Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 126 of 228
Found at i:37332289 original size:55 final size:55
Alignment explanation
Indices: 37332205--37332433 Score: 359
Period size: 55 Copynumber: 4.1 Consensus size: 55
37332195 ATATTAAGTC
* * *
37332205 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
37332260 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
37332315 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAATCAAACT
* * * *
37332371 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCATAATTTAAACC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAACT
37332427 CGCACAC
1 CGCACAC
37332434 GTAGCGCCAA
Statistics
Matches: 163, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
55 96 0.59
56 67 0.41
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:37332401 original size:111 final size:110
Alignment explanation
Indices: 37332205--37332417 Score: 363
Period size: 111 Copynumber: 1.9 Consensus size: 110
37332195 ATATTAAGTC
*
37332205 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
37332270 GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
66 GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
* * *
37332315 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTCAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
* *
37332380 AGTGCTACATAGTCAATTCGCACACTTAGTGCTGCATA
65 AGTGCTACATAGTCAACTCGCACACTTAGTGCTACATA
37332418 ATTTAAACCC
Statistics
Matches: 96, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
110 20 0.21
111 76 0.79
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (110 bp):
CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:37339504 original size:3 final size:3
Alignment explanation
Indices: 37339496--37339524 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
37339486 TTGATTCAAA
37339496 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
37339525 TATGGTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:37342777 original size:16 final size:15
Alignment explanation
Indices: 37342750--37342783 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
37342740 ATAACTAGTA
*
37342750 TATAATTATATTTAT
1 TATAATTATATTAAT
37342765 TATAATATATATTAAT
1 TATAAT-TATATTAAT
37342781 TAT
1 TAT
37342784 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:37343578 original size:8 final size:8
Alignment explanation
Indices: 37343565--37343602 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
37343555 ATTTTGAATT
37343565 TTATTTAA
1 TTATTTAA
37343573 TTATTTAA
1 TTATTTAA
*
37343581 TTATTCAA
1 TTATTTAA
37343589 TTTATTTAA
1 -TTATTTAA
37343598 TTATT
1 TTATT
37343603 AATATTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (8 bp):
TTATTTAA
Found at i:37347757 original size:40 final size:40
Alignment explanation
Indices: 37347534--37347743 Score: 296
Period size: 40 Copynumber: 5.3 Consensus size: 40
37347524 TCCTCGTTCA
* * * * *
37347534 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
** * *
37347573 AATGCCTTCGTTACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37347613 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
37347653 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
37347693 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
37347733 AAGGCCTTCGG
1 AATGCCTTCGG
37347744 ATCTTAGTCC
Statistics
Matches: 154, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 31 0.20
40 123 0.80
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:37347780 original size:80 final size:80
Alignment explanation
Indices: 37347537--37347796 Score: 247
Period size: 80 Copynumber: 3.3 Consensus size: 80
37347527 TCGTTCAAAT
* * * * * * ** * *
37347537 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGTTACGTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* * *
37347601 ACAACTCGCACGAAT
66 ATAACTAGCACGAAA
* * *
37347616 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
37347681 ATAACTCGCACGAAT
66 ATAACTAGCACGAAA
* * **
37347696 GCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
* **
37347760 ATTCGCTTAGCAC-AAA
65 AATAAC-TAGCACGAAA
*
37347776 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
37347797 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 34 0.22
80 117 0.75
81 5 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ATAACTAGCACGAAA
Found at i:37347780 original size:120 final size:118
Alignment explanation
Indices: 37347532--37347796 Score: 289
Period size: 120 Copynumber: 2.2 Consensus size: 118
37347522 GCTCCTCGTT
* * * **
37347532 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGTTACGTAACCCGGA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACGTAACCCGGA
* * * *
37347597 TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
65 TTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
* * * *
37347651 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGACGTAACCCGG
** * ** * **
37347716 ATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTCGCTTAGCA
64 ATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCA
37347772 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
37347797 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
119 35 0.29
120 79 0.66
121 5 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (118 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACGTAACCCGGAT
TTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
Found at i:37351998 original size:40 final size:41
Alignment explanation
Indices: 37351917--37352007 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 41
37351907 CTGAATTGTG
* * ** *
37351917 CATACGTGCCCCTATTTCTACTTTGGTACCTTTGAATTGCA
1 CATACGTGCCCCTATTTCTACTTCGGCACCACTGAAATGCA
* *
37351958 CATATGTGCCCCTA-TTGTACTTCGGCACCACTGAAATGCA
1 CATACGTGCCCCTATTTCTACTTCGGCACCACTGAAATGCA
*
37351998 CATGCGTGCC
1 CATACGTGCC
37352008 TTGCTTACAC
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
40 28 0.68
41 13 0.32
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.32
Consensus pattern (41 bp):
CATACGTGCCCCTATTTCTACTTCGGCACCACTGAAATGCA
Found at i:37359162 original size:40 final size:40
Alignment explanation
Indices: 37359118--37359204 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
37359108 CAATTAGGTA
* *
37359118 CCCCTATTTGTACTTCAAT-CCCCTGAATTGCACATATGTG
1 CCCCTATTTGTACTTCAATACCCCTGAAATGCACAT-CGTG
**
37359158 CCCCTA-TTGTACTTCTGTACCCCTGAAATGCACATCGTG
1 CCCCTATTTGTACTTCAATACCCCTGAAATGCACATCGTG
37359197 -CCCTATTT
1 CCCCTATTT
37359205 ACACTCTGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
38 5 0.12
39 15 0.37
40 21 0.51
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (40 bp):
CCCCTATTTGTACTTCAATACCCCTGAAATGCACATCGTG
Found at i:37370312 original size:21 final size:21
Alignment explanation
Indices: 37370288--37370338 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
37370278 GAAATACAGA
37370288 GGCCCAAAATACCAACCCAGT
1 GGCCCAAAATACCAACCCAGT
37370309 GGCCCAAAATACCAACCCAGT
1 GGCCCAAAATACCAACCCAGT
37370330 GGCCCAAAA
1 GGCCCAAAA
37370339 CAATGTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.39, C:0.37, G:0.16, T:0.08
Consensus pattern (21 bp):
GGCCCAAAATACCAACCCAGT
Found at i:37371952 original size:447 final size:450
Alignment explanation
Indices: 37371355--37372219 Score: 1555
Period size: 447 Copynumber: 1.9 Consensus size: 450
37371345 TCATTTATGT
37371355 ATATTTTAATATTCTTACATATAATTTTTATAACGCTAAAATATATACATACCTACCTATATTTT
1 ATATTTTAATATTCTTACATATAATTTTTATAACGCTAAAATATATACATACCTACCTATATTTT
37371420 TAATATATATATTTTTTATAATTATGCATATATACCTATGCGCATACATTTTAATAATATTTATA
66 TAATATATATATTTTTTATAATTATGCATATATACCTATGCGCATACATTTTAATAATATTTATA
* *
37371485 CTTATACATTTGTATTATGTTTCCTTAAAAAAGCATACACGTATATATATAC-A-TA-T-TTTTT
131 CTTATACATTTGTATTATGTTTCCTTAAAAAAACATACACGTACATATATACAATTATTATTTTT
*
37371546 TAAAATTAATTAATTTTGATAATGTAGATATTATTTAATCATTTTTAATATATTTTATATGTACA
196 TAAAATTAATTAATTTTGATAATGTAGATATTATTTAATCATTTTTAATATATTTTATATCTACA
*
37371611 TGTATACCTATTTATTTATTTTTTCTAATGAATATTCTATTATATTTATATATGTATACATATAT
261 TGTATACCTATTTA--T-TTTTTTCTAATGAATATTCTATTATATTTATATATGTATAAATATAT
37371676 ATCTATG-TTGTTTATTTATTTTCAAAAACGTTTAACTACCAACTTATATTTTTAACACATATTT
323 ATCTATGTTTGTTTATTTATTTTCAAAAACGTTTAACTACCAACTTATATTTTTAACACATA-TT
37371740 TATAATTTATGTATATATGTATATATTTATGTCAAAGCTCGATTTAGTCTTTTTTATTTATTAC
387 TATAATTTATGTATATATGTATATATTTATGTCAAAGCTCGATTTAGTCTTTTTTATTTATTAC
37371804 ATATTTTAATATTCTTACATATAATTTTTATAACGCTAAAATATATACATACCTACCTATATTTT
1 ATATTTTAATATTCTTACATATAATTTTTATAACGCTAAAATATATACATACCTACCTATATTTT
37371869 T-A-ATATATATTTTTTATAATTATGCATATATACCTATGCGCATACATTTTAATAATATTTATA
66 TAATATATATATTTTTTATAATTATGCATATATACCTATGCGCATACATTTTAATAATATTTATA
37371932 CTTATACATTTGTATTATGTTTCCTTAAAAAAACATACACGTACATATATACATATTTATTATTT
131 CTTATACATTTGTATTATGTTTCCTTAAAAAAACATACACGTACATATATACA-A-TTATTATTT
*
37371997 TTTTAAATTAATTAATTTTGATAATGTAGATATTATTTAATCATTTTTAATATATTTTATATCTA
194 TTTAAAATTAATTAATTTTGATAATGTAGATATTATTTAATCATTTTTAATATATTTTATATCTA
37372062 CATGTATACCTATTTATTTTTTTCTAATGAATATTCTATTATATTTATATATGTATAAATATATA
259 CATGTATACCTATTTATTTTTTTCTAATGAATATTCTATTATATTTATATATGTATAAATATATA
* * *
37372127 TCTATGTTTTTTTATTTATTTTCGAAAACGTTTAACTACCTACTTATATTTTTAACACATATTTA
324 TCTATGTTTGTTTATTTATTTTCAAAAACGTTTAACTACCAACTTATATTTTTAACACATATTTA
37372192 TAATTTATGTATATATGTATATATTTAT
389 TAATTTATGTATATATGTATATATTTAT
37372220 ATTTTTTTCT
Statistics
Matches: 401, Mismatches: 8, Indels: 13
0.95 0.02 0.03
Matches are distributed among these distances:
447 111 0.28
448 1 0.00
449 67 0.17
450 85 0.21
451 54 0.13
452 1 0.00
453 82 0.20
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (450 bp):
ATATTTTAATATTCTTACATATAATTTTTATAACGCTAAAATATATACATACCTACCTATATTTT
TAATATATATATTTTTTATAATTATGCATATATACCTATGCGCATACATTTTAATAATATTTATA
CTTATACATTTGTATTATGTTTCCTTAAAAAAACATACACGTACATATATACAATTATTATTTTT
TAAAATTAATTAATTTTGATAATGTAGATATTATTTAATCATTTTTAATATATTTTATATCTACA
TGTATACCTATTTATTTTTTTCTAATGAATATTCTATTATATTTATATATGTATAAATATATATC
TATGTTTGTTTATTTATTTTCAAAAACGTTTAACTACCAACTTATATTTTTAACACATATTTATA
ATTTATGTATATATGTATATATTTATGTCAAAGCTCGATTTAGTCTTTTTTATTTATTAC
Found at i:37372510 original size:13 final size:14
Alignment explanation
Indices: 37372476--37372513 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
37372466 TTTTCTTATG
37372476 TATATTAGTTTCGTT
1 TATATTA-TTTCGTT
37372491 TAT-TTATTT-GTT
1 TATATTATTTCGTT
37372503 TATATTATTTC
1 TATATTATTTC
37372514 TATGTCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.66
Consensus pattern (14 bp):
TATATTATTTCGTT
Found at i:37378864 original size:7 final size:6
Alignment explanation
Indices: 37378853--37378899 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
37378843 ATGATGATGG
*
37378853 GAAAAA GGAAAA GAAAAA G-AAAA GAAAGAA GAAAAAA GAAAGAA GAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAA-AA G-AAAAA GAAA-AA GAA
37378900 GAGGAAAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
5 5 0.14
6 16 0.46
7 11 0.31
8 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:37378874 original size:11 final size:11
Alignment explanation
Indices: 37378853--37378901 Score: 55
Period size: 11 Copynumber: 4.2 Consensus size: 11
37378843 ATGATGATGG
37378853 GAAAAAGGAAAA
1 GAAAAA-GAAAA
37378865 GAAAAAGAAAA
1 GAAAAAGAAAA
37378876 GAAAGAAGAAAA
1 GAAA-AAGAAAA
37378888 -AAGAAAGAAGAA
1 GAA-AAAGAA-AA
37378900 GA
1 GA
37378902 GGAAAAGGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
11 16 0.48
12 16 0.48
13 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAAA
Found at i:37378891 original size:14 final size:15
Alignment explanation
Indices: 37378862--37378901 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
37378852 GGAAAAAGGA
*
37378862 AAAGAAAAAGAAAAG
1 AAAGAAGAAGAAAAG
37378877 AAAGAAGAA-AAAAG
1 AAAGAAGAAGAAAAG
37378891 AAAGAAGAAGA
1 AAAGAAGAAGA
37378902 GGAAAAGGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AAAGAAGAAGAAAAG
Found at i:37378908 original size:18 final size:19
Alignment explanation
Indices: 37378866--37378901 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
37378856 AAAGGAAAAG
37378866 AAAAAGAAAAGAAAGAAGA
1 AAAAAGAAAAGAAAGAAGA
37378885 AAAAAG-AAAG-AAGAAGA
1 AAAAAGAAAAGAAAGAAGA
37378902 GGAAAAGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 4 0.24
19 6 0.35
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAGAAAGAAGA
Found at i:37380262 original size:88 final size:89
Alignment explanation
Indices: 37380144--37380323 Score: 220
Period size: 92 Copynumber: 2.0 Consensus size: 89
37380134 GAAACTCCAA
** * *
37380144 CCTTGTCTCCCTGAACAGTAGTGGATTA-GGTTGAAAATAATAGATCTTGTCTTCCTATATTGGC
1 CCTTGTCTCCCTGAACAACAGTGGAGTAGGGTTGAAAATAATAGATCTTGCCTTCCTATATTGGC
* *
37380208 AGCGAAGTAGATCGAAGATATCAG
66 AGCGAAGCAGATCGAAGACATCAG
* *
37380232 CCTTGTCTCCCT-AAGCAACAGTGGAGTAGGTTGGTTGAAAATAGTAGATCTTGCCTTCCTGTAT
1 CCTTGTCTCCCTGAA-CAACAGTGGAGTA-G--GGTTGAAAATAATAGATCTTGCCTTCCTATAT
* *
37380296 TGGCGGTGAAGCAGATCGAAGACATCAG
62 TGGCAGCGAAGCAGATCGAAGACATCAG
37380324 TCTTATCGCC
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
87 2 0.03
88 22 0.29
92 53 0.69
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (89 bp):
CCTTGTCTCCCTGAACAACAGTGGAGTAGGGTTGAAAATAATAGATCTTGCCTTCCTATATTGGC
AGCGAAGCAGATCGAAGACATCAG
Found at i:37380818 original size:260 final size:260
Alignment explanation
Indices: 37380351--37380868 Score: 824
Period size: 260 Copynumber: 2.0 Consensus size: 260
37380341 AGCAATGGAA
* * *
37380351 AAGATTGAAGCCAGAACGGCGAATCTTATTTCCCTGGCGTTGTAGCGGAGCAGATTAAAGCCACG
1 AAGATTGAAGCCAGAACGGCAAATCTTACTTCCCTGGCGTTGTAGCGCAGCAGATTAAAGCCACG
* * *
37380416 ACGGTGAATCTTATATCCTTGGCATTAAGGTTTGGATTAACTGAAGTGGAGCGGATTGAAGCTGT
66 ACGGCGAATCTTATATCCCTGGCATTAAGGATTGGATTAACTGAAGTGGAGCGGATTGAAGCTGT
* * *
37380481 GGGCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGTCGCAACGGCAAATCTTA
131 GGGCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCACAACAGCAAATCTTA
* * *
37380546 CTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTGAATATTGTTTCCTCAACATTAC
196 ATTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATATTGTTTCCCCAACATTAC
* *
37380611 AAGATTGAAGTC-GTAACGGCAAATCTTACTTCCCTGGCGTTGTAGTGCAGCAGATTAAAGCCAC
1 AAGATTGAAGCCAG-AACGGCAAATCTTACTTCCCTGGCGTTGTAGCGCAGCAGATTAAAGCCAC
* *
37380675 GACGGCGAATCTTATCTCCCTGG-AGTTAAGGATTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
65 GACGGCGAATCTTATATCCCTGGCA-TTAAGGATTGGATTAACTGAAGTGGAGCGGATTGAAGCT
* *
37380739 GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTTAAGCCACAACAGCGAATCT
129 GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCACAACAGCAAATCT
* *
37380804 TAATTCCTTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATT
194 TAATTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATATTGTTTCCCCAACATT
37380869 GCAATTAAAA
Statistics
Matches: 236, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
259 2 0.01
260 234 0.99
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (260 bp):
AAGATTGAAGCCAGAACGGCAAATCTTACTTCCCTGGCGTTGTAGCGCAGCAGATTAAAGCCACG
ACGGCGAATCTTATATCCCTGGCATTAAGGATTGGATTAACTGAAGTGGAGCGGATTGAAGCTGT
GGGCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCACAACAGCAAATCTTA
ATTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATATTGTTTCCCCAACATTAC
Found at i:37380949 original size:44 final size:44
Alignment explanation
Indices: 37380894--37381218 Score: 283
Period size: 44 Copynumber: 7.5 Consensus size: 44
37380884 GAAGATGGCG
*
37380894 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAAT
* * *
37380938 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCA-AT
* * * * *
37380982 GATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCACA-TC--T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAAT
* * * *
37381022 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACT-AAGT-AAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAA-T
* * ****
37381065 AAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGGTGGCG
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAGTCAAT
* *
37381111 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAAT
* * * *
37381155 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA-TCCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAAT
*
37381198 AGATCTTATCTCTCTGAAGTT
1 A-ATCTTATCTCCCTGAAGTT
37381219 ACTGTAGAGT
Statistics
Matches: 221, Mismatches: 44, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
40 22 0.10
41 7 0.03
42 2 0.01
43 16 0.07
44 140 0.63
45 27 0.12
46 7 0.03
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAAT
Found at i:37381072 original size:84 final size:87
Alignment explanation
Indices: 37380943--37381141 Score: 216
Period size: 84 Copynumber: 2.3 Consensus size: 87
37380933 TCAATAATCC
** * *
37380943 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTAT-CTCTCTGAAGTTGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAAGCACAGATCTTATCCTC-CTGAAGTTGCAGA
37381007 GA-GCAGA-TCACA-T-CTAG-TCT
65 GAGGCAGACTCA-AGTGC-AGATCT
37381027 TATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCA-AG-TCTTATCCTCCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAAACTAA--AAGCACAGATCTTATCCTCCTGAAGTTGCAG
* * *
37381090 TGAGGCAGACTGAAGGTGGCGGATCT
64 AGAGGCAGACTCAA-GT-GCAGATCT
37381116 TATCTCCCTGAAGTTGCAGTGGAGCA
1 TATCTCCCTGAAGTTGCAGTGGAGCA
37381142 GATTAAAGCC
Statistics
Matches: 98, Mismatches: 7, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
84 49 0.50
85 11 0.11
86 6 0.06
87 1 0.01
88 1 0.01
89 30 0.31
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (87 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAAGCACAGATCTTATCCTCCTGAAGTTGCAGAG
AGGCAGACTCAAGTGCAGATCT
Found at i:37382722 original size:21 final size:21
Alignment explanation
Indices: 37382698--37382779 Score: 55
Period size: 21 Copynumber: 3.9 Consensus size: 21
37382688 GTCTTTTTTT
37382698 ATTTATTATTATTTTAATTAA
1 ATTTATTATTATTTTAATTAA
37382719 ATTTGATT-TTATTGTT-ATTAA
1 ATTT-ATTATTATT-TTAATTAA
* * * *
37382740 GTATTATTGTTATTATATATT-C
1 AT-TTATTATTATTTTA-ATTAA
37382762 ATTTATGTA-TATTTTAAT
1 ATTTAT-TATTATTTTAAT
37382780 ATTCTTACAT
Statistics
Matches: 48, Mismatches: 6, Indels: 15
0.70 0.09 0.22
Matches are distributed among these distances:
20 2 0.04
21 29 0.60
22 14 0.29
23 3 0.06
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (21 bp):
ATTTATTATTATTTTAATTAA
Found at i:37383452 original size:13 final size:14
Alignment explanation
Indices: 37383418--37383455 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
37383408 TTTTCTTTTG
37383418 TATATTAGTTTCGTT
1 TATATTA-TTTCGTT
37383433 TAT-TTATTT-GTT
1 TATATTATTTCGTT
37383445 TATATTATTTC
1 TATATTATTTC
37383456 TATGCCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.66
Consensus pattern (14 bp):
TATATTATTTCGTT
Found at i:37383482 original size:15 final size:15
Alignment explanation
Indices: 37383462--37383495 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
37383452 TTTCTATGCC
37383462 ATTGTTGTATTTATT
1 ATTGTTGTATTTATT
*
37383477 ATTGTTGTATTTGTT
1 ATTGTTGTATTTATT
37383492 ATTG
1 ATTG
37383496 CGAGATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (15 bp):
ATTGTTGTATTTATT
Found at i:37384664 original size:50 final size:50
Alignment explanation
Indices: 37384539--37384786 Score: 262
Period size: 50 Copynumber: 4.8 Consensus size: 50
37384529 ATTTGGGTAA
* * *
37384539 AGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* * *
37384595 AGAGGTCTCATATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
37384645 AGAGGTCCCACGTAAGACCATGTCAGGGACATGGCATTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
37384695 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
37384745 AGAACTCCTATGTAAGACCATATTTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
37384787 GTACAAGAAA
Statistics
Matches: 165, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
50 124 0.75
53 3 0.02
55 1 0.01
56 37 0.22
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:37389085 original size:11 final size:10
Alignment explanation
Indices: 37389053--37389086 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
37389043 ATCACCTTAA
37389053 AAATGATTTT
1 AAATGATTTT
*
37389063 AAATGGTTTT
1 AAATGATTTT
37389073 AATATGATTTT
1 AA-ATGATTTT
37389084 AAA
1 AAA
37389087 GTCTCCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (10 bp):
AAATGATTTT
Found at i:37390260 original size:593 final size:592
Alignment explanation
Indices: 37387919--37391286 Score: 3764
Period size: 593 Copynumber: 5.7 Consensus size: 592
37387909 GGGTATTACA
* *
37387919 TATAATTTTATTTAGGTTATTTAAGTTTCAATTCTTAGCAAAACTTTTATCTTTCTCTACCTGTA
1 TATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCAAAACTTTTATCTTTCTCTACCTATA
* * * *
37387984 TAATCTTGAGTTAAATAAAGGAGCTTTAAATACTAC-GTATAACTTTGAGTTAAAATAAAAAGTT
66 TAACCTTGAGTTAAACAAAGGAGCTTTAAATACT-CTGTATAACTTTGAGTTAAGATAAAGAGTT
* ** * *
37388048 TTCAATATTTATTTTATGATTTGATAATGTCCATAAAATACTT-CAAAATAAATACTTTTATAAA
130 TTAAATATTCGTTTTATGATTTGATAATGTCCATAAAATA-TTGCGAAATAAATATTTTTATAAA
* * * *
37388112 ATAAAT-TTTTTTCTTAAGTTTAAAAGTGCTCCGATAACCCCTTGTAATGATATTGTAGGTAAAA
194 AGAAATATTTTGTCTTAAGTTTAAAAGTGCTCCGATAACACCTTGTAATGATACTGTAGGTAAAA
* * * * * * *
37388176 AAGAGTAA-GTTTTTTACAATTTCAAGATGCCAGTACCGCTAGTTCGCTGCCACTATACCCCTAT
259 AAGAGTAAGGTGTTTTACAATTTCAAGATGTCACTATCGCTAGTTCGCTGCCGCTATACCTCTAC
* * * ** * *
37388240 TGGACTGCTTTTTTAACCTATCTTAGAACATTTGAAAAACAAAATCATCTCACGTGGCAGCTTAT
324 TGGACTGCCTTTTTAACCTATCTTAGAATA-TT-AGAAA-AATTTTATCTCACGTGGCAGCTTAG
* * * * * * * *
37388305 GGTGCTTTGTAAC-GGTTAAATATCTTCGAAGAAAGAACAAAAATAAATATCAATACATATCACC
386 GGTGCTTCGTCACAGCTCAAA-ATCTTCCAAAAAAGAACAAAAATAAATATCAATACCTATCTCC
* * * * * *
37388369 TAGACAAAGCTCATGGGTTGGTTTGGTTGTTTTGAGATCGCCGAAGTTCATACTCAACCTTAGAT
450 TAGACAAAGCTCCTGCGTTGTTTTGGTTGTTTTGAGCTAGCCGAAGTTCATACTCAACCTTAGAC
* * *
37388434 ACTTCCAATCACTTGAAAACTAATTTTAAATGGTTTTAATATGATTTTAAAGTC-CTCAAATT-A
515 ACTTCCAATCACCTGAAAAATTATTTTAAATGGTTTTAATATGATTTTAAAGTCTC-CAAATTGA
* *
37388497 ATTCCATCTTATATC
579 A-TCTATCTTATTTC
* * * *
37388512 TAGAATTTGATTTTGGTTATTTAAGTTTTAATTCTTAGCAAAACATTTATCTTTCTCTACCTATA
1 TATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCAAAACTTTTATCTTTCTCTACCTATA
* * * ** * *
37388577 TAACCTTGAGTTAAGCAAATGAGCTTCAAATACTCCATATAACTTTGATTTAAGATGAAGAGTTT
66 TAACCTTGAGTTAAACAAAGGAGCTTTAAATACTCTGTATAACTTTGAGTTAAGATAAAGAGTTT
* * *
37388642 TAAATATTCGTTTTATGATTTAATAATGTCCATAAAATATAGTGAAATAAATATTTTTATAAAAG
131 TAAATATTCGTTTTATGATTTGATAATGTCCATAAAATATTGCGAAATAAATATTTTTATAAAAG
* * *
37388707 AAA-A-TTTGTCTTATGTTTAAATGTGCTCCAATAACACCTTGTAATGATACTGTAGGT-AAAAA
196 AAATATTTTGTCTTAAGTTTAAAAGTGCTCCGATAACACCTTGTAATGATACTGTAGGTAAAAAA
* * * * *
37388769 GAGTGAGGTGTTTTACAATTTCAAGATGTCACTA-CAGTTA-TTCCGTTGTCGGTATACCTCTAC
261 GAGTAAGGTGTTTTACAATTTCAAGATGTCACTATC-GCTAGTT-CGCTGCCGCTATACCTCTAC
* * * * * *
37388832 TGGACCACTACTTCTTTTTTTTTTACCTATTTTAGAATATTAGAAAATTTTTTTTATCTTATGTG
324 TGG---ACTGC--C----TTTTTAACCTATCTTAGAATATTAGAAAA---ATTTTATCTCACGTG
* * * *
37388897 GCA--ATAGAGTACTTC-TC-CATGTCTCAAAATCTTCCAAAAAAGAATAAAAATAAATAAGTAC
377 GCAGCTTAGGGTGCTTCGTCACA-G-CTCAAAATCTTCCAAAAAAGAACAAAAATAAAT-A-T--
* * * * *
37388958 CAATACCTATCTCCT-GAACAAAGCTCCTACATTG-TTTGGTTGTTTTAAGCTAGCTGAAATTCA
436 CAATACCTATCTCCTAG-ACAAAGCTCCTGCGTTGTTTTGGTTGTTTTGAGCTAGCCGAAGTTCA
* * * * * *
37389021 TGCCCAACCTTAGACACCTACAATCACCTTAAAAATGATTTTAAATGGTTTTAATATGATTTTAA
500 TACTCAACCTTAGACACTTCCAATCACCTGAAAAATTATTTTAAATGGTTTTAATATGATTTTAA
* * *
37389086 AGTCTCCAAATTGATTCTTTCTTAGATT-
565 AGTCTCCAAATTGAATCTATCTTA-TTTC
* * *
37389114 TATAATTTTATTGAGGTTATTTAAGTTTTAATTCTTAGCAAAAATTTTAT-TTT-TCTAAACTCA
1 TATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCAAAACTTTTATCTTTCTCT-ACCT-A
* * *
37389177 TATAACCCTGAGTTAAGCAAAGGAGCTTTAAATACT-TAGTATAACTTTGAG-T-AGTTAAAGAG
64 TATAACCTTGAGTTAAACAAAGGAGCTTTAAATACTCT-GTATAACTTTGAGTTAAGATAAAGAG
* * *
37389239 GTTTAAATATTCGTTTTATGATTTGATAATGTCCATAAAATATTCCGAAATAAATATCTTTATAA
128 TTTTAAATATTCGTTTTATGATTTGATAATGTCCATAAAATATTGCGAAATAAATATTTTTATAA
* * * *
37389304 AAGAAA-ATTTTGTCTTAAGTTTAAAAGTACTCTGATAACACATTGTAATGATACTTTAGGTAAA
193 AAGAAATATTTTGTCTTAAGTTTAAAAGTGCTCCGATAACACCTTGTAATGATACTGTAGGTAAA
* * * * * * *
37389368 AAGGAGTGAGGTGTTTTAAAATTTCAAGAT-TCCACTACCACTA-TTCCACTGCCGCTATGCCTC
258 AAAGAGTAAGGTGTTTTACAATTTCAAGATGT-CACTATCGCTAGTT-CGCTGCCGCTATACCTC
**** ** * *
37389431 TACTGGACCAATTTTTTAACCTATCTTAGAATATTAGAAATTTTTTATCTCACGTTGCACCTTAG
321 TACTGGACTGCCTTTTTAACCTATCTTAGAATATTAGAAAAATTTTATCTCACGTGGCAGCTTAG
* * * *
37389496 GGTGCTTTGTCACGGCTCAAAATCTTCAAAAAAAGAACAAAAATAAATATCAATACCTATCCCCT
386 GGTGCTTCGTCACAGCTCAAAATCTTCCAAAAAAGAACAAAAATAAATATCAATACCTATCTCCT
* * *
37389561 GGACAAAGCTCCTGCGTTGTTTTGGTCGTTTTGAGCTCA-CCGAAGTTCATACTCAACCTCAGAC
451 AGACAAAGCTCCTGCGTTGTTTTGGTTGTTTTGAGCT-AGCCGAAGTTCATACTCAACCTTAGAC
* * *
37389625 A-TCTCCGATCACCTGAAAAA-TATTTTTAAATGATTTTAATATGATGTTAAAGTCTCCAAATTG
515 ACT-TCCAATCACCTGAAAAATTA-TTTTAAATGGTTTTAATATGATTTTAAAGTCTCCAAATTG
37389688 AATCTATCTTATTTC
578 AATCTATCTTATTTC
* *
37389703 TATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAG-AAGAACTTTTATTTTTCTCTACCTGT
1 TATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCAA-AACTTTTATCTTTCTCTACCTAT
** * * * *
37389767 ATAATATTGAGTTAAATAAATGAGCTTTAAATGCTCTGTATAACTTTGAGTTAAGATAAAGGGTT
65 ATAACCTTGAGTTAAACAAAGGAGCTTTAAATACTCTGTATAACTTTGAGTTAAGATAAAGAGTT
* * *
37389832 CTAAATATTTGTTTTATGATTTGATAATGTCCATAAAATATTGCAAAATAAATATTTTTATAAAA
130 TTAAATATTCGTTTTATGATTTGATAATGTCCATAAAATATTGCGAAATAAATATTTTTATAAAA
* * * * *
37389897 GAAATATTTTGTCTTAAATTTAAAATTGCTCCAATAACACCTTATAATGATACTGTAGTTAAAAA
195 GAAATATTTTGTCTTAAGTTTAAAAGTGCTCCGATAACACCTTGTAATGATACTGTAGGTAAAAA
* * * *
37389962 ATAGTAAGGTGTTTTACAATTTCAAGATGTTAGTATCGCTAGTTCGCTGCCGCTATACCTCTATT
260 AGAGTAAGGTGTTTTACAATTTCAAGATGTCACTATCGCTAGTTCGCTGCCGCTATACCTCTACT
* * ** * * * *
37390027 GGACTGCCTTTTTAACCTATCTTAGGATATTTGAAAAAAATTATCTCATGTGGGAGGTTATGGTG
325 GGACTGCCTTTTTAACCTATCTTAGAATATTAGAAAAATTTTATCTCACGTGGCAGCTTAGGGTG
* * * * * *
37390092 CTTCATCGCAGCTGAAAATCTTCTAAAAAATTAACAAAAATAAATATCAATACATATCTCCTAGA
390 CTTCGTCACAGCTCAAAATCTTCCAAAAAA-GAACAAAAATAAATATCAATACCTATCTCCTAGA
* * *
37390157 CAAAGCTCATGCGTTGTTTTGGTCGTTTTGAGCTAGCCGAAGTTCATACTCAACCTTAGATACTT
454 CAAAGCTCCTGCGTTGTTTTGGTTGTTTTGAGCTAGCCGAAGTTCATACTCAACCTTAGACACTT
* *
37390222 CCAATCACCTGAAAAATTATTTTAAATGGCTTTAATATGATTTTAAAGTCTCCAAATTGACTCTA
519 CCAATCACCTGAAAAATTATTTTAAATGGTTTTAATATGATTTTAAAGTCTCCAAATTGAATCTA
37390287 TCTTATTTC
584 TCTTATTTC
*
37390296 TATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCAAAACATTTATCTTTCTCTACCTATA
1 TATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCAAAACTTTTATCTTTCTCTACCTATA
* * * * * * *
37390361 TAACCCTT-AGTTAAGCAAATGAACTTCAAATACTCAGTATAACTTTGAGTTAAGCTAAAGATTT
66 TAA-CCTTGAGTTAAACAAAGGAGCTTTAAATACTCTGTATAACTTTGAGTTAAGATAAAGAGTT
* * * *
37390425 TTAAATATTAGTTTTATGATTTGATAATGTCCATAACAGATTGCGAAATTAATATTTTTATAAAA
130 TTAAATATTCGTTTTATGATTTGATAATGTCCATAAAATATTGCGAAATAAATATTTTTATAAAA
* * * * *
37390490 TAAAAATTTTGTCTTAAGATTAAAAGTGTTCCGATAACACCTTGTAATGAT-TTGTAGGTAAAAA
195 GAAATATTTTGTCTTAAGTTTAAAAGTGCTCCGATAACACCTTGTAATGATACTGTAGGTAAAAA
* * * * * * *
37390554 AGTGTGAGGTGTTTTACAATTTCAAGAT-TCCACGAAT-GCTATTTCGCTAGCAG-TATGCCTAT
260 AGAGTAAGGTGTTTTACAATTTCAAGATGT-CAC-TATCGCTAGTTCGCT-GCCGCTATACCTCT
* ** *
37390616 ACTAGACCT-TTTTTTTAACCTATCTTAGAATATTAGAAAATTTTTATCTCACGTGGCAGCTTAG
322 ACTGGA-CTGCCTTTTTAACCTATCTTAGAATATTAGAAAAATTTTATCTCACGTGGCAGCTTAG
* * *
37390680 GGTGCTTCCTCGCGGCTCAAAATCTTCC-AAAAAGAACAAAAATAAATAAATATCAATACCTATC
386 GGTGCTTCGTCACAGCTCAAAATCTTCCAAAAAAGAAC---AA-AAATAAATATCAATACCTATC
* * * ** * * *
37390744 -CCTAGACAAAGCTCCTGCGCTATTATATTTGTTTTAAGCTTGCCGAAGTTCATACTCAACCTCA
447 TCCTAGACAAAGCTCCTGCGTTGTTTTGGTTGTTTTGAGCTAGCCGAAGTTCATACTCAACCTTA
* * ** * *
37390808 AACACCTATAATCACCTTAAAAATTATTTTAATTGGTTTTAATATGATTTTAAAGTCTCCAAATT
512 GACACTTCCAATCACCTGAAAAATTATTTTAAATGGTTTTAATATGATTTTAAAGTCTCCAAATT
*
37390873 GATTGC-ATCTTATTTC
577 GAAT-CTATCTTATTTC
* * * *
37390889 TATAATTTTATTTTGGTTATTTAAGTTTTAATTCTTACCAGAACTTTTATCTTTCTCTACCTGTA
1 TATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCAAAACTTTTATCTTTCTCTACCTATA
* * * *
37390954 TAATCC-TGGGTTAAACAAAGGAGATTTAAATACT-TCGTATAACTTTAAGTTAAGCTAAAGAGT
66 TAA-CCTTGAGTTAAACAAAGGAGCTTTAAATACTCT-GTATAACTTTGAGTTAAGATAAAGAGT
*
37391017 TTTAAATATTCATTTTATGATTTGATAATATGTCCATAAAATATTGCGAAATAAATATTTTTATA
129 TTTAAATATTCGTTTTATGATTTGAT-A-ATGTCCATAAAATATTGCGAAATAAATATTTTTATA
* * * *
37391082 AAAGATAAT-TTTTGTCTTAAGTTTAAAAGTGCTCCGCTAATACCTTGTAATGACACTGTAAGTA
192 AAAGA-AATATTTTGTCTTAAGTTTAAAAGTGCTCCGATAACACCTTGTAATGATACTGTAGGTA
* * * *
37391146 AAAAAGAGTAAGGTGTTTTATAATTTCAAGATGCCACTATCGCTAGTTCGTTGCTGCTATACCTC
256 AAAAAGAGTAAGGTGTTTTACAATTTCAAGATGTCACTATCGCTAGTTCGCTGCCGCTATACCTC
* * * *
37391211 TATTGGACTG-CTTTTTAAACCTACCTTAGAATATTAGATAAATTTTATCTCATGTGGCAGCTTA
321 TACTGGACTGCCTTTTT-AACCTATCTTAGAATATTAGAAAAATTTTATCTCACGTGGCAGCTTA
* *
37391275 CGGTGCTCCGTC
385 GGGTGCTTCGTC
37391287 GCATTAATAG
Statistics
Matches: 2331, Mismatches: 363, Indels: 159
0.82 0.13 0.06
Matches are distributed among these distances:
588 34 0.01
589 185 0.08
590 28 0.01
591 96 0.04
592 433 0.19
593 833 0.36
594 30 0.01
595 93 0.04
596 113 0.05
597 1 0.00
598 2 0.00
599 39 0.02
600 84 0.04
601 85 0.04
602 245 0.11
603 30 0.01
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (592 bp):
TATAATTTTATTTAGGTTATTTAAGTTTTAATTCTTAGCAAAACTTTTATCTTTCTCTACCTATA
TAACCTTGAGTTAAACAAAGGAGCTTTAAATACTCTGTATAACTTTGAGTTAAGATAAAGAGTTT
TAAATATTCGTTTTATGATTTGATAATGTCCATAAAATATTGCGAAATAAATATTTTTATAAAAG
AAATATTTTGTCTTAAGTTTAAAAGTGCTCCGATAACACCTTGTAATGATACTGTAGGTAAAAAA
GAGTAAGGTGTTTTACAATTTCAAGATGTCACTATCGCTAGTTCGCTGCCGCTATACCTCTACTG
GACTGCCTTTTTAACCTATCTTAGAATATTAGAAAAATTTTATCTCACGTGGCAGCTTAGGGTGC
TTCGTCACAGCTCAAAATCTTCCAAAAAAGAACAAAAATAAATATCAATACCTATCTCCTAGACA
AAGCTCCTGCGTTGTTTTGGTTGTTTTGAGCTAGCCGAAGTTCATACTCAACCTTAGACACTTCC
AATCACCTGAAAAATTATTTTAAATGGTTTTAATATGATTTTAAAGTCTCCAAATTGAATCTATC
TTATTTC
Found at i:37398120 original size:16 final size:17
Alignment explanation
Indices: 37398095--37398132 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
37398085 TCATGTCAGC
*
37398095 ATTTTTAAAAT-ATTTT
1 ATTTTAAAAATGATTTT
37398111 ATTTTAAAAATGATTTT
1 ATTTTAAAAATGATTTT
37398128 -TTTTA
1 ATTTTA
37398133 TCTTAGTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
ATTTTAAAAATGATTTT
Found at i:37398752 original size:34 final size:34
Alignment explanation
Indices: 37398709--37398776 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
37398699 ATCACCTATT
*
37398709 CATGTATTAACCCTTAGAATATATTTCTGGATTA
1 CATGTATTAACCCTTAGAATATATTTATGGATTA
37398743 CATGTATTAACCCTTAGAATATATTTATGGATTA
1 CATGTATTAACCCTTAGAATATATTTATGGATTA
37398777 TTCTTCTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (34 bp):
CATGTATTAACCCTTAGAATATATTTATGGATTA
Found at i:37401165 original size:37 final size:37
Alignment explanation
Indices: 37401118--37401200 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
37401108 CTCCATCCAA
* *
37401118 ACACACCAAGATATTGCACTAGAGGTGCCCCAGTCAC
1 ACACACCAAGATAATGCACTAGAGGTGCCCCAGCCAC
* * *
37401155 ACACACCAAGATAATGCACTCGAGGTGTCCTAGCCAC
1 ACACACCAAGATAATGCACTAGAGGTGCCCCAGCCAC
*
37401192 AAACACCAA
1 ACACACCAA
37401201 AGATCTACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.36, C:0.33, G:0.17, T:0.14
Consensus pattern (37 bp):
ACACACCAAGATAATGCACTAGAGGTGCCCCAGCCAC
Found at i:37405456 original size:40 final size:40
Alignment explanation
Indices: 37405401--37405497 Score: 160
Period size: 40 Copynumber: 2.4 Consensus size: 40
37405391 GGTCCTGTGC
*
37405401 CTAGCAGGCTTAATGCCGGTGAACTTTACAGACTTAATGT
1 CTAGCAAGCTTAATGCCGGTGAACTTTACAGACTTAATGT
*
37405441 CTAGCAAGCTTAATGCCGGTGAACTTTACAGATTTAATGT
1 CTAGCAAGCTTAATGCCGGTGAACTTTACAGACTTAATGT
37405481 CTAGC-AGACTTAATGCC
1 CTAGCAAG-CTTAATGCC
37405498 AGTGTTCTGA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
39 2 0.04
40 52 0.96
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (40 bp):
CTAGCAAGCTTAATGCCGGTGAACTTTACAGACTTAATGT
Found at i:37412490 original size:43 final size:43
Alignment explanation
Indices: 37412429--37412520 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
37412419 TAAAGGAAAT
37412429 GTGTGGATTTGTATGAAGTATATAAACATTCAGCCCTAGCATA
1 GTGTGGATTTGTATGAAGTATATAAACATTCAGCCCTAGCATA
* **
37412472 GTGTGGATTTGTATGAAGTATATGAACATTCAGCCCTAGTTTA
1 GTGTGGATTTGTATGAAGTATATAAACATTCAGCCCTAGCATA
37412515 GTGTGG
1 GTGTGG
37412521 GCAAATTTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (43 bp):
GTGTGGATTTGTATGAAGTATATAAACATTCAGCCCTAGCATA
Found at i:37413479 original size:40 final size:40
Alignment explanation
Indices: 37413417--37413597 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
37413407 GGTCCTGTGC
*
37413417 CTAGCAGGCTTAATGCCGGTGAACTTTACAGACTTAATGT
1 CTAGCAGGCTTAATGCCAGTGAACTTTACAGACTTAATGT
*
37413457 CTACCAGGCTTAATGCCAGTGAACTTTACAGACTTAATGT
1 CTAGCAGGCTTAATGCCAGTGAACTTTACAGACTTAATGT
* * *
37413497 CTAGCAGGCTTAATGCCGGTGAGCCTTACAGACTTAATGT
1 CTAGCAGGCTTAATGCCAGTGAACTTTACAGACTTAATGT
*
37413537 CTAGCAGGCTTAATGCC-GATGAACTTTACAGACTTTCA-GT
1 CTAGCAGGCTTAATGCCAG-TGAACTTTACAGAC-TTAATGT
*
37413577 CTAGCAGGCTTAAGGCCAGTG
1 CTAGCAGGCTTAATGCCAGTG
37413598 TTCTGATTCA
Statistics
Matches: 128, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 123 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCAGTGAACTTTACAGACTTAATGT
Found at i:37414737 original size:43 final size:43
Alignment explanation
Indices: 37414627--37414790 Score: 197
Period size: 43 Copynumber: 3.8 Consensus size: 43
37414617 TTTTTGATAA
* *
37414627 GTGTTTTCGTGAAAGACCACATCTGGGACATTGGCATCGACTT
1 GTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGACTT
*
37414670 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTT
1 GTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGACTT
** *
37414713 GTGTTTTCGTGTAAGACC-CTGTCTGGGACAACGACATCGA-TCT
1 GTGTTTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCGACT-T
* * * * *
37414756 GTGGTTACATGTAAGATCACGTCTGGGACGTTGGC
1 GTGTTTTCGTGTAAGACCACGTCTGGGACATTGGC
37414791 GTTGTACGAA
Statistics
Matches: 103, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 2 0.02
43 100 0.97
44 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (43 bp):
GTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGACTT
Found at i:37419803 original size:47 final size:47
Alignment explanation
Indices: 37419737--37420068 Score: 540
Period size: 47 Copynumber: 7.1 Consensus size: 47
37419727 GAAATGATAG
37419737 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
37419784 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
37419831 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
37419878 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37419925 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37419972 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
37420018 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37420065 TAAG
1 TAAG
37420069 TCCCGAAGGG
Statistics
Matches: 267, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 40 0.15
47 227 0.85
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:37420243 original size:37 final size:37
Alignment explanation
Indices: 37420187--37420265 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
37420177 CCGAGCTCTA
* *
37420187 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
* *
37420224 AAGACCCGATAACTTCGTGTGGAGATTATGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
37420261 AAGAC
1 AAGAC
37420266 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:37425195 original size:44 final size:44
Alignment explanation
Indices: 37425147--37425534 Score: 299
Period size: 44 Copynumber: 8.9 Consensus size: 44
37425137 AGATCTGTCA
* * *
37425147 CTTTAATCCGCTCCGCTGCAACTTCAGGGAGATAGGATTATTGG
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGG
* ***
37425191 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTCAT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ATTGG
* * * * *
37425236 CTTCAATCTGCCCCACTGAAACTTCAGGGGGATAAGATTTATTTG
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTATTGG
* *
37425281 C-TTAGTCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTGG
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGG
*
37425324 CTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGA-T-TT-G
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGG
* * * * * * *
37425365 CTTATTCAGTCTACTCCGCTGAAACATCTGGGAGATAAGACTA---G
1 C-T-TT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGG
* *** * * * * * **
37425409 ATACGATCTACT-CTCTGCAATTTTAGAGAGATAAGATT-TGTCA
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-TGG
** * * *
37425452 CTTTAATCCACTCCGCTGCAACTTCAGAGAGATAGGATTATTGG
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGG
* *
37425496 CTTTAATCTGCTCCACTGCAACTTTAGGGAGATAGGATT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
37425535 TGTGGTTTTA
Statistics
Matches: 268, Mismatches: 62, Indels: 28
0.75 0.17 0.08
Matches are distributed among these distances:
40 18 0.07
41 8 0.03
42 3 0.01
43 18 0.07
44 181 0.68
45 38 0.14
46 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGG
Found at i:37425293 original size:89 final size:89
Alignment explanation
Indices: 37425119--37425363 Score: 291
Period size: 89 Copynumber: 2.8 Consensus size: 89
37425109 ATTTGCTCTT
* * * * * *
37425119 TGCAACTTTAGAGAGATAAGA-TCTGTCACTTTAATCCGCTCCGCTGCAACTTCAGGGAGATAGG
1 TGCAACTTCAGGGAGATAAGATTC-GTCACTTTAATCTGCTCCACTGAAACTTCAGGGAGATAAG
37425183 A-TTATTGGCTTTAATCTGCTCCAC
65 ATTTATTGGCTTTAATCTGCTCCAC
* * *
37425207 TGCAACTTCAGGGAGATAAGATTCGTCATCTTCAATCTGCCCCACTGAAACTTCAGGGGGATAAG
1 TGCAACTTCAGGGAGATAAGATTCGTCA-CTTTAATCTGCTCCACTGAAACTTCAGGGAGATAAG
* *
37425272 ATTTATTTGC-TTAGTCTGCTCCAC
65 ATTTATTGGCTTTAATCTGCTCCAC
* ** **
37425296 TGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACT-ACAACTTCAGGGAGATAAG
1 TGCAACTTCAGGGAGATAAGATTCGTCACTTTAATCTGCTCCACTGA-AACTTCAGGGAGATAAG
37425360 ATTT
65 ATTT
37425364 GCTTATTCAG
Statistics
Matches: 134, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
87 1 0.01
88 58 0.43
89 68 0.51
90 7 0.05
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (89 bp):
TGCAACTTCAGGGAGATAAGATTCGTCACTTTAATCTGCTCCACTGAAACTTCAGGGAGATAAGA
TTTATTGGCTTTAATCTGCTCCAC
Found at i:37438352 original size:12 final size:12
Alignment explanation
Indices: 37438337--37438362 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37438327 AGAAAATCCA
37438337 AAAGAATAAAAG
1 AAAGAATAAAAG
37438349 AAAGAATAAAAG
1 AAAGAATAAAAG
37438361 AA
1 AA
37438363 CATTGGCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAGAATAAAAG
Found at i:37438540 original size:13 final size:13
Alignment explanation
Indices: 37438522--37438548 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37438512 CTCCGCAGTC
37438522 CAATACTTTCCTT
1 CAATACTTTCCTT
37438535 CAATACTTTCCTT
1 CAATACTTTCCTT
37438548 C
1 C
37438549 TTGGGCCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.44
Consensus pattern (13 bp):
CAATACTTTCCTT
Found at i:37445580 original size:25 final size:26
Alignment explanation
Indices: 37445547--37445599 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
37445537 AACAGTATAT
* * *
37445547 AAAATTTAAGATAAAT-AATGATAAA
1 AAAACTTAAAATAAATAAATAATAAA
*
37445572 AAAACTTAAAATAAGTAAATAATAAA
1 AAAACTTAAAATAAATAAATAATAAA
37445598 AA
1 AA
37445600 CATAATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.25
Consensus pattern (26 bp):
AAAACTTAAAATAAATAAATAATAAA
Found at i:37455827 original size:22 final size:22
Alignment explanation
Indices: 37455797--37455854 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
37455787 GTAGGCTTGC
37455797 ATGTCTCAAGACATT-ACCCTAT
1 ATGTCTCAAGACATTGACCCT-T
* *
37455819 ATGTTTCAAGAAATTGACCCTT
1 ATGTCTCAAGACATTGACCCTT
*
37455841 ATGTCTCGAGACAT
1 ATGTCTCAAGACAT
37455855 AACACTGGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 25 0.83
23 5 0.17
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (22 bp):
ATGTCTCAAGACATTGACCCTT
Found at i:37457380 original size:25 final size:26
Alignment explanation
Indices: 37457337--37457390 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
37457327 AAATAATTTG
*
37457337 AATTGGATGAAATTAAATGTCG-AGA
1 AATTGGATGAAATTAAATGACGTAGA
*
37457362 AATTGGATTG-AATTTAATGACGTAGA
1 AATTGGA-TGAAATTAAATGACGTAGA
37457388 AAT
1 AAT
37457391 AGTATGATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.31
Consensus pattern (26 bp):
AATTGGATGAAATTAAATGACGTAGA
Found at i:37458647 original size:25 final size:25
Alignment explanation
Indices: 37458609--37458706 Score: 115
Period size: 25 Copynumber: 3.9 Consensus size: 25
37458599 TGGAAACTCA
* * *
37458609 CCACAAATGCTTTCTAGAGGATTTG
1 CCACAAAGGCTTTCCAGAGAATTTG
* **
37458634 CCACAAAGGATTTCCAGAGAATTCA
1 CCACAAAGGCTTTCCAGAGAATTTG
*
37458659 CCACAAAGGCTTTCCAGAGAAGTTG
1 CCACAAAGGCTTTCCAGAGAATTTG
**
37458684 CCACTTAGGCTTTCCAGAGAATT
1 CCACAAAGGCTTTCCAGAGAATT
37458707 CTTGAGTTTA
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (25 bp):
CCACAAAGGCTTTCCAGAGAATTTG
Found at i:37458660 original size:50 final size:50
Alignment explanation
Indices: 37458606--37458707 Score: 141
Period size: 50 Copynumber: 2.0 Consensus size: 50
37458596 GAATGGAAAC
* * * *
37458606 TCACCACAAATGCTTTCTAGAGGATTTGCCACAAAGGATTTCCAGAGAAT
1 TCACCACAAAGGCTTTCCAGAGAAGTTGCCACAAAGGATTTCCAGAGAAT
** *
37458656 TCACCACAAAGGCTTTCCAGAGAAGTTGCCACTTAGGCTTTCCAGAGAAT
1 TCACCACAAAGGCTTTCCAGAGAAGTTGCCACAAAGGATTTCCAGAGAAT
37458706 TC
1 TC
37458708 TTGAGTTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (50 bp):
TCACCACAAAGGCTTTCCAGAGAAGTTGCCACAAAGGATTTCCAGAGAAT
Found at i:37461186 original size:21 final size:21
Alignment explanation
Indices: 37461137--37461189 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
37461127 ATGAGTAGGT
37461137 AGTGTTGAGTTTCGAAAATGA
1 AGTGTTGAGTTTCGAAAATGA
*
37461158 AGTATTGAGTTT-GAAAATGCA
1 AGTGTTGAGTTTCGAAAATG-A
*
37461179 ATTGTTGAGTT
1 AGTGTTGAGTT
37461190 AAATTTGACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (21 bp):
AGTGTTGAGTTTCGAAAATGA
Found at i:37461361 original size:15 final size:15
Alignment explanation
Indices: 37461337--37461366 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37461327 AGAAATAAAA
*
37461337 CAAATTCCAAAATAT
1 CAAATACCAAAATAT
37461352 CAAATACCAAAATAT
1 CAAATACCAAAATAT
37461367 AATAGTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (15 bp):
CAAATACCAAAATAT
Found at i:37462004 original size:35 final size:35
Alignment explanation
Indices: 37461965--37462057 Score: 143
Period size: 35 Copynumber: 2.7 Consensus size: 35
37461955 CTTAACATTG
* *
37461965 TAGCATGTTTAACATGCGATTC-TGAATCAGAATAA
1 TAGCATGCTTAACATGCGAATCAT-AATCAGAATAA
*
37462000 TAGCATGCTCAACATGCGAATCATAATCAGAATAA
1 TAGCATGCTTAACATGCGAATCATAATCAGAATAA
37462035 TAGCATGCTTAACATGCGAATCA
1 TAGCATGCTTAACATGCGAATCA
37462058 AAGTATCAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 52 0.98
36 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (35 bp):
TAGCATGCTTAACATGCGAATCATAATCAGAATAA
Found at i:37468782 original size:20 final size:20
Alignment explanation
Indices: 37468681--37468783 Score: 57
Period size: 20 Copynumber: 5.2 Consensus size: 20
37468671 CTTGGGTACA
*
37468681 CCTGATTGCACATATGTGGC
1 CCTGATTGCACATATGTGCC
* * * * ** *
37468701 CTTGTTTGTACTTCGGTACC
1 CCTGATTGCACATATGTGCC
* *
37468721 CCTGATTGCACATACGTGGC
1 CCTGATTGCACATATGTGCC
* * *
37468741 CCT-ATTTGTACTTCA-GTACC
1 CCTGA-TTGCACAT-ATGTGCC
37468761 CCTGATTGCACATATGTGCC
1 CCTGATTGCACATATGTGCC
37468781 CCT
1 CCT
37468784 ATTTGTACTT
Statistics
Matches: 56, Mismatches: 23, Indels: 8
0.64 0.26 0.09
Matches are distributed among these distances:
19 2 0.04
20 52 0.93
21 2 0.04
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.34
Consensus pattern (20 bp):
CCTGATTGCACATATGTGCC
Found at i:37468802 original size:20 final size:20
Alignment explanation
Indices: 37468740--37468803 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
37468730 ACATACGTGG
37468740 CCCTATTTGTACTTCAGTAC
1 CCCTATTTGTACTTCAGTAC
* * *
37468760 CCCTGA-TTGCACAT-ATGTGC
1 CCCT-ATTTGTACTTCA-GTAC
37468780 CCCTATTTGTACTTCAGTAC
1 CCCTATTTGTACTTCAGTAC
37468800 CCCT
1 CCCT
37468804 GAATGAACTT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.36
Consensus pattern (20 bp):
CCCTATTTGTACTTCAGTAC
Found at i:37468820 original size:40 final size:40
Alignment explanation
Indices: 37468643--37468832 Score: 236
Period size: 40 Copynumber: 4.8 Consensus size: 40
37468633 TAATTATTGT
* ** *
37468643 TGATTGCACATGCGTGCCCCTATTTGTACTTGGGTACACC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCC
* * * * *
37468683 TGATTGCACATATGTGGCCTTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCC
*
37468723 TGATTGCACATACGTGGCCCTATTTGTACTTCAGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCC
*
37468763 TGATTGCACATATGTGCCCCTATTTGTACTTCAGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCC
* * * * *
37468803 TGAATGAACTTACGTGCCCCTGTTTATACT
1 TGATTGCACATACGTGCCCCTATTTGTACT
37468833 CTAGAAGCCC
Statistics
Matches: 131, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 131 1.00
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCC
Found at i:37469666 original size:54 final size:54
Alignment explanation
Indices: 37469602--37469708 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 54
37469592 TTTAGCACAT
* * *
37469602 GGCCTAGCACACGGCTTAGCGCACGGACGTGTGTGGCAACTCAGAGAGTTACAC
1 GGCCTAGCACACGGCCTAGCACACGGACGTGTGAGGCAACTCAGAGAGTTACAC
* * ** * *
37469656 GGCCTAGCACATGGCCTGGCACACGGGTGTGTGAGGCTACTCAGTGAGTTACA
1 GGCCTAGCACACGGCCTAGCACACGGACGTGTGAGGCAACTCAGAGAGTTACA
37469709 TGGGTGGAGA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.22, C:0.26, G:0.33, T:0.19
Consensus pattern (54 bp):
GGCCTAGCACACGGCCTAGCACACGGACGTGTGAGGCAACTCAGAGAGTTACAC
Found at i:37476282 original size:13 final size:12
Alignment explanation
Indices: 37476274--37476309 Score: 56
Period size: 11 Copynumber: 3.0 Consensus size: 12
37476264 CCAAAATTTG
37476274 GAAAAAAAATTA
1 GAAAAAAAATTA
37476286 G-AAAAAAATTA
1 GAAAAAAAATTA
37476297 GAAAAAAATATTA
1 GAAAAAAA-ATTA
37476310 TTTATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.50
12 7 0.32
13 4 0.18
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (12 bp):
GAAAAAAAATTA
Found at i:37476290 original size:11 final size:11
Alignment explanation
Indices: 37476276--37476305 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
37476266 AAAATTTGGA
37476276 AAAAAAATTAG
1 AAAAAAATTAG
37476287 AAAAAAATTAG
1 AAAAAAATTAG
37476298 AAAAAAAT
1 AAAAAAAT
37476306 ATTATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (11 bp):
AAAAAAATTAG
Found at i:37476340 original size:5 final size:5
Alignment explanation
Indices: 37476330--37476358 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
37476320 ATTATTTATA
37476330 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
37476359 AACAAACCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:37478087 original size:50 final size:50
Alignment explanation
Indices: 37477976--37478160 Score: 244
Period size: 50 Copynumber: 3.7 Consensus size: 50
37477966 ACATGCGAAA
* * ** * * * *
37477976 GCCATGTCCCAAACATGGTCTTACATGGGATGTTCTCATATCGATGCCCAT
1 GCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGGTGCCAAC
* **
37478027 GTCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAAC
*
37478077 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAAC
*
37478127 GCCATGTCCCAGACATGGTCTTACATGGGACCTC
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTC
37478161 CTTACCCAAA
Statistics
Matches: 119, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 94 0.79
51 25 0.21
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAAC
Found at i:37478279 original size:13 final size:13
Alignment explanation
Indices: 37478261--37478287 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37478251 AGTCAACATT
37478261 AAATAAATTCATA
1 AAATAAATTCATA
37478274 AAATAAATTCATA
1 AAATAAATTCATA
37478287 A
1 A
37478288 TTTCTGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATAAATTCATA
Found at i:37481385 original size:40 final size:40
Alignment explanation
Indices: 37481313--37481482 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
37481303 GGACTAAGAT
* * * *
37481313 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTT
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
37481353 CCGAAGGCATTCGTGTGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
37481393 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
37481433 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
37481472 CCGAAGGCATT
1 CCGAAGGCATT
37481483 TGAACGAGGA
Statistics
Matches: 113, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 33 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:37481409 original size:80 final size:79
Alignment explanation
Indices: 37481260--37481482 Score: 232
Period size: 80 Copynumber: 2.8 Consensus size: 79
37481250 TTGAATGCTG
* * * ** * * * * *
37481260 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTG-TGAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
*
37481324 TGTGCGAGATACTAAA
64 CGTGCGAGATACTAAA
* * * *
37481340 TCCGGGTTAAGTTCCGAAGGCATTCGTGTGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* **
37481405 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* *
37481420 TCCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
37481483 TGAACGAGGA
Statistics
Matches: 119, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
79 36 0.30
80 80 0.67
81 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAA
Found at i:37481502 original size:79 final size:80
Alignment explanation
Indices: 37481335--37481517 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
37481325 GTGCGAGATA
* * * *
37481335 CTAAATCCGGGTTAAGTTCCGAAGGCATTCGTGTGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
37481400 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * *
37481415 TTAAATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
37481479 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
37481494 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
37481518 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.54
80 26 0.30
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:37481744 original size:28 final size:28
Alignment explanation
Indices: 37481676--37481732 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
37481666 TTCGGCTAAG
37481676 TTAGTCTATTGTGTATGTGCATAAGGGT
1 TTAGTCTATTGTGTATGTGCATAAGGGT
37481704 TTAGTCTATTGTGTATGTGCATAAGGGT
1 TTAGTCTATTGTGTATGTGCATAAGGGT
37481732 T
1 T
37481733 GTTAATGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.07, G:0.28, T:0.44
Consensus pattern (28 bp):
TTAGTCTATTGTGTATGTGCATAAGGGT
Found at i:37483678 original size:45 final size:46
Alignment explanation
Indices: 37483611--37483734 Score: 191
Period size: 46 Copynumber: 2.8 Consensus size: 46
37483601 CATATGACCT
**
37483611 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAACTACCA
*
37483654 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAACTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAACTACCA
*
37483700 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
37483735 CACTTATCAC
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.29
46 40 0.55
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAACTACCA
Found at i:37483717 original size:46 final size:45
Alignment explanation
Indices: 37483611--37483845 Score: 198
Period size: 37 Copynumber: 5.8 Consensus size: 45
37483601 CATATGACCT
**
37483611 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAACTACCA
*
37483654 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAACTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAACTACCA
*
37483700 CTTATCACTTTATCACTTGATCAGATAAGTGTAG--------CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAACTACCA
*
37483737 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--A--ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAACTACCA
**
37483774 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T--A--ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAACTACCA
**
37483811 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
37483846 CACTTATCAC
Statistics
Matches: 174, Mismatches: 8, Indels: 22
0.85 0.04 0.11
Matches are distributed among these distances:
34 1 0.01
35 2 0.01
37 96 0.55
39 2 0.01
40 1 0.01
43 8 0.05
44 4 0.02
45 21 0.12
46 39 0.22
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAACTACCA
Found at i:37483738 original size:37 final size:37
Alignment explanation
Indices: 37483696--37483872 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
37483686 AGCTGAAACT
* **
37483696 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
37483733 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
37483770 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
37483807 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
37483844 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
37483873 AGTACTCAAA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:37497557 original size:40 final size:40
Alignment explanation
Indices: 37497527--37497696 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
37497517 GGACTAAGAT
* *
37497527 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * *
37497567 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** *
37497607 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
37497647 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
37497686 CCGAAGGCATT
1 CCGAAGGCATT
37497697 TGAACGAGGA
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 33 0.28
40 83 0.72
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:37497623 original size:80 final size:79
Alignment explanation
Indices: 37497474--37497696 Score: 232
Period size: 80 Copynumber: 2.8 Consensus size: 79
37497464 TTGAATGCTG
* * * ** * * * * *
37497474 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
*
37497538 TGTGCGAGATACTAAA
64 CGTGCGAGATACTAAA
* * *
37497554 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* **
37497619 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * *
37497634 TCCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
37497697 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
79 35 0.29
80 81 0.68
81 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAA
Found at i:37497716 original size:79 final size:80
Alignment explanation
Indices: 37497549--37497731 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
37497539 GTGCGAGATA
* * *
37497549 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
37497614 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
37497629 TTAAATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
37497693 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
37497708 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
37497732 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:37504357 original size:50 final size:50
Alignment explanation
Indices: 37504279--37504461 Score: 294
Period size: 50 Copynumber: 3.7 Consensus size: 50
37504269 ATGCGAAAGT
**
37504279 CATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGC
1 CATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGC
* *
37504329 CATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGC
1 CATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGC
* * *
37504379 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAATGC
1 CATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGC
*
37504429 CATGTCCCAAACATGGTTTTACATGGGACCTCT
1 CATGTCCCAAACATGGTCTTACATGGGACCTCT
37504462 TTACCCAAAT
Statistics
Matches: 124, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 124 1.00
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
CATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGC
Found at i:37507680 original size:47 final size:47
Alignment explanation
Indices: 37507602--37508203 Score: 918
Period size: 47 Copynumber: 12.6 Consensus size: 47
37507592 CCCTTCGGGA
* * * *
37507602 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* * *
37507649 CCTGTCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37507696 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37507743 CTTATCACATATATACACTTTCACATTCATCACATAGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37507790 CTTATCACATATATCTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATA--TACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37507839 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37507888 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37507935 CTTATCACATATATATACACTTTCACATTGATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37507984 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37508033 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37508080 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37508131 CTTATCACATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37508178 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
37508204 CACAATTATC
Statistics
Matches: 515, Mismatches: 29, Indels: 22
0.91 0.05 0.04
Matches are distributed among these distances:
46 3 0.01
47 287 0.56
49 174 0.34
51 51 0.10
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37507905 original size:145 final size:143
Alignment explanation
Indices: 37507602--37508203 Score: 949
Period size: 145 Copynumber: 4.2 Consensus size: 143
37507592 CCCTTCGGGA
* * * * * *
37507602 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTTA-GCCCTGTCAC--ATATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGCCTTATCACATATATATA
* *
37507664 CATTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCAC
65 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
*
37507729 ATCGGCTATTAGGC
130 ATCGGCCATTAGGC
* *
37507743 CTTATCACATATATACACTTTCACATTCATCACATAGGCCATTAGGCCTTATCACATATATCTAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
37507808 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
* *
37507873 CATTGGCCATTCGGC
129 CATCGGCCATTAGGC
37507888 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
37507953 ACTTTCACATTGATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
*
37508018 CATCGGCCATTCGGC
129 CATCGGCCATTAGGC
37508033 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAT
*
37508098 ACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
*
37508163 CACCGGCCATTAGGC
129 CATCGGCCATTAGGC
* *
37508178 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
37508204 CACAATTATC
Statistics
Matches: 432, Mismatches: 22, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
140 3 0.01
141 45 0.10
143 44 0.10
145 293 0.68
147 47 0.11
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:37510205 original size:22 final size:22
Alignment explanation
Indices: 37510180--37510222 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
37510170 ACCCCTCCCT
37510180 TTTTATTTCT-TTATTACTAACC
1 TTTTATTT-TATTATTACTAACC
*
37510202 TTTTATTTTATTATTTCTAAC
1 TTTTATTTTATTATTACTAAC
37510223 ATAAATCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTATTTTATTATTACTAACC
Found at i:37511517 original size:11 final size:11
Alignment explanation
Indices: 37511496--37511538 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
37511486 ACCCTTTTAT
*
37511496 TTAACATAAAA
1 TTAAAATAAAA
*
37511507 TTGAAATAAAA
1 TTAAAATAAAA
37511518 TTAAAAT-AAA
1 TTAAAATAAAA
*
37511528 TTAGAATAAAA
1 TTAAAATAAAA
37511539 GTTCCTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (11 bp):
TTAAAATAAAA
Found at i:37515253 original size:47 final size:47
Alignment explanation
Indices: 37515190--37515522 Score: 513
Period size: 47 Copynumber: 7.1 Consensus size: 47
37515180 GAAATGATAG
* *
37515190 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
37515237 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37515284 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
37515331 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
37515378 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
37515425 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * * *
37515472 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37515519 TAAG
1 TAAG
37515523 TCCCGAAGGG
Statistics
Matches: 268, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 268 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:37518647 original size:50 final size:50
Alignment explanation
Indices: 37518593--37518699 Score: 126
Period size: 50 Copynumber: 2.1 Consensus size: 50
37518583 ACATGAGACT
* * * * *
37518593 TCTCATATCGG-AGCCTATGCCATGTCTCAGACATGGTCTTATGGGGGACC
1 TCTCATATCGGTA-CCAATGCCATGTCCCAAACATGGTCTAACGGGGGACC
* * *
37518643 TCTCATCTCGGTACCAATGTCATGTCCCAAACATGGTCTAACGTGGGACC
1 TCTCATATCGGTACCAATGCCATGTCCCAAACATGGTCTAACGGGGGACC
37518693 TCTCATA
1 TCTCATA
37518700 ACCTCAATAA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 46 0.98
51 1 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TCTCATATCGGTACCAATGCCATGTCCCAAACATGGTCTAACGGGGGACC
Found at i:37526005 original size:20 final size:20
Alignment explanation
Indices: 37525980--37526018 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
37525970 TACTTTCTTC
37525980 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
37526000 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
37526019 AAATACCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:37526347 original size:50 final size:49
Alignment explanation
Indices: 37526224--37526349 Score: 121
Period size: 49 Copynumber: 2.6 Consensus size: 49
37526214 ATAACATGCC
* * * *
37526224 AATGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTACTACA
1 AATGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCATATACGACA
* * * * *
37526273 AATGTCATATCCCAAATATGGTCTTACATGAGA-GTTCTCATAT-CGGAGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGAGATGTT-TCATATAC-GA-CA
*
37526323 CATGCCATGTCCCAGACATGGTCTTAC
1 AATGCCATGTCCCAGACATGGTCTTAC
37526350 GGAGGACCTC
Statistics
Matches: 60, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
48 4 0.07
49 33 0.55
50 23 0.38
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (49 bp):
AATGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCATATACGACA
Found at i:37531749 original size:12 final size:12
Alignment explanation
Indices: 37531732--37531762 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
37531722 ATATTGCAAG
37531732 AAATAATTTCAA
1 AAATAATTTCAA
37531744 AAATAATTTCAA
1 AAATAATTTCAA
37531756 AAATAAT
1 AAATAAT
37531763 GATTAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATAATTTCAA
Found at i:37535495 original size:16 final size:16
Alignment explanation
Indices: 37535474--37535504 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37535464 TCCCGACCCC
*
37535474 ATGCAGTATGTCATGT
1 ATGCAGTATGCCATGT
37535490 ATGCAGTATGCCATG
1 ATGCAGTATGCCATG
37535505 CTCAGAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (16 bp):
ATGCAGTATGCCATGT
Found at i:37537035 original size:24 final size:24
Alignment explanation
Indices: 37536986--37537036 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
37536976 TTTTCAAAAT
* * *
37536986 TCCTTGATTTTCTCCCCAATCTCC
1 TCCTTGATTTGCTCCCAAAACTCC
37537010 TCCTTGATTTGCTCCACAAAAC-CC
1 TCCTTGATTTGCTCC-CAAAACTCC
37537034 TCC
1 TCC
37537037 AAGACCAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (24 bp):
TCCTTGATTTGCTCCCAAAACTCC
Found at i:37546252 original size:3 final size:3
Alignment explanation
Indices: 37546244--37546299 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
37546234 CTCTGTGGGA
*
37546244 TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
37546292 TCT TCT TC
1 TCT TCT TC
37546300 AGGATCCTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:37547221 original size:25 final size:26
Alignment explanation
Indices: 37547193--37547246 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
37547183 TAATTAGTAT
*
37547193 AAAATATT-AATAATTCAAT-AAATTG
1 AAAA-ATTAAATAATTAAATAAAATTG
37547218 AAAAATTAAATAATTAAATAAAATTG
1 AAAAATTAAATAATTAAATAAAATTG
37547244 AAA
1 AAA
37547247 TTTAGGAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 3 0.12
25 14 0.54
26 9 0.35
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (26 bp):
AAAAATTAAATAATTAAATAAAATTG
Found at i:37547385 original size:21 final size:20
Alignment explanation
Indices: 37547356--37547397 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
37547346 ATGTCTTGAT
37547356 GGTGTGGTGCGA-TAGGCAAG
1 GGTGTGGTGCGAGTA-GCAAG
37547376 GGTGTTGGTGCGAGTAGCAAG
1 GGTG-TGGTGCGAGTAGCAAG
37547397 G
1 G
37547398 CGGCAGCGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 14 0.70
22 2 0.10
ACGTcount: A:0.19, C:0.10, G:0.50, T:0.21
Consensus pattern (20 bp):
GGTGTGGTGCGAGTAGCAAG
Found at i:37558957 original size:43 final size:39
Alignment explanation
Indices: 37558878--37558960 Score: 94
Period size: 43 Copynumber: 2.0 Consensus size: 39
37558868 TAATCCTAGG
* * *
37558878 GAAAAAGAATTTAAAAAGAGAAGATAATCTTAGGTTGTT
1 GAAAAAGAATTTAAAAAGAGAACATAAACATAGGTTGTT
*
37558917 GAAAAGAGAATTTTAAAAAAGGAGAACATAAACATGGGTTGTT
1 GAAAA-AGAA-TTT-AAAAA-GAGAACATAAACATAGGTTGTT
37558960 G
1 G
37558961 GATTTACCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
39 5 0.14
40 4 0.11
41 3 0.08
42 5 0.14
43 19 0.53
ACGTcount: A:0.48, C:0.04, G:0.23, T:0.25
Consensus pattern (39 bp):
GAAAAAGAATTTAAAAAGAGAACATAAACATAGGTTGTT
Found at i:37568391 original size:21 final size:21
Alignment explanation
Indices: 37568358--37568401 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
37568348 TTGTTTTTAC
37568358 TTAGGTACATTTAGTT-GTATT
1 TTAGGTACATTTA-TTCGTATT
37568379 TTAGG-ACATTTTATTCGTATT
1 TTAGGTACA-TTTATTCGTATT
37568400 TT
1 TT
37568402 CATCATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.23, C:0.07, G:0.16, T:0.55
Consensus pattern (21 bp):
TTAGGTACATTTATTCGTATT
Found at i:37569928 original size:27 final size:27
Alignment explanation
Indices: 37569887--37569947 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
37569877 CTAGGAACGG
* * * *
37569887 AAATGATCCTGGTCTTAACATTAATCC
1 AAATGGTCCTAGTCTCAACAATAATCC
* *
37569914 AAATGGTCCTAGTCTCGATAATAATCC
1 AAATGGTCCTAGTCTCAACAATAATCC
37569941 AAATGGT
1 AAATGGT
37569948 TAGGATTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (27 bp):
AAATGGTCCTAGTCTCAACAATAATCC
Found at i:37573932 original size:20 final size:20
Alignment explanation
Indices: 37573909--37573946 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
37573899 AGCTATTTGC
37573909 TTGTACTT-AGGTACATTTAG
1 TTGTACTTCAGG-ACATTTAG
*
37573929 TTGTATTTCAGGACATTT
1 TTGTACTTCAGGACATTT
37573947 TATTCATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.47
Consensus pattern (20 bp):
TTGTACTTCAGGACATTTAG
Found at i:37580076 original size:9 final size:9
Alignment explanation
Indices: 37580062--37580092 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
37580052 AGAGGAAAGA
37580062 GAAGAGGAG
1 GAAGAGGAG
37580071 GAAGAGGAG
1 GAAGAGGAG
37580080 GAAGAGGA-
1 GAAGAGGAG
37580088 GAAGA
1 GAAGA
37580093 ATGATGATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.23
9 17 0.77
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (9 bp):
GAAGAGGAG
Found at i:37582731 original size:28 final size:28
Alignment explanation
Indices: 37582622--37582756 Score: 137
Period size: 28 Copynumber: 4.8 Consensus size: 28
37582612 TCTAGTGAAT
* * *
37582622 TATCTATGTGTTTATTTTCCCAAC-GAAC
1 TATCTCTGTGTTTATTGTCCCAGCAG-AC
* *
37582650 TATCTCTTTGTTTATTGTCCCAGCGGAC
1 TATCTCTGTGTTTATTGTCCCAGCAGAC
*
37582678 TATCTCTGTGTTTACTGTCCCAGCAGAC
1 TATCTCTGTGTTTATTGTCCCAGCAGAC
* * ** *
37582706 TATCTCTATGTTTATTATCCTTGCAGGC
1 TATCTCTGTGTTTATTGTCCCAGCAGAC
* *
37582734 TATCTTTGTGTTTACTGTCCCAG
1 TATCTCTGTGTTTATTGTCCCAG
37582757 TGAACTATTT
Statistics
Matches: 87, Mismatches: 19, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
28 86 0.99
29 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.43
Consensus pattern (28 bp):
TATCTCTGTGTTTATTGTCCCAGCAGAC
Found at i:37582756 original size:56 final size:56
Alignment explanation
Indices: 37582622--37582770 Score: 167
Period size: 56 Copynumber: 2.7 Consensus size: 56
37582612 TCTAGTGAAT
* * * * *
37582622 TATCTATGTGTTTATTTTCCCAACGAACTATCTCTTTGTTTATTGTCCCAGCGGAC
1 TATCTATGTGTTTACTGTCCCAGCGAACTATCTCTATGTTTATTATCCCAGCGGAC
* **
37582678 TATCTCTGTGTTTACTGTCCCAGC-AGACTATCTCTATGTTTATTATCCTTGCAGG-C
1 TATCTATGTGTTTACTGTCCCAGCGA-ACTATCTCTATGTTTATTATCCCAGC-GGAC
* * *
37582734 TATCTTTGTGTTTACTGTCCCAGTGAACTATTTCTAT
1 TATCTATGTGTTTACTGTCCCAGCGAACTATCTCTAT
37582771 AGATGTCATG
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
55 1 0.01
56 75 0.95
57 3 0.04
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.44
Consensus pattern (56 bp):
TATCTATGTGTTTACTGTCCCAGCGAACTATCTCTATGTTTATTATCCCAGCGGAC
Found at i:37585876 original size:49 final size:50
Alignment explanation
Indices: 37585743--37585879 Score: 150
Period size: 49 Copynumber: 2.8 Consensus size: 50
37585733 TCACCATTTG
* * * *
37585743 TGGACAAGCCACCACTGATTTCTAGATAAACTGACACTGATAACACTTTG
1 TGGACAAGCCACCACTAATTTGTAGATAAACTGCCACTGATAACACTTTA
* ** * * **
37585793 TGGACAAGCCACCACTTATACGCAAATATGCTGCCACTGA-AACACTTTA
1 TGGACAAGCCACCACTAATTTGTAGATAAACTGCCACTGATAACACTTTA
* *
37585842 TGGACAAGTCGCCACTAATTTGTAGATAAACTGCCACT
1 TGGACAAGCCACCACTAATTTGTAGATAAACTGCCACT
37585880 TACTTCCATC
Statistics
Matches: 68, Mismatches: 19, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
49 37 0.54
50 31 0.46
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.25
Consensus pattern (50 bp):
TGGACAAGCCACCACTAATTTGTAGATAAACTGCCACTGATAACACTTTA
Found at i:37586047 original size:26 final size:26
Alignment explanation
Indices: 37586011--37586066 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
37586001 CATGCTTTTT
37586011 ACATTAGATCATAGATCTCAATATTA
1 ACATTAGATCATAGATCTCAATATTA
37586037 ACATTAGATCATAGATCTCAATATTA
1 ACATTAGATCATAGATCTCAATATTA
37586063 ACAT
1 ACAT
37586067 ACTCATTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (26 bp):
ACATTAGATCATAGATCTCAATATTA
Found at i:37587278 original size:32 final size:32
Alignment explanation
Indices: 37587240--37587310 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
37587230 GAAAGCAATG
37587240 ATAGGTGGGTGAGTAGGAGGAAAGGTTGGTCA
1 ATAGGTGGGTGAGTAGGAGGAAAGGTTGGTCA
37587272 ATAGGTGGGTGAGTAGGAGGAAAGGTTGGTCA
1 ATAGGTGGGTGAGTAGGAGGAAAGGTTGGTCA
37587304 ACTAGGT
1 A-TAGGT
37587311 CTAGGTTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 33 0.87
33 5 0.13
ACGTcount: A:0.28, C:0.04, G:0.45, T:0.23
Consensus pattern (32 bp):
ATAGGTGGGTGAGTAGGAGGAAAGGTTGGTCA
Found at i:37591495 original size:79 final size:81
Alignment explanation
Indices: 37591362--37591543 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 81
37591352 AATGATGTCT
* *
37591362 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGT
*
37591426 GCGAGATACTA-ATTCC
66 GCGAGATACTATA-ACC
* * * **
37591442 GGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAATTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAATTG
*
37591504 TGCGAGTTACTATAACC
65 TGCGAGATACTATAACC
*
37591521 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
37591544 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 57 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGT
GCGAGATACTATAACC
Found at i:37591557 original size:40 final size:40
Alignment explanation
Indices: 37591362--37591543 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
37591352 AATGATGTCT
* * * *
37591362 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACC
* * *
37591402 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-ACC
37591442 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
* *
37591481 GGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
*
37591521 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
37591544 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
Found at i:37591565 original size:79 final size:79
Alignment explanation
Indices: 37591412--37591566 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
37591402 GGACTAAGAT
* * **
37591412 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
37591477 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
37591491 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
37591554 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
37591567 ATTTCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.59
80 25 0.38
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:37599428 original size:79 final size:81
Alignment explanation
Indices: 37599292--37599476 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
37599282 TTGAATGATG
* *
37599292 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
37599356 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
37599371 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
37599433 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
37599451 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
37599477 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:37599490 original size:40 final size:40
Alignment explanation
Indices: 37599293--37599476 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
37599283 TGAATGATGT
* * * *
37599293 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
37599333 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
37599373 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
37599411 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
37599452 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
37599477 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:37599498 original size:79 final size:79
Alignment explanation
Indices: 37599345--37599509 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
37599335 GGACTAAGAT
* * **
37599345 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
37599410 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
37599424 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
37599487 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
37599503 CCGAAGG
1 CCGAAGG
37599510 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:37602107 original size:21 final size:22
Alignment explanation
Indices: 37602082--37602123 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
37602072 TTTGGCAAGA
37602082 AATTTTATATTATTA-CAAATT
1 AATTTTATATTATTACCAAATT
* *
37602103 AATTTTTTATTGTTACCAAAT
1 AATTTTATATTATTACCAAAT
37602124 CGGTAGCGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
AATTTTATATTATTACCAAATT
Found at i:37603002 original size:12 final size:12
Alignment explanation
Indices: 37602987--37603027 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
37602977 GGAAAGGGAA
37602987 AGAGAACGAGAT
1 AGAGAACGAGAT
*
37602999 AGAGAGCGAGAT
1 AGAGAACGAGAT
* *
37603011 AGAGAAAGAGAA
1 AGAGAACGAGAT
37603023 AGAGA
1 AGAGA
37603028 TCGCTTTAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.54, C:0.05, G:0.37, T:0.05
Consensus pattern (12 bp):
AGAGAACGAGAT
Found at i:37603027 original size:18 final size:19
Alignment explanation
Indices: 37602978--37603028 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
37602968 TCGAGAAAGG
*
37602978 GAAAGGGAAAGAGA-ACGA
1 GAAAGAGAAAGAGATACGA
* **
37602996 GATAGAGAGCGAGATA-GA
1 GAAAGAGAAAGAGATACGA
37603014 GAAAGAGAAAGAGAT
1 GAAAGAGAAAGAGAT
37603029 CGCTTTAGTA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
18 24 0.96
19 1 0.04
ACGTcount: A:0.53, C:0.04, G:0.37, T:0.06
Consensus pattern (19 bp):
GAAAGAGAAAGAGATACGA
Found at i:37614340 original size:22 final size:22
Alignment explanation
Indices: 37614304--37614347 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
37614294 GATAATAATA
37614304 TTTAAAAATTCAA-TTAAAATT
1 TTTAAAAATTCAATTTAAAATT
*
37614325 TTTAAAGAATTTAATTTAAAATT
1 TTTAAA-AATTCAATTTAAAATT
37614348 AGAGTCATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 6 0.30
23 8 0.40
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
TTTAAAAATTCAATTTAAAATT
Found at i:37614395 original size:22 final size:22
Alignment explanation
Indices: 37614367--37614412 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
37614357 GTTTAGGCAC
37614367 GTATGTTGAAATTAACACATAA
1 GTATGTTGAAATTAACACATAA
37614389 GTATGTTGAAATTAACACATAA
1 GTATGTTGAAATTAACACATAA
37614411 GT
1 GT
37614413 GATGCAAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (22 bp):
GTATGTTGAAATTAACACATAA
Found at i:37615047 original size:23 final size:21
Alignment explanation
Indices: 37615008--37615065 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 21
37614998 GGATTAAAGC
*
37615008 TTAATTAATTATGATTAAGTAAA
1 TTAATTAATTATAATT-A-TAAA
37615031 TTAATTAAGTT-TAATTATAAA
1 TTAATTAA-TTATAATTATAAA
*
37615052 TTAATCTAACTATA
1 TTAAT-TAATTATA
37615066 TAAATCAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 10 0.33
22 6 0.20
23 12 0.40
24 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (21 bp):
TTAATTAATTATAATTATAAA
Found at i:37616480 original size:25 final size:25
Alignment explanation
Indices: 37616442--37616530 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
37616432 TTACTGATTG
*
37616442 CAGCTCGTAAGAGCTTACCGATTCT
1 CAGCTCGTATGAGCTTACCGATTCT
* **
37616467 CAACTCGTATGAGCTTATTGATT-T
1 CAGCTCGTATGAGCTTACCGATTCT
*
37616491 ACAGCTCGTGA-GAGCATACCGATTCAT
1 -CAGCTCGT-ATGAGCTTACCGATTC-T
37616518 -AGCTCGTATGAGC
1 CAGCTCGTATGAGC
37616531 ATACATGTAC
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
24 2 0.04
25 47 0.92
26 1 0.02
27 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATTCT
Found at i:37631954 original size:82 final size:81
Alignment explanation
Indices: 37631841--37631996 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
37631831 AAATTGTACA
* * * *
37631841 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
37631905 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
37631922 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGGGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
37631987 TGCGAGTTGA
65 TGCGAATTGA
37631997 TTGTATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.77
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37631998 original size:27 final size:27
Alignment explanation
Indices: 37631841--37631996 Score: 161
Period size: 27 Copynumber: 5.7 Consensus size: 27
37631831 AAATTGTACA
* * *
37631841 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
37631868 GCACTCAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
37631895 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
37631922 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
37631950 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
37631977 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
37631997 TTGTATAGCA
Statistics
Matches: 107, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
27 83 0.78
28 24 0.22
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:37632007 original size:27 final size:27
Alignment explanation
Indices: 37631840--37632017 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
37631830 TAAATTGTAC
* * *
37631840 AGCACTAAGGGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * ** *
37631867 TGCACTCAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
* ** *
37631893 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* *
37631921 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
37631949 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
37631976 GGCACTAAGTGTGCGAGTTGATTGTAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
37632003 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37632018 GGCTCAATAT
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 99 0.81
28 23 0.19
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:37632008 original size:82 final size:81
Alignment explanation
Indices: 37631833--37632017 Score: 201
Period size: 82 Copynumber: 2.3 Consensus size: 81
37631823 GCGGGATTAA
* * * * *
37631833 ATTGTACAGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
37631898 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
37631914 ACCATGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
37631978 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
37631996 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
37632018 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 21, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
81 18 0.22
82 63 0.78
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:37635104 original size:19 final size:20
Alignment explanation
Indices: 37635080--37635124 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
37635070 CTTTGTGGAT
*
37635080 TTTTGG-ACTTTTAA-TTTTG
1 TTTTGGAAC-TTTAACTTTGG
37635099 TTTTGGAACTTTAACTTTGG
1 TTTTGGAACTTTAACTTTGG
37635119 TTTTGG
1 TTTTGG
37635125 TATTCGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.16, C:0.07, G:0.20, T:0.58
Consensus pattern (20 bp):
TTTTGGAACTTTAACTTTGG
Found at i:37636064 original size:19 final size:19
Alignment explanation
Indices: 37636040--37636110 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
37636030 GTGTTAATGC
37636040 GCTAGGATGCACTTCGTGT
1 GCTAGGATGCACTTCGTGT
* **
37636059 GCTAGGATGTACTT--TAA
1 GCTAGGATGCACTTCGTGT
* *
37636076 GCTTCAGTATGCGCTTCGTGT
1 GC-T-AGGATGCACTTCGTGT
37636097 GCTAGGATGCACTT
1 GCTAGGATGCACTT
37636111 TATATGTCAA
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
17 3 0.08
18 1 0.03
19 30 0.79
20 1 0.03
21 3 0.08
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (19 bp):
GCTAGGATGCACTTCGTGT
Found at i:37636125 original size:38 final size:37
Alignment explanation
Indices: 37636046--37636126 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 37
37636036 ATGCGCTAGG
* *
37636046 ATGCACTTCGTGTGCTAGGATGTACTTTAAGCTTCAGT
1 ATGCACTTCGTGTGCTAGGATGCACTTTAAGC-TCAAT
*
37636084 ATGCGCTTCGTGTGCTAGGATGCACTTTATATG-TCAAT
1 ATGCACTTCGTGTGCTAGGATGCACTTTA-A-GCTCAAT
37636122 ATGCA
1 ATGCA
37636127 ATATCTTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
38 35 0.95
39 1 0.03
40 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (37 bp):
ATGCACTTCGTGTGCTAGGATGCACTTTAAGCTCAAT
Found at i:37640489 original size:49 final size:49
Alignment explanation
Indices: 37640327--37640491 Score: 124
Period size: 49 Copynumber: 3.3 Consensus size: 49
37640317 CTCCATTCAA
*
37640327 TGGGACATGTTTGTTATGTTGGAGAGTGTTAGCTTTATGATTCACTTTT
1 TGGGACATGTTTGTTATGTTGGAGAGTGTTAGCTTTATGATTCACATTT
* * ** * * *
37640376 TGGGATATGTTTGACTCTATGAATCAATTAGTG-T-G-TTGGA-GATGCTC-CATTCAA
1 TGGGACATGTTTG--T-TATG-TTGGA-GAGTGTTAGCTT-TATGAT--TCACATT--T
37640430 TGGGACATGTTTGTTATGTTGGAGAGTGTTAGCTTTATGATTCACATTT
1 TGGGACATGTTTGTTATGTTGGAGAGTGTTAGCTTTATGATTCACATTT
*
37640479 TGGGATATGTTTG
1 TGGGACATGTTTG
37640492 ACTATGAATC
Statistics
Matches: 85, Mismatches: 16, Indels: 30
0.65 0.12 0.23
Matches are distributed among these distances:
49 28 0.33
50 5 0.06
51 16 0.19
52 15 0.18
53 5 0.06
54 16 0.19
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.43
Consensus pattern (49 bp):
TGGGACATGTTTGTTATGTTGGAGAGTGTTAGCTTTATGATTCACATTT
Found at i:37646839 original size:21 final size:21
Alignment explanation
Indices: 37646815--37646856 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
37646805 TTTATCTATA
37646815 CAGATA-AATTTAATTCAATTT
1 CAGATATAA-TTAATTCAATTT
*
37646836 CAGATATAATTCATTCAATTT
1 CAGATATAATTAATTCAATTT
37646857 AATCCAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (21 bp):
CAGATATAATTAATTCAATTT
Found at i:37661855 original size:25 final size:25
Alignment explanation
Indices: 37661818--37661887 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
37661808 TGCTCTTATA
** *
37661818 AGCTTACTATTATTCAGCTCGGAGG
1 AGCTTACCGTTATTCAGCTCGAAGG
** *
37661843 AGCTTACCGTTATTTGGCTCAAAGG
1 AGCTTACCGTTATTCAGCTCGAAGG
*
37661868 AGCTTACCGTT-TACAGCTCG
1 AGCTTACCGTTATTCAGCTCG
37661888 TATGAGCATA
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
24 5 0.14
25 30 0.86
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (25 bp):
AGCTTACCGTTATTCAGCTCGAAGG
Found at i:37664456 original size:39 final size:40
Alignment explanation
Indices: 37664252--37664474 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
37664242 TTGAATGCTG
* * * * * *
37664252 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
37664292 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
37664332 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
37664372 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
37664412 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
37664451 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
37664475 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:37664494 original size:79 final size:80
Alignment explanation
Indices: 37664327--37664509 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
37664317 GTGCGAGATA
* * *
37664327 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
37664392 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
37664407 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
37664471 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
37664486 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
37664510 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:37672289 original size:39 final size:40
Alignment explanation
Indices: 37672085--37672307 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
37672075 TTGAATGCTG
* * * * * *
37672085 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
37672125 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
37672165 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
37672205 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
37672245 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
37672284 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
37672308 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:37672327 original size:79 final size:80
Alignment explanation
Indices: 37672160--37672342 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
37672150 GTGCGAGATA
* * *
37672160 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
37672225 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
37672240 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
37672304 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
37672319 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
37672343 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:37674059 original size:27 final size:27
Alignment explanation
Indices: 37674018--37674293 Score: 292
Period size: 27 Copynumber: 10.4 Consensus size: 27
37674008 TGGATAAGTT
37674018 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
37674045 GTAGAATTATTGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
37674072 GTAGAATTACCGAAATGCCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
37674099 GTAGAAATACTGAAATACCCTTGTA--
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
37674124 G--GAATT-CCAAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
37674148 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
37674175 GTAGAATTACCGAAATAAGCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
37674202 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
37674229 GTAGAAATACCGAAATACTCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
37674256 GTAGAATTACCGAGATACCCTTATGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
37674283 GTAAAATTACC
1 GTAGAATTACC
37674294 ATTTTGCCCT
Statistics
Matches: 203, Mismatches: 41, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
22 12 0.06
23 4 0.02
24 1 0.00
25 1 0.00
26 5 0.02
27 180 0.89
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Done.