*
43282961 TTTCTTATTCTG-TAATG
1 ATTCTTATTCTGATAATG
43282978 GGTTAAAGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 6 0.20
18 22 0.73
19 2 0.07
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.51
Consensus pattern (18 bp):
ATTCTTATTCTGATAATG
Found at i:43289617 original size:36 final size:36
Alignment explanation
Indices: 43289545--43289621 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
43289535 TTATTACGAA
* *
43289545 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCCCCACACGAAGTCATC-G
*
43289582 GTCTTACCCGGACA-AATCCCCACACGTAGTCATCG
1 GTCTTACCCGGACATAATCCCCACACGAAGTCATCG
43289617 GTCTT
1 GTCTT
43289622 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 6 0.16
36 17 0.46
37 14 0.38
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (36 bp):
GTCTTACCCGGACATAATCCCCACACGAAGTCATCG
Found at i:43289899 original size:47 final size:48
Alignment explanation
Indices: 43289739--43289966 Score: 397
Period size: 47 Copynumber: 4.7 Consensus size: 48
43289729 GCCCTTCGGG
*
43289739 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
*
43289789 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
43289838 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATAC
43289885 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATAC
43289932 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA
43289967 CTATCATTTC
Statistics
Matches: 177, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
47 90 0.51
49 83 0.47
50 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (48 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATAC
Found at i:43289922 original size:96 final size:95
Alignment explanation
Indices: 43289739--43289966 Score: 395
Period size: 96 Copynumber: 2.4 Consensus size: 95
43289729 GCCCTTCGGG
*
43289739 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATC
43289804 ACATCGGCCATTAGGCCCTATCACATATATATAC
64 ACATCGGCCATTAGGCCCTATCAC--ATATATAC
43289838 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCAC
*
43289902 ATCGGCCATTAGGCCTTATCACATATATAC
66 ATCGGCCATTAGGCCCTATCACATATATAC
43289932 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA
43289967 CTATCATTTC
Statistics
Matches: 127, Mismatches: 2, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
94 43 0.34
96 46 0.36
98 34 0.27
99 4 0.03
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (95 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGCCCTATCACATATATAC
Found at i:43292518 original size:20 final size:19
Alignment explanation
Indices: 43292495--43292532 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
43292485 AGATGCTTGG
43292495 TGAATGGAA-CATGTGCTAAA
1 TGAAT-GAATCATG-GCTAAA
43292515 TGAATGAATCATGGCTAA
1 TGAATGAATCATGGCTAA
43292533 TAAGTATGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (19 bp):
TGAATGAATCATGGCTAAA
Found at i:43295930 original size:28 final size:28
Alignment explanation
Indices: 43295890--43296043 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
43295880 TAAATTGTAC
43295890 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
43295918 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
43295946 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
43295974 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
43296002 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
43296029 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43296044 GACTTAATAT
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.20
28 98 0.80
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:43297760 original size:27 final size:27
Alignment explanation
Indices: 43297730--43297881 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
43297720 ATATTAAGTC
* *
43297730 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
43297757 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
43297785 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
43297812 CGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
43297839 CGCACACTTAGTGCTACATAGTCCAACT
1 CGCACACTTAGTGCTACATAGT-CAACT
43297867 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43297882 GTACAATTTA
Statistics
Matches: 115, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
27 70 0.61
28 45 0.39
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:43297798 original size:55 final size:54
Alignment explanation
Indices: 43297730--43297881 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 54
43297720 ATATTAAGTC
* *
43297730 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATC-AACT
* * * *
43297785 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
43297839 CGCACACTTAGTGCTACATAGTCCAACTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGT-CAACTCGCACACTTAGTGCT
43297882 GTACAATTTA
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 25 0.28
55 63 0.72
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:43297867 original size:82 final size:82
Alignment explanation
Indices: 43297730--43297881 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
43297720 ATATTAAGTC
* *
43297730 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
43297795 GTGCTACATAGTCAATT
66 GTGCTACATAGTCAATT
* * * *
43297812 CGCACACTTAGTGCAACATAGTCAATTCGCACACTTAGTGCTACATAGTCCAACTCGCACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
43297877 GTGCT
66 GTGCT
43297882 GTACAATTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAATT
Found at i:43304219 original size:40 final size:40
Alignment explanation
Indices: 43304157--43304251 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
43304147 TCGATATCTT
* **
43304157 GCACACTAAGTGCCGTACATAGCTGAAGCTATCTCAAATC
1 GCACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATC
* * * *
43304197 GCACACAAAGTGCCATATATAGCCAAAGCTATGTCGAATC
1 GCACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATC
43304237 GCACACTAAGTGCCA
1 GCACACTAAGTGCCA
43304252 CAAATAACTA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (40 bp):
GCACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATC
Found at i:43305095 original size:43 final size:43
Alignment explanation
Indices: 43305034--43305130 Score: 158
Period size: 43 Copynumber: 2.3 Consensus size: 43
43305024 AACATGAAGT
*
43305034 AATTCACCACTTTGACATTTCAATACAATACATTTCTGCTTAC
1 AATTCACCACTTTGACATTTCAATACAATACATTTCTGCATAC
* * *
43305077 AATTCACCACTTTGACATTTCAATACGATATATTTTTGCATAC
1 AATTCACCACTTTGACATTTCAATACAATACATTTCTGCATAC
43305120 AATTCACCACT
1 AATTCACCACT
43305131 GCATCATATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (43 bp):
AATTCACCACTTTGACATTTCAATACAATACATTTCTGCATAC
Found at i:43305100 original size:21 final size:21
Alignment explanation
Indices: 43305034--43305100 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
43305024 AACATGAAGT
43305034 AATTCACCACTTTGACATTTC
1 AATTCACCACTTTGACATTTC
* * * *
43305055 AATACAATACATTTCTG-C-TTAC
1 AATTC-A-CCACTT-TGACATTTC
43305077 AATTCACCACTTTGACATTTC
1 AATTCACCACTTTGACATTTC
43305098 AAT
1 AAT
43305101 ACGATATATT
Statistics
Matches: 33, Mismatches: 8, Indels: 10
0.65 0.16 0.20
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 11 0.33
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.37
Consensus pattern (21 bp):
AATTCACCACTTTGACATTTC
Found at i:43308015 original size:49 final size:51
Alignment explanation
Indices: 43307943--43308083 Score: 205
Period size: 49 Copynumber: 2.8 Consensus size: 51
43307933 ACTATTGTGA
* * *
43307943 GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-T
1 GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTGT
* *
43307992 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTGT
* *
43308043 GATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
1 GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
43308084 ATATTTGTAA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
49 42 0.52
50 1 0.01
51 38 0.47
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (51 bp):
GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTGT
Found at i:43308073 original size:51 final size:49
Alignment explanation
Indices: 43307948--43308083 Score: 191
Period size: 51 Copynumber: 2.7 Consensus size: 49
43307938 TGTGAGGTCG
* * * * *
43307948 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCG
1 CGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAATTGATCA
* *
43307997 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCA
1 CGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAA-T-TGATCA
43308048 CGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
1 CGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
43308084 ATATTTGTAA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
49 37 0.49
50 1 0.01
51 38 0.50
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (49 bp):
CGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAATTGATCA
Found at i:43317669 original size:20 final size:20
Alignment explanation
Indices: 43317632--43317669 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43317622 TGATGGGGAG
*
43317632 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
43317652 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
43317670 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:43319554 original size:46 final size:46
Alignment explanation
Indices: 43319502--43319775 Score: 424
Period size: 46 Copynumber: 6.0 Consensus size: 46
43319492 AGTGTGCTCT
*
43319502 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
43319548 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
43319594 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
43319640 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
43319686 GTGATATGAAATGAACAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
43319732 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
43319776 TCATGTCAAA
Statistics
Matches: 213, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 212 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:43323926 original size:35 final size:35
Alignment explanation
Indices: 43323886--43323956 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
43323876 TAACTTAATC
*
43323886 AAGCTTTCATGATAAAAAAAATCTATAAAAATCAA
1 AAGCTTTCATGATAAAAAAAATCAATAAAAATCAA
43323921 AAGCTTTCATGATAAAAAAAATCAATAAAAATCAA
1 AAGCTTTCATGATAAAAAAAATCAATAAAAATCAA
43323956 A
1 A
43323957 GAAAAATAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.59, C:0.11, G:0.06, T:0.24
Consensus pattern (35 bp):
AAGCTTTCATGATAAAAAAAATCAATAAAAATCAA
Found at i:43323941 original size:19 final size:19
Alignment explanation
Indices: 43323886--43323941 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 19
43323876 TAACTTAATC
43323886 AAGCTTTCATGATAAAAAA
1 AAGCTTTCATGATAAAAAA
*
43323905 AA--TCT-AT-A-AAAATCAA
1 AAGCTTTCATGATAAAA--AA
43323921 AAGCTTTCATGATAAAAAA
1 AAGCTTTCATGATAAAAAA
43323940 AA
1 AA
43323942 TCAATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 14
0.64 0.05 0.32
Matches are distributed among these distances:
14 4 0.14
15 1 0.04
16 6 0.21
17 2 0.07
18 2 0.07
19 8 0.29
20 1 0.04
21 4 0.14
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.25
Consensus pattern (19 bp):
AAGCTTTCATGATAAAAAA
Found at i:43324744 original size:12 final size:12
Alignment explanation
Indices: 43324727--43324751 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43324717 TGTGTGAATT
43324727 AGAAATAATCTA
1 AGAAATAATCTA
43324739 AGAAATAATCTA
1 AGAAATAATCTA
43324751 A
1 A
43324752 TAAGCAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
AGAAATAATCTA
Found at i:43324968 original size:18 final size:18
Alignment explanation
Indices: 43324920--43324969 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
43324910 ATATCATGAG
43324920 ATATATACAA-AATATAT
1 ATATATACAACAATATAT
* **
43324937 ATTTATACTTCAATATAT
1 ATATATACAACAATATAT
*
43324955 ATATATAAAACAATA
1 ATATATACAACAATA
43324970 AGCATCATTT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATATACAACAATATAT
Found at i:43329705 original size:27 final size:28
Alignment explanation
Indices: 43329621--43329718 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
43329611 CATGAGATTG
* * * *
43329621 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
43329650 GCACTAAGTGTACGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
43329678 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
43329705 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
43329719 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 24 0.39
28 21 0.34
29 17 0.27
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:43329729 original size:27 final size:27
Alignment explanation
Indices: 43329649--43329731 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
43329639 TAAATTGTAC
* * *
43329649 AGCACTAAGTGTACGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
43329677 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
43329704 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
43329731 A
1 A
43329732 TTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 30 0.61
28 19 0.39
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:43329732 original size:29 final size:27
Alignment explanation
Indices: 43329621--43329732 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
43329611 CATGAGATTG
** * *
43329621 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* * *
43329650 GCACTAAGTGTACGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
43329678 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
43329705 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
43329733 TTTTGAATCA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 23 0.33
28 27 0.39
29 20 0.29
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:43334213 original size:28 final size:28
Alignment explanation
Indices: 43334177--43334358 Score: 303
Period size: 28 Copynumber: 6.5 Consensus size: 28
43334167 TAAATTGTAC
* *
43334177 AGCAGTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
43334205 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
43334233 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
43334261 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
43334289 AGCATTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
43334317 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
43334344 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43334359 GACTTAATAT
Statistics
Matches: 148, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 24 0.16
28 124 0.84
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:43342347 original size:28 final size:28
Alignment explanation
Indices: 43342307--43342460 Score: 247
Period size: 28 Copynumber: 5.5 Consensus size: 28
43342297 TAAATTGTAC
* *
43342307 AGCACTAAGTGTGCGAGTTTAACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
43342335 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
43342363 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
43342391 AGCATTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
43342419 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
43342446 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43342461 GACTTAATAT
Statistics
Matches: 120, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
27 24 0.20
28 96 0.80
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:43342373 original size:56 final size:56
Alignment explanation
Indices: 43342282--43342460 Score: 252
Period size: 56 Copynumber: 3.2 Consensus size: 56
43342272 GAGATTGGCG
* * * * * *
43342282 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTAACTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
43342339 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
* *
43342395 TTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
43342450 CTGAGTGTGCG
1 CTAAGTGTGCG
43342461 GACTTAATAT
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
55 22 0.20
56 73 0.66
57 15 0.14
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:43348999 original size:27 final size:28
Alignment explanation
Indices: 43348915--43349012 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
43348905 CATGAGATTG
* * * *
43348915 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
43348944 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
43348972 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
43348999 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
43349013 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:43349023 original size:27 final size:27
Alignment explanation
Indices: 43348943--43349025 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
43348933 TAAATTGTAC
* *
43348943 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
43348971 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
43348998 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
43349025 A
1 A
43349026 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:43349026 original size:29 final size:27
Alignment explanation
Indices: 43348915--43349026 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
43348905 CATGAGATTG
** * *
43348915 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
43348944 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
43348972 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
43348999 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
43349027 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:43356110 original size:12 final size:12
Alignment explanation
Indices: 43356084--43356116 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
43356074 TATATTTATC
43356084 AAATATT-AA-A
1 AAATATTAAATA
43356094 AAATATTAAATA
1 AAATATTAAATA
43356106 AAATATTAAAT
1 AAATATTAAAT
43356117 TACATTACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 2 0.10
12 12 0.57
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAATATTAAATA
Found at i:43359844 original size:21 final size:22
Alignment explanation
Indices: 43359813--43359853 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
43359803 AAAAATATTA
43359813 ACTTTATTAAATAATAAATGAT
1 ACTTTATTAAATAATAAATGAT
*
43359835 ACTTT-TTAAATAGTAAATG
1 ACTTTATTAAATAATAAATG
43359854 TTGCATCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (22 bp):
ACTTTATTAAATAATAAATGAT
Found at i:43361741 original size:9 final size:9
Alignment explanation
Indices: 43361709--43361758 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
43361699 ATTCAAAAAC
*
43361709 AATTATAAA
1 AATTATTAA
*
43361718 AACTATTAA
1 AATTATTAA
43361727 AA--ATTAA
1 AATTATTAA
43361734 AATTATTAA
1 AATTATTAA
*
43361743 AATGTATAAA
1 AAT-TATTAA
43361753 AATTAT
1 AATTAT
43361759 AATTTTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
7 7 0.20
9 20 0.57
10 8 0.23
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (9 bp):
AATTATTAA
Found at i:43361744 original size:25 final size:25
Alignment explanation
Indices: 43361709--43361762 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
43361699 ATTCAAAAAC
43361709 AATTATAAAAACTAT-TAAAAATTAA
1 AATTATAAAAA-TATATAAAAATTAA
* * *
43361734 AATTATTAAAATGTATAAAAATTAT
1 AATTATAAAAATATATAAAAATTAA
43361759 AATT
1 AATT
43361763 TTTTATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
AATTATAAAAATATATAAAAATTAA
Found at i:43362337 original size:13 final size:13
Alignment explanation
Indices: 43362319--43362343 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43362309 TTAAAATATT
43362319 TTATAAATAAAAA
1 TTATAAATAAAAA
43362332 TTATAAATAAAA
1 TTATAAATAAAA
43362344 GTTTTTTAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTATAAATAAAAA
Found at i:43376582 original size:44 final size:44
Alignment explanation
Indices: 43376527--43376614 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
43376517 TTTGAATGTA
43376527 TGACAATTTAGACATTCATTGCATGATAAACCATGAAATGTGGT
1 TGACAATTTAGACATTCATTGCATGATAAACCATGAAATGTGGT
43376571 TGACAATTTAGACATTCATTGCATGATAAACCATGAAATGTGGT
1 TGACAATTTAGACATTCATTGCATGATAAACCATGAAATGTGGT
43376615 AGTATAGGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (44 bp):
TGACAATTTAGACATTCATTGCATGATAAACCATGAAATGTGGT
Found at i:43386768 original size:53 final size:53
Alignment explanation
Indices: 43386670--43386774 Score: 122
Period size: 53 Copynumber: 2.0 Consensus size: 53
43386660 ATAAACTACG
* * * * *
43386670 ATAAGGCAAAGATCCCATGTAAGACCACGCCAAAGCATGGCAATGGTGAGTTC
1 ATAAGGCAAAGATACCACGTAAGACCACGCCAAAGAATGGAAATGGTAAGTTC
* * *
43386723 ATAAGGCAAGGATACCACGTAAGACCATGTC-AAGAAATGGAAATGGTAAGTT
1 ATAAGGCAAAGATACCACGTAAGACCACGCCAAAG-AATGGAAATGGTAAGTT
43386775 TAAAAAGGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
52 3 0.07
53 40 0.93
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (53 bp):
ATAAGGCAAAGATACCACGTAAGACCACGCCAAAGAATGGAAATGGTAAGTTC
Found at i:43395055 original size:24 final size:24
Alignment explanation
Indices: 43395028--43395360 Score: 236
Period size: 24 Copynumber: 13.9 Consensus size: 24
43395018 GAAATGACTT
*
43395028 TGGCACTATGTGTGCTAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
43395052 TGGCACTATGTGTGTGAATTGGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
43395076 TGGCACTATGTTTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
43395100 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
*
43395125 -GGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
43395148 TGGCACTATATGTGTGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
*
43395172 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
43395196 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
43395221 -GGCACTATGTGTGCGAATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
* *
43395244 TGGCACTATATGTGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
*
43395268 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
43395292 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
** *
43395317 -GGCACTATGTGTGCG-GGTTAACA
1 TGGCACTATGTGTGCGAATTTGA-A
*
43395340 TGGCACTATGGGTGCGAATTT
1 TGGCACTATGTGTGCGAATTT
43395361 CCTTGCTTGA
Statistics
Matches: 241, Mismatches: 51, Indels: 33
0.74 0.16 0.10
Matches are distributed among these distances:
21 1 0.00
22 4 0.02
23 4 0.02
24 219 0.91
25 10 0.04
26 3 0.01
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.36
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:43395193 original size:96 final size:96
Alignment explanation
Indices: 43395029--43395331 Score: 525
Period size: 96 Copynumber: 3.2 Consensus size: 96
43395019 AAATGACTTT
* * * * ** *
43395029 GGCACTATGTGTGCTAATTTGAATGGCACTATGTGTGTGAATTGGTATGGCACTATGTTTGCGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGTGGATTTATATGGCACTATGTGTGCGGA
43395094 TTTGAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
43395125 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGTGGATTTATATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGTGGATTTATATGGCACTATGTGTGCGGA
43395190 TTTGAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
* *
43395221 GGCACTATGTGTGCGAATTTATATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGTGGATTTATATGGCACTATGTGTGCGGA
43395286 TTTGAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
43395317 GGCACTATGTGTGCG
1 GGCACTATGTGTGCG
43395332 GGTTAACATG
Statistics
Matches: 198, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 198 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (96 bp):
GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGTGGATTTATATGGCACTATGTGTGCGGA
TTTGAATGTCAATATGTATGTGAATTACTAA
Found at i:43395332 original size:48 final size:48
Alignment explanation
Indices: 43395029--43395332 Score: 339
Period size: 48 Copynumber: 6.3 Consensus size: 48
43395019 AAATGACTTT
** * * ** *
43395029 GGCACTATGTGTGCTAATTTGAATGGCACTATGTGTGTGAATTGGTAT
1 GGCACTATGTGTGCGGATTTGAATGGCAATATGTATGTGAATTACTAA
* *
43395077 GGCACTATGTTTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
1 GGCACTATGTGTGCGGATTTGAATGGCAATATGTATGTGAATTACTAA
* * * * *
43395125 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGTG-GATTTA-TAT
1 GGCACTATGTGTGCGGATTTGAATGGCA--ATATGTATGTGAATTACTAA
*
43395173 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
1 GGCACTATGTGTGCGGATTTGAATGGCAATATGTATGTGAATTACTAA
* ** * *
43395221 GGCACTATGTGTGCGAATTT-ATATGGCACTATATGTGCG-GATTTA-TAT
1 GGCACTATGTGTGCGGATTTGA-ATGGCA--ATATGTATGTGAATTACTAA
*
43395269 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
1 GGCACTATGTGTGCGGATTTGAATGGCAATATGTATGTGAATTACTAA
43395317 GGCACTATGTGTGCGG
1 GGCACTATGTGTGCGG
43395333 GTTAACATGG
Statistics
Matches: 212, Mismatches: 34, Indels: 20
0.80 0.13 0.08
Matches are distributed among these distances:
46 15 0.07
47 11 0.05
48 160 0.75
49 11 0.05
50 15 0.07
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.37
Consensus pattern (48 bp):
GGCACTATGTGTGCGGATTTGAATGGCAATATGTATGTGAATTACTAA
Found at i:43402311 original size:36 final size:36
Alignment explanation
Indices: 43402265--43402342 Score: 129
Period size: 36 Copynumber: 2.2 Consensus size: 36
43402255 ACTTCACAAC
* *
43402265 TTAGCCGTTCCTTCTATTTCTTCTTTCTGTTTCAGT
1 TTAGCTGTTCCTTCTATTTCTTCCTTCTGTTTCAGT
*
43402301 TTAGCTGTTCCTTCTGTTTCTTCCTTCTGTTTCAGT
1 TTAGCTGTTCCTTCTATTTCTTCCTTCTGTTTCAGT
43402337 TTAGCT
1 TTAGCT
43402343 ACTTCACAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.08, C:0.24, G:0.13, T:0.55
Consensus pattern (36 bp):
TTAGCTGTTCCTTCTATTTCTTCCTTCTGTTTCAGT
Found at i:43402326 original size:13 final size:13
Alignment explanation
Indices: 43402308--43402333 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43402298 AGTTTAGCTG
43402308 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
43402321 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
43402334 AGTTTAGCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (13 bp):
TTCCTTCTGTTTC
Done.