Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006564.1 Hibiscus syriacus cultivar Beakdansim tig00016065_pilon, whole genome shotgun sequence
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: 1886890
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 8
Found at i:1341950 original size:29 final size:29
Alignment explanation
Indices: 1341910--1341974 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
1341900 CTATATATTA
* * * *
1341910 TATATATTTTTTCAAAATATTTTCAAAAG
1 TATATATATTTTCAAAACATCTTCAAAAC
*
1341939 TATATATATTTTCAAAACGTCTTCAAAAC
1 TATATATATTTTCAAAACATCTTCAAAAC
1341968 TATATAT
1 TATATAT
1341975 TATATATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.45
Consensus pattern (29 bp):
TATATATATTTTCAAAACATCTTCAAAAC
Found at i:1341999 original size:94 final size:94
Alignment explanation
Indices: 1341706--1342005 Score: 261
Period size: 94 Copynumber: 3.3 Consensus size: 94
1341696 TATATTATAT
* ** * *
1341706 ATATTTTC-AAAACTATATA-T-TAGGTATATTTTCAAAATGTTTTCAAAAAC--TATATTAT-A
1 ATATTTTCAAAAATTATATATTATATATATATTTTCAAAATATTTTCAAAAACTATATATTTTCA
* * **
1341765 TATA-TATATAT-ATATATATATATTCAAA
66 -AAACTATATATCATAAATATATATTTGAA
* * * *
1341793 ATGTTTTTAGAAATTATATATTATATATATATTTTCAAAATGTTTTCAAAAACTATATATTTTCA
1 ATATTTTCAAAAATTATATATTATATATATATTTTCAAAATATTTTCAAAAACTATATATTTTCA
* *
1341858 AAACTATATATTATATATATATATTTGAA
66 AAACTATATATCATAAATATATATTTGAA
* * *
1341887 ATGTTTTCAAAAACTATATATTATATATATTTTTTCAAAATATTTTCAAAAGTA-TATATATTTT
1 ATATTTTCAAAAATTATATATTATATATATATTTTCAAAATATTTTCAAAA--ACTATATATTTT
* * *
1341951 CAAAAC-GTCT-TCA-AAACTATATATTAT-AT
64 CAAAACTATATATCATAAA-TATATATT-TGAA
1341980 ATATTTTCAAAAATT-TATA-TATATAT
1 ATATTTTCAAAAATTATATATTATATAT
1342006 TATAATTATA
Statistics
Matches: 179, Mismatches: 22, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
87 6 0.03
88 9 0.05
89 1 0.01
90 28 0.16
91 7 0.04
92 15 0.08
93 32 0.18
94 64 0.36
95 16 0.09
96 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.46
Consensus pattern (94 bp):
ATATTTTCAAAAATTATATATTATATATATATTTTCAAAATATTTTCAAAAACTATATATTTTCA
AAACTATATATCATAAATATATATTTGAA
Found at i:1342000 original size:2 final size:2
Alignment explanation
Indices: 1341995--1342030 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
1341985 TTCAAAAATT
1341995 TA TA TA TA TA T- TA TA -A T- TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1342031 TAAATAGAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.10
2 28 0.90
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1342908 original size:202 final size:203
Alignment explanation
Indices: 1342535--1342919 Score: 630
Period size: 202 Copynumber: 1.9 Consensus size: 203
1342525 ATTTTTTTTG
* * *
1342535 AATTTCATCTCAAATTATACGCATATCTAATCACATCCCTTGTTAATGAAATCGTTAGGCCAAGT
1 AATTTCATCTCAAATTATACGCATATCTAATCACATCCCTTGTTAACGAAATCGTTAGACCAAAT
*
1342600 TATATTATTATATGTTTGAGAAAAAAACAAAATTTAATTTAAACCATGGTTTAAATTCATTACAT
66 TATATTATTATATGTTT--GAAAAAAACAAAATTTAAGTTAAACCATGGTTTAAATTCATTACAT
1342665 ATTTGGATGATTTTGAGAATAAAATTAGAATATTCAAAAGTTTGGAGACCAATCCTCAATTTTTT
129 ATTTGGATGATTTTGAGAATAAAATTAGAATATTCAAAAGTTTGGAGACCAATCCTCAATTTTTT
1342730 TGAACATTCC
194 TGAACATTCC
*
1342740 AATTTCATCT-AAGATTATACGCATATCTAATCACATCTCTTGTTAACGAAATCGTTAGACCAAA
1 AATTTCATCTCAA-ATTATACGCATATCTAATCACATCCCTTGTTAACGAAATCGTTAGACCAAA
* * *
1342804 TTATATTATTATATGTTT-AAAAAAACAAAATTTAGGTTAAACTATGGTTTAAATTTATTACATA
65 TTATATTATTATATGTTTGAAAAAAACAAAATTTAAGTTAAACCATGGTTTAAATTCATTACATA
* * *
1342868 TTTGGTTGATTTTGAGGATAAAATTAGAATATTTAAAAGTTTGGAGACCAAT
130 TTTGGATGATTTTGAGAATAAAATTAGAATATTCAAAAGTTTGGAGACCAAT
1342920 TTAGAAAGAG
Statistics
Matches: 168, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
202 91 0.54
204 2 0.01
205 75 0.45
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.38
Consensus pattern (203 bp):
AATTTCATCTCAAATTATACGCATATCTAATCACATCCCTTGTTAACGAAATCGTTAGACCAAAT
TATATTATTATATGTTTGAAAAAAACAAAATTTAAGTTAAACCATGGTTTAAATTCATTACATAT
TTGGATGATTTTGAGAATAAAATTAGAATATTCAAAAGTTTGGAGACCAATCCTCAATTTTTTTG
AACATTCC
Found at i:1343052 original size:60 final size:60
Alignment explanation
Indices: 1342939--1343052 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
1342929 GAGTCGTAGT
* *
1342939 TTAAGAATAAAATTAAATTATTCAAAAATTTAAAAACTAATTTAAAACGAAAGTCATATA
1 TTAAAAATAAAATTAAATTATTCAAAAATTTAAAAACTAATTTAAAACAAAAGTCATATA
* *** *
1342999 TTAAAAATAAAATTGAAA-TATTCAAAAGTTTACGTACTAATTTAAAATAAAAGT
1 TTAAAAATAAAATT-AAATTATTCAAAAATTTAAAAACTAATTTAAAACAAAAGT
1343053 TATAGTTTAG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
60 43 0.93
61 3 0.07
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (60 bp):
TTAAAAATAAAATTAAATTATTCAAAAATTTAAAAACTAATTTAAAACAAAAGTCATATA
Found at i:1343254 original size:12 final size:12
Alignment explanation
Indices: 1343237--1343265 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
1343227 AAATATCTAA
1343237 TTCTTTTTTTTC
1 TTCTTTTTTTTC
1343249 TTC-TTTTTTTC
1 TTCTTTTTTTTC
1343260 TTCTTT
1 TTCTTT
1343266 CTTTGCTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTCTTTTTTTTC
Found at i:1347590 original size:31 final size:31
Alignment explanation
Indices: 1347525--1347597 Score: 96
Period size: 32 Copynumber: 2.4 Consensus size: 31
1347515 AAAGTCAAAG
1347525 TTTT-GTCATTTATATTTATTGATTTATTAAA
1 TTTTGGTCATTTATATTTATTGATTTA-TAAA
*
1347556 TTTTGGTCATTTATATTTATTGATTGTA-ATA
1 TTTTGGTCATTTATATTTATTGATT-TATAAA
*
1347587 TTTTGTTCATT
1 TTTTGGTCATT
1347598 GAGTTGATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 16 0.42
32 20 0.53
33 2 0.05
ACGTcount: A:0.25, C:0.04, G:0.10, T:0.62
Consensus pattern (31 bp):
TTTTGGTCATTTATATTTATTGATTTATAAA
Found at i:1347949 original size:17 final size:18
Alignment explanation
Indices: 1347924--1347957 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1347914 CAATTTTCTT
1347924 TAAAGTTATCA-TAATAA
1 TAAAGTTATCATTAATAA
*
1347941 TAAATTTATCATTAATA
1 TAAAGTTATCATTAATA
1347958 TTTTTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (18 bp):
TAAAGTTATCATTAATAA
Found at i:1350056 original size:33 final size:33
Alignment explanation
Indices: 1349982--1350057 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
1349972 ATTTTTAAGC
*
1349982 GTCGCAAAAAACACCTACGACATTTTTACAAGC
1 GTCGCAAAAAACACCTACGACATTTTTACAAGA
* * * * *
1350015 GCCACAAAAAACACCTGCGGCGTTTTTACAAGA
1 GTCGCAAAAAACACCTACGACATTTTTACAAGA
1350048 GTCGCAAAAA
1 GTCGCAAAAA
1350058 GCATCGCTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.18
Consensus pattern (33 bp):
GTCGCAAAAAACACCTACGACATTTTTACAAGA
Found at i:1350160 original size:43 final size:42
Alignment explanation
Indices: 1350106--1350275 Score: 180
Period size: 43 Copynumber: 3.9 Consensus size: 42
1350096 TGGTAACAAA
*
1350106 AAACGCCGCAATAAGTGTTGATATTTAGCGGCGTTTGTCCTAC
1 AAACGCCGCAATAAGTGTTGAGATTTAGCGGCGTTT-TCCTAC
** * *
1350149 AAACATCGCAATAGGTGTTGAGAGTTAGCGGCGTTTTTCAC-AC
1 AAACGCCGCAATAAGTGTTGAGATTTAGCGGCG-TTTTC-CTAC
* * * * *
1350192 AAGCGCCGCAATAGGTGTTGAGATTTAGCAGCATTTTTCTCAC
1 AAACGCCGCAATAAGTGTTGAGATTTAGCGGCGTTTTCCT-AC
*
1350235 AAAACGCCGCAATAAGTGTTGAGATTTAGCGGTGTATTTCC
1 -AAACGCCGCAATAAGTGTTGAGATTTAGCGGCGT-TTTCC
1350276 CATAAATGCC
Statistics
Matches: 103, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
41 1 0.01
42 4 0.04
43 61 0.59
44 33 0.32
45 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (42 bp):
AAACGCCGCAATAAGTGTTGAGATTTAGCGGCGTTTTCCTAC
Found at i:1350399 original size:44 final size:44
Alignment explanation
Indices: 1350347--1350510 Score: 170
Period size: 44 Copynumber: 3.8 Consensus size: 44
1350337 TAGATATTTT
* *
1350347 GCGGCGTTTTTCGGATACAAACACCGCAAAAGATCTGGTATATA
1 GCGGCGTTTTTAGGATACAAACACCGCAAAAGATATGGTATATA
** * * *
1350391 GATGCGTTTTTAGGATACAAACGCCGCTAAAGGTATGGTATATA
1 GCGGCGTTTTTAGGATACAAACACCGCAAAAGATATGGTATATA
* * ** *
1350435 GCGGCATTTTTATGATACAAACGTCGTAAAATG-TATGGTATATA
1 GCGGCGTTTTTAGGATACAAACACCGCAAAA-GATATGGTATATA
* * *
1350479 GCGGCGTTTTT-TGTTACAAACACCGCTAAAGA
1 GCGGCGTTTTTAGGATACAAACACCGCAAAAGA
1350511 ACACATAATT
Statistics
Matches: 98, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
42 1 0.01
43 14 0.14
44 82 0.84
45 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (44 bp):
GCGGCGTTTTTAGGATACAAACACCGCAAAAGATATGGTATATA
Found at i:1350896 original size:21 final size:21
Alignment explanation
Indices: 1350852--1350927 Score: 98
Period size: 21 Copynumber: 3.6 Consensus size: 21
1350842 CCGATGCTTT
* * * *
1350852 TCTCTGTACTACCGTTGTTTC
1 TCTCTGTGCTTCCGTTGCTGC
1350873 TCTCTGTGCTTCCGTTGCTGC
1 TCTCTGTGCTTCCGTTGCTGC
*
1350894 TCTATGTGCTTCCGTTGCTGC
1 TCTCTGTGCTTCCGTTGCTGC
*
1350915 TCTCTCTGCTTCC
1 TCTCTGTGCTTCC
1350928 CTTGTTTCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.04, C:0.33, G:0.18, T:0.45
Consensus pattern (21 bp):
TCTCTGTGCTTCCGTTGCTGC
Found at i:1359365 original size:78 final size:78
Alignment explanation
Indices: 1359267--1359412 Score: 247
Period size: 78 Copynumber: 1.9 Consensus size: 78
1359257 TATAATACAG
* * * * *
1359267 GAAAAACAGAATAAGTTCATAATGTTTATAGATATAGCAAAACAAACGCAAACTTGACATCACCC
1 GAAAAACAGAATAACTTCATAATGCTGATAGATATAGCAAAACAAACGCAAACCTAACATCACCC
1359332 TATTTCTAGACGA
66 TATTTCTAGACGA
1359345 GAAAAACAGAATAACTTCATAATGCTGATAGATATAGCAAAACAAACGCAAACCTAACATCACCC
1 GAAAAACAGAATAACTTCATAATGCTGATAGATATAGCAAAACAAACGCAAACCTAACATCACCC
1359410 TAT
66 TAT
1359413 AGCAAGATGT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 63 1.00
ACGTcount: A:0.47, C:0.20, G:0.12, T:0.22
Consensus pattern (78 bp):
GAAAAACAGAATAACTTCATAATGCTGATAGATATAGCAAAACAAACGCAAACCTAACATCACCC
TATTTCTAGACGA
Found at i:1359979 original size:42 final size:41
Alignment explanation
Indices: 1359755--1360087 Score: 160
Period size: 42 Copynumber: 8.1 Consensus size: 41
1359745 ATTTAGAGGT
* * * *
1359755 GTTTATGTTAAAAACCCCACTACAATAAGTGTAATTA---GC
1 GTTTGTGTT-AAAACGCCACTACAGTACGTGTAATTAGCGGC
* * * * * * *
1359794 GTTTGTGCGTAAAACACCACTAAAGTACGTTTCATTAACGAC
1 GTTTGTG-TTAAAACGCCACTACAGTACGTGTAATTAGCGGC
* * ** * * *
1359836 GTTTGTGCTTAAAACGCCACGAAAGTACGACT-TTTAGCAGT
1 GTTTGTG-TTAAAACGCCACTACAGTACGTGTAATTAGCGGC
* *** * * * * * *
1359877 GTTTCTACAAAAACACCACTAAAGTTCAT-TATTTATCGGC
1 GTTTGTGTTAAAACGCCACTACAGTACGTGTAATTAGCGGC
* * *
1359917 GTTTATATAAAAACGCCACTACAGTACGTGTAATTAGCGGC
1 GTTTGTGTTAAAACGCCACTACAGTACGTGTAATTAGCGGC
* * * * * *
1359958 GTTTGTGTGTAAAACGTCACTAAATTACTTGTAATCAGTGGC
1 GTTTGTGT-TAAAACGCCACTACAGTACGTGTAATTAGCGGC
*
1360000 ATTTGTGCTTAAAACGCCACTACAGTA--TG-ACAGTTAGCGGC
1 GTTTGTG-TTAAAACGCCACTACAGTACGTGTA-A-TTAGCGGC
* * * * *
1360041 GTTTGTATAAAAATGCCACTAGAGTATGTGTAATTAGCGGC
1 GTTTGTGTTAAAACGCCACTACAGTACGTGTAATTAGCGGC
1360082 GTTTGT
1 GTTTGT
1360088 ACGTAAAATG
Statistics
Matches: 222, Mismatches: 59, Indels: 24
0.73 0.19 0.08
Matches are distributed among these distances:
39 29 0.13
40 64 0.29
41 49 0.22
42 78 0.35
43 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (41 bp):
GTTTGTGTTAAAACGCCACTACAGTACGTGTAATTAGCGGC
Found at i:1360059 original size:40 final size:41
Alignment explanation
Indices: 1360009--1360108 Score: 114
Period size: 40 Copynumber: 2.4 Consensus size: 41
1359999 CATTTGTGCT
* * *
1360009 TAAAACGCCACTACAGTATG-ACAGTTAGCGGCGTTTGTA-
1 TAAAATGCCACTAAAGTATGTACAATTAGCGGCGTTTGTAC
* **
1360048 TAAAAATGCCACTAGAGTATGTGTAATTAGCGGCGTTTGTAC
1 T-AAAATGCCACTAAAGTATGTACAATTAGCGGCGTTTGTAC
1360090 GTAAAATGCCACTAAAGTA
1 -TAAAATGCCACTAAAGTA
1360109 GAGAATTTAG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
39 1 0.02
40 17 0.33
41 16 0.31
42 16 0.31
43 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (41 bp):
TAAAATGCCACTAAAGTATGTACAATTAGCGGCGTTTGTAC
Found at i:1360095 original size:82 final size:83
Alignment explanation
Indices: 1359926--1360108 Score: 185
Period size: 82 Copynumber: 2.2 Consensus size: 83
1359916 CGTTTATATA
* * * *
1359926 AAAACGCCACTACAGTACGTGTAATTAGCGGCGTTTGTGTGTAAAACGTCACTAAATTACTTGTA
1 AAAACGCCACTACAGTAC-TGTAATTAGCGGCGTTTGTATGAAAAACGCCACTAAAGTACTTGTA
* * *
1359991 ATCAGTGGCATTTGTGCTT
65 ATCAGCGGCATTTGTACGT
* *
1360010 AAAACGCCACTACAGTA-TG-ACAGTTAGCGGCGTTTGTAT-AAAAATGCCACTAGAGTA-TGTG
1 AAAACGCCACTACAGTACTGTA-A-TTAGCGGCGTTTGTATGAAAAACGCCACTAAAGTACT-TG
* *
1360071 TAATTAGCGGCGTTTGTACGT
63 TAATCAGCGGCATTTGTACGT
* *
1360092 AAAATGCCACTAAAGTA
1 AAAACGCCACTACAGTA
1360109 GAGAATTTAG
Statistics
Matches: 83, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
81 2 0.02
82 49 0.59
83 15 0.18
84 17 0.20
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (83 bp):
AAAACGCCACTACAGTACTGTAATTAGCGGCGTTTGTATGAAAAACGCCACTAAAGTACTTGTAA
TCAGCGGCATTTGTACGT
Found at i:1360119 original size:41 final size:41
Alignment explanation
Indices: 1359913--1360136 Score: 134
Period size: 42 Copynumber: 5.4 Consensus size: 41
1359903 CATTATTTAT
* * * * *
1359913 CGGCGTTTATATAAAAACGCCACTACAGTACGTGTAATTAG
1 CGGCGTTTGTATAAAAATGCCACTAAAGTATGAGTAATTAG
* * * * * * *
1359954 CGGCGTTTGTGTGTAAAACGTCACTAAATTACT-TGTAATCAG
1 CGGCGTTTGTAT-AAAAATGCCACTAAAGTA-TGAGTAATTAG
* * * * * * * *
1359996 TGGCATTTGTGCTTAAAACGCCACTACAGTATGA-CAGTTAG
1 CGGCGTTTGT-ATAAAAATGCCACTAAAGTATGAGTAATTAG
* *
1360037 CGGCGTTTGTATAAAAATGCCACTAGAGTATGTGTAATTAG
1 CGGCGTTTGTATAAAAATGCCACTAAAGTATGAGTAATTAG
1360078 CGGCGTTTGTACGT-AAAATGCCACTAAAGTA-GAG-AATTTAG
1 CGGCGTTTGTA--TAAAAATGCCACTAAAGTATGAGTAA-TTAG
* *
1360119 CGGCATTTTTATACAAAA
1 CGGCGTTTGTATA-AAAA
1360137 CGTCGCAAAT
Statistics
Matches: 142, Mismatches: 31, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
39 1 0.01
40 20 0.14
41 58 0.41
42 61 0.43
43 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (41 bp):
CGGCGTTTGTATAAAAATGCCACTAAAGTATGAGTAATTAG
Found at i:1363424 original size:39 final size:39
Alignment explanation
Indices: 1363324--1363702 Score: 314
Period size: 39 Copynumber: 9.8 Consensus size: 39
1363314 CCAAGAAAAT
* * *
1363324 ATCCAACAATTTATTTTCTTTTACAAAACAGGAAATTAA
1 ATCCAACAATTTATTTCCTTTTACAAAATAGGAAAATAA
* * *
1363363 A-CCCACGATTTATTTCCTTTTACAAATTA-GAAAATTAA
1 ATCCAACAATTTATTTCCTTTTACAAAATAGGAAAA-TAA
*
1363401 ATCCAACAATTTATTTCCTTTTACAAAGTAGGAAAATAA
1 ATCCAACAATTTATTTCCTTTTACAAAATAGGAAAATAA
* *
1363440 ATCCAACAATTTATTT-TTTTCTACAAAATAGGAAAAGAA
1 ATCCAACAATTTATTTCCTTT-TACAAAATAGGAAAATAA
* * * * *
1363479 ATCAAACAATTTTAATTCTTTTTACAGAACAGGAAAATAA
1 ATCCAACAA-TTTATTTCCTTTTACAAAATAGGAAAATAA
** *
1363519 ATCCAATGATTTATTTCCTTTTA-AAGAAGAGGAAAATAA
1 ATCCAACAATTTATTTCCTTTTACAA-AATAGGAAAATAA
*
1363558 ATCCAACAATTTATTTCCTTGTACAAAATAGG------A
1 ATCCAACAATTTATTTCCTTTTACAAAATAGGAAAATAA
* * * * *
1363591 A--CAACGATTTGTTTCATTTTACAAGACAGGAAAATAA
1 ATCCAACAATTTATTTCCTTTTACAAAATAGGAAAATAA
* * ** * *
1363628 ATCCAACGATTTATTTCATTTTTTTAATTTTCATAAGAAAATAA
1 ATCCAACAATTTATTTC-CTTTTACAA----AATAGGAAAATAA
* *
1363672 ATTCAACAATTTATTTACTTTTACAAAATAG
1 ATCCAACAATTTATTTCCTTTTACAAAATAG
1363703 AATTATTTAA
Statistics
Matches: 270, Mismatches: 49, Indels: 42
0.75 0.14 0.12
Matches are distributed among these distances:
31 23 0.09
33 2 0.01
37 6 0.02
38 31 0.11
39 134 0.50
40 40 0.15
41 4 0.01
43 6 0.02
44 24 0.09
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.36
Consensus pattern (39 bp):
ATCCAACAATTTATTTCCTTTTACAAAATAGGAAAATAA
Found at i:1363524 original size:79 final size:78
Alignment explanation
Indices: 1363324--1363584 Score: 275
Period size: 79 Copynumber: 3.4 Consensus size: 78
1363314 CCAAGAAAAT
* * * *
1363324 ATCCAACAA-TTTATTTTCTTTTACAAAACAGGAAATTAAA-CCCACGATTTATTTCCTTTTACA
1 ATCCAACAATTTTAATTCCTTTTAC-AAACAGGAAAATAAATCCAACGATTTATTTCCTTTTACA
*
1363387 AATTA-GAAAATTAA
65 AAATAGGAAAA-TAA
* * * *
1363401 ATCCAACAA-TTTATTTCCTTTTACAAAGTAGGAAAATAAATCCAACAATTTATTT-TTTTCTAC
1 ATCCAACAATTTTAATTCCTTTTACAAA-CAGGAAAATAAATCCAACGATTTATTTCCTTT-TAC
*
1363464 AAAATAGGAAAAGAA
64 AAAATAGGAAAATAA
* * *
1363479 ATCAAACAATTTTAATTCTTTTTACAGAACAGGAAAATAAATCCAATGATTTATTTCCTTTTA-A
1 ATCCAACAATTTTAATTCCTTTTACA-AACAGGAAAATAAATCCAACGATTTATTTCCTTTTACA
*
1363543 AGAAGAGGAAAATAA
65 A-AATAGGAAAATAA
* *
1363558 ATCCAACAA-TTTATTTCCTTGTACAAA
1 ATCCAACAATTTTAATTCCTTTTACAAA
1363585 ATAGGAACAA
Statistics
Matches: 155, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
76 3 0.02
77 38 0.25
78 45 0.29
79 64 0.41
80 5 0.03
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.34
Consensus pattern (78 bp):
ATCCAACAATTTTAATTCCTTTTACAAACAGGAAAATAAATCCAACGATTTATTTCCTTTTACAA
AATAGGAAAATAA
Found at i:1363540 original size:118 final size:115
Alignment explanation
Indices: 1363324--1363591 Score: 317
Period size: 118 Copynumber: 2.3 Consensus size: 115
1363314 CCAAGAAAAT
* ** ** * *
1363324 ATCCAACAATTTATTTTCTTTTACAAAACAGGAAATTAAACCCACGATTTATTTCCTTTTACAAA
1 ATCCAACAATTTATTTT-TTTTACAAAATAGGAAAAGAAACAAACAATTTAATTCCTTTTACAAA
* *
1363389 TTAGAAAATTAAATCCAACAATTTATTTCCTTTTACA-AAGTAGGAAAATAA
65 TCAGAAAATTAAATCCAACAATTTATTTCCTTTTAAAGAAG-AGGAAAATAA
*
1363440 ATCCAACAATTTATTTTTTTCTACAAAATAGGAAAAGAAATCAAACAATTTTAATTCTTTTTACA
1 ATCCAACAATTTATTTTTTT-TACAAAATAGGAAAAGAAA-CAAACAA-TTTAATTCCTTTTACA
**
1363505 GAA-CAGGAAAA-TAAATCCAATGATTTATTTCCTTTTAAAGAAGAGGAAAATAA
63 -AATCA-GAAAATTAAATCCAACAATTTATTTCCTTTTAAAGAAGAGGAAAATAA
* *
1363558 ATCCAACAATTTATTTCCTTGTACAAAATAGGAA
1 ATCCAACAATTTATTT-TTTTTACAAAATAGGAA
1363592 CAACGATTTG
Statistics
Matches: 131, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
115 3 0.02
116 33 0.25
117 4 0.03
118 79 0.60
119 12 0.09
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.34
Consensus pattern (115 bp):
ATCCAACAATTTATTTTTTTTACAAAATAGGAAAAGAAACAAACAATTTAATTCCTTTTACAAAT
CAGAAAATTAAATCCAACAATTTATTTCCTTTTAAAGAAGAGGAAAATAA
Found at i:1363740 original size:58 final size:55
Alignment explanation
Indices: 1363666--1363969 Score: 266
Period size: 58 Copynumber: 5.4 Consensus size: 55
1363656 TTTCATAAGA
*
1363666 AAATAAATTCAACAATTTATTTACTTTTACAAAATAGAATTATTTAAGATTCTCAAGG
1 AAATAAATTCAA-AATTTATTT-C-TTTACAAAATAGAATCATTTAAGATTCTCAAGG
* * * *
1363724 AAATAAATTCAACAATTTATTTTCTTGACAAATTTAGAATCATTTAGGATTCTCTAGG
1 AAATAAATTCAA-AATTTA-TTTCTTTACAAA-ATAGAATCATTTAAGATTCTCAAGG
* *
1363782 ----AAATT----ATTTATTTCGGTTATAAAGATAGAATCATTTAAGATTCTCAAGG
1 AAATAAATTCAAAATTTATTTC-TTTACAAA-ATAGAATCATTTAAGATTCTCAAGG
*
1363831 AAATAAATTCAAATATTTATTTTTCTTA-AAAAGTTAGAATCATTTAAGATTCTCAAGG
1 AAATAAATTCAAA-ATTTATTTCT-TTACAAAA--TAGAATCATTTAAGATTCTCAAGG
* * * * *
1363889 AAATAAATTCAATGATTTATTTTCCTTACAAAATTAGAATTATTCAAGATTCTCAAAG
1 AAATAAATTCAA-AATTTA-TTTCTTTACAAAA-TAGAATCATTTAAGATTCTCAAGG
* *
1363947 AAATAAATTTAATGATTTATTTC
1 AAATAAATTCAA-AATTTATTTC
1363970 AAGATTCTGT
Statistics
Matches: 207, Mismatches: 21, Indels: 37
0.78 0.08 0.14
Matches are distributed among these distances:
48 4 0.02
49 32 0.15
53 5 0.02
54 5 0.02
56 1 0.00
57 14 0.07
58 136 0.66
59 10 0.05
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (55 bp):
AAATAAATTCAAAATTTATTTCTTTACAAAATAGAATCATTTAAGATTCTCAAGG
Found at i:1363818 original size:107 final size:107
Alignment explanation
Indices: 1363699--1363892 Score: 311
Period size: 107 Copynumber: 1.8 Consensus size: 107
1363689 CTTTTACAAA
* * *
1363699 ATAGAATTATTTAAGATTCTCAAGGAAATAAATTCAACA-ATTTA-TTTTCTTGACAAATTTAGA
1 ATAGAATCATTTAAGATTCTCAAGGAAATAAATTCAA-ATATTTATTTTTCTT-AAAAAGTTAGA
* *
1363762 ATCATTTAGGATTCTCTAGGAAATTATTTATTTCGGTTATAAAG
64 ATCATTTAAGATTCTCAAGGAAATTATTTATTTCGGTTATAAAG
1363806 ATAGAATCATTTAAGATTCTCAAGGAAATAAATTCAAATATTTATTTTTCTTAAAAAGTTAGAAT
1 ATAGAATCATTTAAGATTCTCAAGGAAATAAATTCAAATATTTATTTTTCTTAAAAAGTTAGAAT
1363871 CATTTAAGATTCTCAAGGAAAT
66 CATTTAAGATTCTCAAGGAAAT
1363893 AAATTCAATG
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
106 1 0.01
107 72 0.90
108 7 0.09
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (107 bp):
ATAGAATCATTTAAGATTCTCAAGGAAATAAATTCAAATATTTATTTTTCTTAAAAAGTTAGAAT
CATTTAAGATTCTCAAGGAAATTATTTATTTCGGTTATAAAG
Found at i:1368162 original size:29 final size:29
Alignment explanation
Indices: 1368129--1368206 Score: 129
Period size: 29 Copynumber: 2.7 Consensus size: 29
1368119 TAAATTGATA
*
1368129 TCATTACTTACATCATTTAATTAAAGATG
1 TCATTGCTTACATCATTTAATTAAAGATG
*
1368158 TCATTGCTTACATCATTTAATTAATGATG
1 TCATTGCTTACATCATTTAATTAAAGATG
1368187 TCATTGCTTACATCAATTTA
1 TCATTGCTTACATC-ATTTA
1368207 GTTAGGTGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 41 0.89
30 5 0.11
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (29 bp):
TCATTGCTTACATCATTTAATTAAAGATG
Found at i:1368600 original size:45 final size:46
Alignment explanation
Indices: 1368551--1368642 Score: 177
Period size: 45 Copynumber: 2.0 Consensus size: 46
1368541 TCTGAGTTCT
1368551 GACGCACCGCCACGCACCGCCGGAAGACTGCTGCCAG-AAAATCGA
1 GACGCACCGCCACGCACCGCCGGAAGACTGCTGCCAGAAAAATCGA
1368596 GACGCACCGCCACGCACCGCCGGAAGACTGCTGCCAGAAAAATCGA
1 GACGCACCGCCACGCACCGCCGGAAGACTGCTGCCAGAAAAATCGA
1368642 G
1 G
1368643 TTGACTCACC
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 37 0.80
46 9 0.20
ACGTcount: A:0.29, C:0.37, G:0.27, T:0.07
Consensus pattern (46 bp):
GACGCACCGCCACGCACCGCCGGAAGACTGCTGCCAGAAAAATCGA
Found at i:1369594 original size:15 final size:15
Alignment explanation
Indices: 1369571--1369600 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1369561 ACAAGGCTGG
1369571 AATTACAACAATAAC
1 AATTACAACAATAAC
*
1369586 AATTCCAACAATAAC
1 AATTACAACAATAAC
1369601 TATGAGAAAG
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:0.23, G:0.00, T:0.20
Consensus pattern (15 bp):
AATTACAACAATAAC
Found at i:1372955 original size:28 final size:29
Alignment explanation
Indices: 1372914--1372991 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 29
1372904 AAACTAAATT
*
1372914 GATGTCATTACTTACATCATTTAA-TAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
1372942 GATGTCATTGCTT--ATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
1372969 G-TGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1372992 GTTAGGTGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
26 20 0.45
27 4 0.09
28 15 0.34
29 5 0.11
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:1374096 original size:45 final size:45
Alignment explanation
Indices: 1374016--1374146 Score: 122
Period size: 45 Copynumber: 2.9 Consensus size: 45
1374006 CGGAAGGAAC
* * *
1374016 TAATCCTTCGATTTTAATTTTAGCAACTCAATAATCAAAAGGAAAA
1 TAATCCTT-GATTTTAATTTCAGCAACCCAGTAATCAAAAGGAAAA
* * * ** *
1374062 TATTCCTTGATTTTAATTTCCGCAACCCGGTAATCGGAA-GAAAC
1 TAATCCTTGATTTTAATTTCAGCAACCCAGTAATCAAAAGGAAAA
* *
1374106 TAAGCCTTTGATTTTAA-TTCTGACAACCCAGTAATCAAAAG
1 TAATCC-TTGATTTTAATTTCAG-CAACCCAGTAATCAAAAG
1374147 CATTGGATTA
Statistics
Matches: 67, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
44 12 0.18
45 48 0.72
46 7 0.10
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (45 bp):
TAATCCTTGATTTTAATTTCAGCAACCCAGTAATCAAAAGGAAAA
Found at i:1374614 original size:51 final size:51
Alignment explanation
Indices: 1374538--1374640 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
1374528 TTATTCTTTT
1374538 ATTTTTGATTTTGTTATTGGATAAAATCAACATTATGAAACAAAATCAGTA
1 ATTTTTGATTTTGTTATTGGATAAAATCAACATTATGAAACAAAATCAGTA
1374589 ATTTTTGATTTTGTTATTGGATAAAATCAACATTATGAAACAAAATCAGTA
1 ATTTTTGATTTTGTTATTGGATAAAATCAACATTATGAAACAAAATCAGTA
1374640 A
1 A
1374641 CCATCGTTAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.39
Consensus pattern (51 bp):
ATTTTTGATTTTGTTATTGGATAAAATCAACATTATGAAACAAAATCAGTA
Found at i:1375315 original size:52 final size:52
Alignment explanation
Indices: 1375252--1375350 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 52
1375242 ATTTAATTTC
*
1375252 CAATGTGAACTGATTAATAATATCCAAATAAAATAGGAAA-TTAATGAAATAT
1 CAATGCGAACTGATTAATAATATCCAAATAAAAT-GGAAAGTTAATGAAATAT
** *
1375304 CAATGCGAACTGATTAATAATATCTGAATAAAATTGAAAGTTAATGA
1 CAATGCGAACTGATTAATAATATCCAAATAAAATGGAAAGTTAATGA
1375351 TATCCCAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 4 0.10
52 38 0.90
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.29
Consensus pattern (52 bp):
CAATGCGAACTGATTAATAATATCCAAATAAAATGGAAAGTTAATGAAATAT
Found at i:1375810 original size:52 final size:52
Alignment explanation
Indices: 1375694--1375814 Score: 158
Period size: 52 Copynumber: 2.3 Consensus size: 52
1375684 AATATTCAAT
1375694 TAAT-TTCCAATGTGAACTGATTAATAATATCCAAATAAAATTAGAAATTAA
1 TAATATTCCAATGTGAACTGATTAATAATATCCAAATAAAATTAGAAATTAA
*** **
1375745 TCAA-ATAGAAATGTGAACTGATTAATAATATCTTAATAAAATT-GAAAGTTAA
1 T-AATATTCCAATGTGAACTGATTAATAATATCCAAATAAAATTAGAAA-TTAA
1375797 TAATATTCCAATGTGAAC
1 TAATATTCCAATGTGAAC
1375815 ATGAATCATT
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
51 7 0.12
52 51 0.88
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.33
Consensus pattern (52 bp):
TAATATTCCAATGTGAACTGATTAATAATATCCAAATAAAATTAGAAATTAA
Found at i:1375962 original size:454 final size:452
Alignment explanation
Indices: 1374927--1376279 Score: 1902
Period size: 454 Copynumber: 3.0 Consensus size: 452
1374917 GATTGGAAAC
* * * * *
1374927 AAGTTGAGG-CATGCAGTTACGTAGTTTCCTTAAGACATAATTTCGACCACTCCTTGGTGTTCAA
1 AAGTTGAGGAC-TGCAATTATGTAGTTTCCTTAAGACAAAATTTCGACCACTCCTTGGTGCTCGA
* * * *
1374991 GATCCTTTGGTTGTCTGTCTCCCAAGATGCAACAACTATATAATCAGCGCAGGGTAGCACAACTT
65 GATCCTTTGGTAGTCTGTCTCCCAAGATACAACAACTATATGATCAG-GCAGAGTAGCACAACTT
* * * * *
1375056 TGGAGATCACAGAA-TTTTACTTGCTAGAGAATATAAACTAAAACAATTGAAGAAGAGATGATTT
129 TGGAGATCACA-AACTTTTACTTGCTAGAGAATATCACCAAAAACAATAGAAGAAGAGAGGATTT
*
1375120 TTGTTGTGTAAAACCTTATGATTTT-TCACGGTATTTATAGTGTTTCAATTAGGAGGAAAATTAG
193 TTGTTGTGTAAAACCTTATGGTTTTGT-ACGGTATTTATAGTGTTTCAATTAGGAGGAAAATTAG
* * * * * *
1375184 AACCGA-AATATTAAAAATAAAA-AAATTTATTAGCATCCGAACAAAAACGGAAACAATCATTTA
257 AAAC-ATAATATTAGAAATAAAAGTAATTGATTAGCATCCGAACAAAAACGGAAATAATCAATTA
* * *
1375247 ATTTCCAATGTGAACTGATTAATAATATCCAAATAAAA-TAGGAAATTAATGAAATATCAATGCG
321 ATTTCCAATGTGAACTGATTAATAATATCCAAATAAAATTA-GAAATTAATCAAATAGCAATGTG
* * *
1375311 AACTGATTAATAATATCTGAATAAAATTGAAAGTTAATGATATCCCA----AACATGAATCATAC
385 AACTGATTAATAATATCTTAATAAAATTGAAAGTTAATAATATCCAATGTGAACATGAATCATAC
1375372 CAT
450 CAT
*
1375375 AAGTTGATGACTGCAATTATGTAGTTTCCTTAAGA-AAGAATTTCGACCACTCCTTGGTGCTCGA
1 AAGTTGAGGACTGCAATTATGTAGTTTCCTTAAGACAA-AATTTCGACCACTCCTTGGTGCTCGA
* * * * * * *
1375439 GATCCTTTGGTCGTCTGTATCCCAGGATACGATAACTACATGATCAGGATAGAGTAGCACAACTT
65 GATCCTTTGGTAGTCTGTCTCCCAAGATACAACAACTATATGATCAGG-CAGAGTAGCACAACTT
* *
1375504 TGGAGATCACAAACTTTTACTTGCTAGAGAATATCACCGAAAACAATAGAAGATGAGAGGATTTT
129 TGGAGATCACAAACTTTTACTTGCTAGAGAATATCACCAAAAACAATAGAAGAAGAGAGGATTTT
*
1375569 TGTTGTGTAAAACCTTATGGTTTTGTACGTTATTTATAGTGTTTCAATTAGGAGGAAAATTAGAA
194 TGTTGTGTAAAACCTTATGGTTTTGTACGGTATTTATAGTGTTTCAATTAGGAGGAAAATTAGAA
* * * ** *
1375634 ACATAATATTTGAAATAAAAGTAATTGATTAGCATTCTAACAAAAACAAAAATATTCAATTAATT
259 ACATAATATTAGAAATAAAAGTAATTGATTAGCATCCGAACAAAAACGGAAATAATCAATTAATT
*
1375699 TCCAATGTGAACTGATTAATAATATCCAAATAAAATTAGAAATTAATCAAATAGAAATGTGAACT
324 TCCAATGTGAACTGATTAATAATATCCAAATAAAATTAGAAATTAATCAAATAGCAATGTGAACT
*
1375764 GATTAATAATATCTTAATAAAATTGAAAGTTAATAATATTCCAATGTGAACATGAATCATTCCAT
389 GATTAATAATATCTTAATAAAATTGAAAGTTAATAATA-TCCAATGTGAACATGAATCATACCAT
* * *
1375829 AAGTTGAGGTCTGTAATTATGTAGTTTCCTTAAGACAAAATTTCGGCCACTCCTTGGTGCTCGAG
1 AAGTTGAGGACTGCAATTATGTAGTTTCCTTAAGACAAAATTTCGACCACTCCTTGGTGCTCGAG
1375894 ATCCTTTGGTAGTCTGTCTCCCAAGATACAACAACTATATGATCAGTGCAGAGTAGCACAACTTT
66 ATCCTTTGGTAGTCTGTCTCCCAAGATACAACAACTATATGATCAG-GCAGAGTAGCACAACTTT
* * * * *
1375959 GGAGATCACAAACTTTTGCTTGCTAGAGATTATCACTAAAAACAATAGAAAAAGATAGGATTTTT
130 GGAGATCACAAACTTTTACTTGCTAGAGAATATCACCAAAAACAATAGAAGAAGAGAGGATTTTT
* * * * *
1376024 ATTTTCTAAAACCTTATGGTTTTGCACGGTATTTATAGTGTTTCAATTAGGAGAAAAATTAGAAA
195 GTTGTGTAAAACCTTATGGTTTTGTACGGTATTTATAGTGTTTCAATTAGGAGGAAAATTAGAAA
* * *
1376089 CATAATATTGGAAATAAAAGTAATTGATTAGTATCCGACCAAAAACGGAAATAATCAATTAATTT
260 CATAATATTAGAAATAAAAGTAATTGATTAGCATCCGAACAAAAACGGAAATAATCAATTAATTT
* * * * *
1376154 CCAATGTGAATTGATTAATAATATCAAAATAAAATAAAAAATTAGTCAAATAGCAATGTGAACTG
325 CCAATGTGAACTGATTAATAATATCCAAATAAAATTAGAAATTAATCAAATAGCAATGTGAACTG
*
1376219 ATTAATAATATCTTAATAAAATTGAAAGTTAATCATATCCTAATGTGGAA-ATGAATCATAC
390 ATTAATAATATCTTAATAAAATTGAAAGTTAATAATATCC-AATGT-GAACATGAATCATAC
1376280 AATATTAATA
Statistics
Matches: 804, Mismatches: 84, Indels: 28
0.88 0.09 0.03
Matches are distributed among these distances:
447 5 0.01
448 239 0.30
449 131 0.16
450 6 0.01
453 3 0.00
454 414 0.51
455 6 0.01
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (452 bp):
AAGTTGAGGACTGCAATTATGTAGTTTCCTTAAGACAAAATTTCGACCACTCCTTGGTGCTCGAG
ATCCTTTGGTAGTCTGTCTCCCAAGATACAACAACTATATGATCAGGCAGAGTAGCACAACTTTG
GAGATCACAAACTTTTACTTGCTAGAGAATATCACCAAAAACAATAGAAGAAGAGAGGATTTTTG
TTGTGTAAAACCTTATGGTTTTGTACGGTATTTATAGTGTTTCAATTAGGAGGAAAATTAGAAAC
ATAATATTAGAAATAAAAGTAATTGATTAGCATCCGAACAAAAACGGAAATAATCAATTAATTTC
CAATGTGAACTGATTAATAATATCCAAATAAAATTAGAAATTAATCAAATAGCAATGTGAACTGA
TTAATAATATCTTAATAAAATTGAAAGTTAATAATATCCAATGTGAACATGAATCATACCAT
Found at i:1378182 original size:2 final size:2
Alignment explanation
Indices: 1378127--1378165 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1378117 ATAACATGTT
1378127 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1378166 TTGTACTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1379363 original size:18 final size:18
Alignment explanation
Indices: 1379322--1379363 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1379312 ACGCAGACCG
*
1379322 TAAAATTATTATTTTAAT
1 TAAAATTAATATTTTAAT
* *
1379340 TGAAATTAATATTTTTAT
1 TAAAATTAATATTTTAAT
1379358 TAAAAT
1 TAAAAT
1379364 AAAAAATATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TAAAATTAATATTTTAAT
Found at i:1381044 original size:58 final size:57
Alignment explanation
Indices: 1380979--1381134 Score: 167
Period size: 58 Copynumber: 2.7 Consensus size: 57
1380969 CAATATGCAT
*
1380979 TTTTAAAGAAACTAAGTCTGATTTTCAGAGGTTTCGTGACATGATGTTTT-CAAATGA-A
1 TTTTAAAGAAACTAAGTCTGATTTTCAGAGGTTTCGTG--AT-AAGTTTTCCAAATGAGA
* * * * *
1381037 TTTTAAAGAAGCTAAGTCTGATTTTCAGAAGTTTCTTGATAAGTTTTCCACATGAGT
1 TTTTAAAGAAACTAAGTCTGATTTTCAGAGGTTTCGTGATAAGTTTTCCAAATGAGA
*
1381094 TTTTAAA-AAAGCTAAGT-TCGATTTTTCAGAGGTTTCTTGAT
1 TTTTAAAGAAA-CTAAGTCT-GA-TTTTCAGAGGTTTCGTGAT
1381135 GATTACTCAA
Statistics
Matches: 85, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
55 6 0.07
56 11 0.13
57 15 0.18
58 53 0.62
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (57 bp):
TTTTAAAGAAACTAAGTCTGATTTTCAGAGGTTTCGTGATAAGTTTTCCAAATGAGA
Found at i:1381575 original size:41 final size:42
Alignment explanation
Indices: 1381493--1381579 Score: 140
Period size: 41 Copynumber: 2.1 Consensus size: 42
1381483 GGGCCATTAG
* *
1381493 TAAGTCTTTCGAGCATGATGCATAAATCCTTCGGGTCATCTA
1 TAAGTCTTTCGAGCAAGATGCATAAATCCTTCAGGTCATCTA
*
1381535 TAAGTCTTTCGAGCAAGATG-ATAAGTCCTTCAGGTCATCTA
1 TAAGTCTTTCGAGCAAGATGCATAAATCCTTCAGGTCATCTA
1381576 TAAG
1 TAAG
1381580 ACCTTCGGGC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 23 0.55
42 19 0.45
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (42 bp):
TAAGTCTTTCGAGCAAGATGCATAAATCCTTCAGGTCATCTA
Found at i:1383175 original size:30 final size:29
Alignment explanation
Indices: 1383141--1383276 Score: 94
Period size: 30 Copynumber: 4.6 Consensus size: 29
1383131 AAAAATAAGC
*
1383141 ATTTAAGGGATTAAAATAACAAAAACAAAA
1 ATTTAAGGGATTAAAATAACAAAAA-AGAA
* * * * *
1383171 ATTTAAAGAACTAGAATAGCAAAAAAGAA
1 ATTTAAGGGATTAAAATAACAAAAAAGAA
* *
1383200 ACTTAAGGGACTAAAAATAACAAAAATAGAA
1 ATTTAAGGGA-TTAAAATAACAAAAA-AGAA
* **
1383231 ATTTAAAGGG-CTAAAATAGTAAAAATAGAA
1 ATTT-AAGGGATTAAAATAACAAAAA-AGAA
* * *
1383261 ACTTAAAGGACTAAAA
1 ATTTAAGGGATTAAAA
1383277 ATAATTACAA
Statistics
Matches: 82, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
29 14 0.17
30 56 0.68
31 7 0.09
32 5 0.06
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.19
Consensus pattern (29 bp):
ATTTAAGGGATTAAAATAACAAAAAAGAA
Found at i:1383224 original size:60 final size:61
Alignment explanation
Indices: 1383143--1383280 Score: 190
Period size: 60 Copynumber: 2.3 Consensus size: 61
1383133 AAATAAGCAT
* *
1383143 TTAAGGGA-TTAAAATAACAAAAACAAAAATTTAAAGAACTAGAATAGCAAAAA-AGAAAC
1 TTAAGGGACTAAAAATAACAAAAACAAAAATTTAAAGAACTAAAATAGCAAAAATAGAAAC
* * ** *
1383202 TTAAGGGACTAAAAATAACAAAAATAGAAATTTAAAGGGCTAAAATAGTAAAAATAGAAAC
1 TTAAGGGACTAAAAATAACAAAAACAAAAATTTAAAGAACTAAAATAGCAAAAATAGAAAC
*
1383263 TTAAAGGACTAAAAATAA
1 TTAAGGGACTAAAAATAA
1383281 TTACAAAGAA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 8 0.12
60 38 0.55
61 23 0.33
ACGTcount: A:0.61, C:0.07, G:0.13, T:0.19
Consensus pattern (61 bp):
TTAAGGGACTAAAAATAACAAAAACAAAAATTTAAAGAACTAAAATAGCAAAAATAGAAAC
Found at i:1383292 original size:30 final size:31
Alignment explanation
Indices: 1383191--1383281 Score: 123
Period size: 30 Copynumber: 3.0 Consensus size: 31
1383181 CTAGAATAGC
* *
1383191 AAAAA-AGAAACTTAAGGGACTAAAAATAAC
1 AAAAATAGAAACTTAAAGGACTAAAAATAAT
* * *
1383221 AAAAATAGAAATTTAAAGGGCT-AAAATAGT
1 AAAAATAGAAACTTAAAGGACTAAAAATAAT
1383251 AAAAATAGAAACTTAAAGGACTAAAAATAAT
1 AAAAATAGAAACTTAAAGGACTAAAAATAAT
1383282 TACAAAGAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
30 31 0.61
31 20 0.39
ACGTcount: A:0.62, C:0.07, G:0.13, T:0.19
Consensus pattern (31 bp):
AAAAATAGAAACTTAAAGGACTAAAAATAAT
Found at i:1384366 original size:21 final size:21
Alignment explanation
Indices: 1384342--1384382 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1384332 TACCCTTAGG
*
1384342 GTTAGGGTTTAGAAACCCTAA
1 GTTAGGGTTCAGAAACCCTAA
*
1384363 GTTAGGGTTCATAAACCCTA
1 GTTAGGGTTCAGAAACCCTA
1384383 GGAGTCAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (21 bp):
GTTAGGGTTCAGAAACCCTAA
Found at i:1384593 original size:3 final size:3
Alignment explanation
Indices: 1384585--1384729 Score: 265
Period size: 3 Copynumber: 48.7 Consensus size: 3
1384575 TAATGTAAAC
1384585 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1384633 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
1384681 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1384728 AT
1 AT
1384730 TAGTATTTTT
Statistics
Matches: 139, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
2 2 0.01
3 137 0.99
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1385046 original size:66 final size:66
Alignment explanation
Indices: 1384940--1385187 Score: 311
Period size: 66 Copynumber: 3.8 Consensus size: 66
1384930 TAGGGGTAAT
* * *
1384940 GGTTTCAAGAGAAATAGTCTCAAGAGTGACAAAACATGTTTCAAGGGAAACAAACTCAAAGATTG
1 GGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAAACTCAAAGATTG
1385005 G
66 G
* * * ** * *
1385006 GGTTTCAAGAGAAACTGTCCCAAGGGAGACAAAGTTTGTTTCAAGGGAAACAATCTCAAAGGTTG
1 GGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAAACTCAAAGATTG
1385071 G
66 G
* * * * *
1385072 TGTTTCAAGGGAAATTGTCTTAAGAGAGACAAAACTTGTTTCAAGGGAAACATATTCAAAGATT-
1 GGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAAACTCAAAGATTG
*
1385136 T
66 G
* *
1385137 TGTTTCAAG-GAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAAC
1 GGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAAC-TTGTTTCAAGGGAAAC
1385188 TGTCTCAAGG
Statistics
Matches: 156, Mismatches: 25, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
64 24 0.15
65 24 0.15
66 108 0.69
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (66 bp):
GGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAAACTCAAAGATTG
G
Found at i:1385192 original size:101 final size:100
Alignment explanation
Indices: 1385072--1385287 Score: 335
Period size: 101 Copynumber: 2.1 Consensus size: 100
1385062 CAAAGGTTGG
* * * *
1385072 TGTTTCAAGGGAAATTGTCTTAAGAGAGACAAAACTTGTTTCAAGGGAAACATATTCAAAGATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTGCTTCAA-GGAAACAAATTCAAAGATTT
*
1385137 TGTTTCAA-GGAAATTGTCTCAAGAGAGACAAAACTT
65 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAC-T
* * *
1385173 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGCTTCAAGGAAACAAATTCAAAGATTTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTGCTTCAAGGAAACAAATTCAAAGATTTT
1385238 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACT
66 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACT
1385273 TGTTTCAAGGGAAAC
1 TGTTTCAAGGGAAAC
1385288 AGATTCAAAG
Statistics
Matches: 105, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
100 42 0.40
101 63 0.60
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.27
Consensus pattern (100 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTGCTTCAAGGAAACAAATTCAAAGATTTT
GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACT
Found at i:1385202 original size:37 final size:35
Alignment explanation
Indices: 1385135--1385352 Score: 146
Period size: 36 Copynumber: 6.5 Consensus size: 35
1385125 ATTCAAAGAT
*
1385135 TTTGTTTCAAGGAAATTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGAAACTGTCTCAAGAGAGACAAAA
*
1385170 CTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
1 -TTTGTTTCAAG-GAAACTGTCTCAAGAGAGACAAAA
* ** *
1385207 TTTGCTTCAAGGAAACAAAT-TC-A-A-AG----AT
1 TTTGTTTCAAGGAAAC-TGTCTCAAGAGAGACAAAA
1385235 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAA-GGAAACTGTCTCAAGAGAGACAAAA
* * *
1385271 CTTGTTTCAAGGGAAACAGAT-TC-A-A-AG----AT
1 TTTGTTTCAA-GGAAACTG-TCTCAAGAGAGACAAAA
*
1385300 TTGTGTTTCAAGAGAAAATGTCTCAAG-GAGACAAAA
1 TT-TGTTTCAAG-GAAACTGTCTCAAGAGAGACAAAA
1385336 TTTGTTTCAAGGGAAAC
1 TTTGTTTCAA-GGAAAC
1385353 ATATTCAATG
Statistics
Matches: 140, Mismatches: 19, Indels: 47
0.68 0.09 0.23
Matches are distributed among these distances:
28 11 0.08
29 12 0.09
30 16 0.11
31 2 0.01
32 6 0.04
33 2 0.01
34 2 0.01
35 20 0.14
36 46 0.33
37 23 0.16
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (35 bp):
TTTGTTTCAAGGAAACTGTCTCAAGAGAGACAAAA
Found at i:1385281 original size:165 final size:167
Alignment explanation
Indices: 1385007--1385352 Score: 540
Period size: 165 Copynumber: 2.1 Consensus size: 167
1384997 AAAGATTGGG
* * *
1385007 GTTTCAAGAGAAACTGTCCCAAGGGAGACAAAGTTTGTTTCAAGGGAAACAATCTCAAAGGTTGG
1 GTTTCAAGAGAAACTGTCCCAAGGGAGACAAAATTTGCTTCAAGGGAAACAATCTCAAAGATTGG
* * *
1385072 TGTTTCAAGGGAAATTGTCTTAAGAGAGACAAAACTTGTTTCAAGGGAAACATATTCAAAGATTT
66 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAGATTCAAAGATTT
*
1385137 -TGTTTCAAG-GAAATTGTCTCAAGAGAGACAAAACTTT
131 GTGTTTCAAGAGAAAATGTCTCAAG-GAGACAAAA-TTT
*
1385174 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGCTTCAA-GGAAACAAAT-TCAAAGATT-
1 GTTTCAAGAGAAACTGTCCCAAGGGAGACAAAATTTGCTTCAAGGGAAAC-AATCTCAAAGATTG
*
1385236 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAGATTCAAAGATT
65 GTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAGATTCAAAGATT
1385301 TGTGTTTCAAGAGAAAATGTCTCAAGGAGACAAAATTT
130 TGTGTTTCAAGAGAAAATGTCTCAAGGAGACAAAATTT
*
1385339 GTTTCAAGGGAAAC
1 GTTTCAAGAGAAAC
1385353 ATATTCAATG
Statistics
Matches: 166, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
165 78 0.47
166 32 0.19
167 56 0.34
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (167 bp):
GTTTCAAGAGAAACTGTCCCAAGGGAGACAAAATTTGCTTCAAGGGAAACAATCTCAAAGATTGG
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAGATTCAAAGATTT
GTGTTTCAAGAGAAAATGTCTCAAGGAGACAAAATTT
Found at i:1385331 original size:65 final size:65
Alignment explanation
Indices: 1385171--1385542 Score: 514
Period size: 65 Copynumber: 5.7 Consensus size: 65
1385161 GAGACAAAAC
* * *
1385171 TTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGCTTCAA-GGAAACAAATTCAAAGAT
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAGAT
* * *
1385235 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAGATTCAAAGAT
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAGAT
* *
1385300 TTGTGTTTCAAGAGAAAATGTCTCAAG-GAGACAAAATTTGTTTCAAGGGAAACATATTCAATGA
1 TT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAGA
1385364 TTT
65 --T
* * * *
1385367 TTGTGTTTCAAGAGAAACTGTATCAAGGGAGACAAATTTTGTTTCAAGGGAAACATATTCAAATA
1 TT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAGA
1385432 TT
65 -T
* ** * *
1385434 TTTGTTTCAAGAGAAATTGTCTCAAGAGAGACAATTTTTTTTTCAAGAGAAACATATTCAAAGAT
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAGAT
*
1385499 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTGTTT
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTT
1385543 TGAGTAAAAT
Statistics
Matches: 275, Mismatches: 27, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
64 42 0.15
65 86 0.31
66 83 0.30
67 30 0.11
68 34 0.12
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (65 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAGAT
Found at i:1385411 original size:36 final size:35
Alignment explanation
Indices: 1385233--1385542 Score: 121
Period size: 36 Copynumber: 9.3 Consensus size: 35
1385223 AAATTCAAAG
* *
1385233 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 ATTTTGTTTCAAGAGAAACTGTATCAAG-GAGACAA
** * *
1385269 AACTTGTTTCAAGGGAAACAG-ATTCAA--AG----
1 ATTTTGTTTCAAGAGAAACTGTA-TCAAGGAGACAA
* *
1385298 ATTTGTGTTTCAAGAGAAAATGTCTCAAGGAGACAA
1 ATTT-TGTTTCAAGAGAAACTGTATCAAGGAGACAA
* * * * *
1385334 AATTTGTTTCAAGGGAAAC-ATATTCAA--TG--AT
1 ATTTTGTTTCAAGAGAAACTGTA-TCAAGGAGACAA
*
1385365 TTTTGTGTTTCAAGAGAAACTGTATCAAGGGAGACAA
1 ATTT-TGTTTCAAGAGAAACTGTATCAA-GGAGACAA
* * *
1385402 ATTTTGTTTCAAGGGAAAC-ATATTC-A--A-A-TA
1 ATTTTGTTTCAAGAGAAACTGTA-TCAAGGAGACAA
* * *
1385432 TTTTTGTTTCAAGAGAAATTGTCTCAAGAGAGACAA
1 ATTTTGTTTCAAGAGAAACTGTATCAAG-GAGACAA
* * *
1385468 TTTTTTTTTCAAGAGAAAC-ATATTCAA--AG----
1 ATTTTGTTTCAAGAGAAACTGTA-TCAAGGAGACAA
* *
1385497 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
1 ATTTTGTTTCAAGAGAAACTGTATCAAG-GAGAC-AA
1385534 ATTTTGTTT
1 ATTTTGTTT
1385543 TGAGTAAAAT
Statistics
Matches: 197, Mismatches: 42, Indels: 69
0.64 0.14 0.22
Matches are distributed among these distances:
29 22 0.11
30 38 0.19
31 6 0.03
32 23 0.12
33 7 0.04
34 2 0.01
35 23 0.12
36 63 0.32
37 13 0.07
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (35 bp):
ATTTTGTTTCAAGAGAAACTGTATCAAGGAGACAA
Found at i:1385417 original size:133 final size:130
Alignment explanation
Indices: 1385173--1385542 Score: 526
Period size: 133 Copynumber: 2.8 Consensus size: 130
1385163 GACAAAACTT
* * *
1385173 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGCTTCAA-GGAAACAAATTCAAAGATTT
1 TGTTTCAAGAGAAAATGTCTCAA-GGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAGATTT
**
1385237 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAGATTCAAAGATTT
65 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAATTTTGTTTCAAGGGAAACAGATTCAAAGATTT
1385302 G
130 G
*
1385303 TGTTTCAAGAGAAAATGTCTCAAGGAGACAAAATTTGTTTCAAGGGAAACATATTCAATGATTTT
1 TGTTTCAAGAGAAAATGTCTCAAGGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAGA--TT
* * * * *
1385368 TGTGTTTCAAGAGAAACTGTATCAAGGGAGACAAATTTTGTTTCAAGGGAAACATATTCAAATAT
64 T-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAATTTTGTTTCAAGGGAAACAGATTCAAAGAT
*
1385433 TTT
128 TTG
* ** * *
1385436 TGTTTCAAGAGAAATTGTCTCAAGAGAGACAATTTTTTTTTCAAGAGAAACATATTCAAAGATTT
1 TGTTTCAAGAGAAAATGTCTCAAG-GAGACAAAATTTGTTTCAAGGGAAACATATTCAAAGATTT
1385501 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTGTTT
65 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAATTTTGTTT
1385543 TGAGTAAAAT
Statistics
Matches: 213, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
129 19 0.09
130 37 0.17
131 27 0.13
132 17 0.08
133 81 0.38
134 32 0.15
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (130 bp):
TGTTTCAAGAGAAAATGTCTCAAGGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAGATTTT
GTTTCAAGGGAAACTGTCTCAAGAGAGACAAATTTTGTTTCAAGGGAAACAGATTCAAAGATTTG
Found at i:1385478 original size:66 final size:66
Alignment explanation
Indices: 1385171--1385542 Score: 518
Period size: 66 Copynumber: 5.7 Consensus size: 66
1385161 GAGACAAAAC
* * *
1385171 TTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGCTTCAA-GGAAACAAATTCAAAGA-
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAGAT
1385234 T
66 T
* * *
1385235 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAGATTCAAAGAT
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAGAT
1385300 T
66 T
* * *
1385301 TGTGTTTCAAGAGAAAATGTCTCAAG-GAGACAAAATTTGTTTCAAGGGAAACATATTCAATGAT
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAGA-
1385365 TT
65 TT
* * * *
1385367 TTGTGTTTCAAGAGAAACTGTATCAAGGGAGACAAATTTTGTTTCAAGGGAAACATATTCAAATA
1 TT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAGA
1385432 TT
65 TT
* ** * *
1385434 TTTGTTTCAAGAGAAATTGTCTCAAGAGAGACAATTTTTTTTTCAAGAGAAACATATTCAAAGA-
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAGAT
1385498 T
66 T
*
1385499 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTGTTT
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTT
1385543 TGAGTAAAAT
Statistics
Matches: 273, Mismatches: 29, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
64 42 0.15
65 83 0.30
66 88 0.32
67 26 0.10
68 34 0.12
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (66 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAGAT
T
Found at i:1386066 original size:30 final size:29
Alignment explanation
Indices: 1386032--1386144 Score: 104
Period size: 30 Copynumber: 3.8 Consensus size: 29
1386022 AGATAAAATT
* *
1386032 AAATACCAAAAATAAGCATTTAAGGGACTA
1 AAATAACAAAAATAA-AATTTAAGGGACTA
* *
1386062 AAATAACAATAACA-AAAATTTAAAGAACTA
1 AAATAACAA-AA-ATAAAATTTAAGGGACTA
* *
1386092 AAATAGCAAAACA-AAAACTTAAGGGACTAA
1 AAATAACAAAA-ATAAAATTTAAGGGACT-A
1386122 AAATAACAAAAATAGAAATTTAA
1 AAATAACAAAAATA-AAATTTAA
1386145 AAGGCCAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
29 17 0.25
30 39 0.57
31 11 0.16
32 1 0.01
ACGTcount: A:0.62, C:0.11, G:0.09, T:0.19
Consensus pattern (29 bp):
AAATAACAAAAATAAAATTTAAGGGACTA
Found at i:1386120 original size:29 final size:29
Alignment explanation
Indices: 1386051--1386132 Score: 110
Period size: 30 Copynumber: 2.8 Consensus size: 29
1386041 AAATAAGCAT
*
1386051 TTAAGGGACTAAAATAACAATAACAAAAAT
1 TTAAGGGACTAAAATAACAA-AACAAAAAC
* * *
1386081 TTAAAGAACTAAAATAGCAAAACAAAAAC
1 TTAAGGGACTAAAATAACAAAACAAAAAC
1386110 TTAAGGGACTAAAAATAACAAAA
1 TTAAGGGACT-AAAATAACAAAA
1386133 ATAGAAATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 16 0.36
30 28 0.64
ACGTcount: A:0.62, C:0.11, G:0.10, T:0.17
Consensus pattern (29 bp):
TTAAGGGACTAAAATAACAAAACAAAAAC
Found at i:1386155 original size:30 final size:30
Alignment explanation
Indices: 1386121--1386177 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
1386111 TAAGGGACTA
*
1386121 AAAATAACAAAAATAGAAATTTAAAAGGCC
1 AAAATAACAAAAATAGAAACTTAAAAGGCC
**
1386151 AAAATAGTAAAAATAGAAACTTAAAAG
1 AAAATAACAAAAATAGAAACTTAAAAG
1386178 ACTAAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.65, C:0.07, G:0.11, T:0.18
Consensus pattern (30 bp):
AAAATAACAAAAATAGAAACTTAAAAGGCC
Found at i:1386155 original size:60 final size:61
Alignment explanation
Indices: 1386051--1386189 Score: 151
Period size: 60 Copynumber: 2.3 Consensus size: 61
1386041 AAATAAGCAT
* *
1386051 TTAAGGGACT-AAAATAACAATAACAAAAATTTAAAGAACTAAAATAGCAAAACA-A-AAAC
1 TTAAGGGACTAAAAATAACAAAAACAAAAATTTAAAGAACCAAAATAGCAAAA-ATAGAAAC
* * * *
1386110 TTAAGGGACTAAAAATAACAAAAATAGAAATTTAAA-AGGCCAAAATAGTAAAAATAGAAAC
1 TTAAGGGACTAAAAATAACAAAAACAAAAATTTAAAGA-ACCAAAATAGCAAAAATAGAAAC
**
1386171 TTAAAAGACTAAATAATAA
1 TTAAGGGACTAAA-AATAA
1386190 TTACAAAGAA
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
59 12 0.18
60 35 0.52
61 15 0.22
62 5 0.07
ACGTcount: A:0.62, C:0.09, G:0.10, T:0.19
Consensus pattern (61 bp):
TTAAGGGACTAAAAATAACAAAAACAAAAATTTAAAGAACCAAAATAGCAAAAATAGAAAC
Found at i:1387526 original size:3 final size:3
Alignment explanation
Indices: 1387518--1387582 Score: 123
Period size: 3 Copynumber: 22.0 Consensus size: 3
1387508 ATGTAAACAA
1387518 AAT AAT AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1387565 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
1387583 TAGCATTTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 59 0.97
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1397478 original size:21 final size:20
Alignment explanation
Indices: 1397452--1397503 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
1397442 TTTTAACTTT
1397452 TTCTCTTTTTTGCATTTTTTC
1 TTCTCTTTTTTGC-TTTTTTC
*
1397473 TTCTCTTTATTT-CTTTTTTG
1 TTCTCTTT-TTTGCTTTTTTC
1397493 TT-TCTTTTTTG
1 TTCTCTTTTTTG
1397504 TGATGTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.11
19 5 0.18
20 8 0.29
21 9 0.32
22 3 0.11
ACGTcount: A:0.04, C:0.15, G:0.06, T:0.75
Consensus pattern (20 bp):
TTCTCTTTTTTGCTTTTTTC
Found at i:1397851 original size:18 final size:18
Alignment explanation
Indices: 1397828--1397863 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1397818 AAAATGAAAC
*
1397828 AAGATGAAGAATATTAGA
1 AAGATGAAGAATAATAGA
*
1397846 AAGATGATGAATAATAGA
1 AAGATGAAGAATAATAGA
1397864 TAATATGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (18 bp):
AAGATGAAGAATAATAGA
Found at i:1400040 original size:24 final size:24
Alignment explanation
Indices: 1400013--1400069 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
1400003 GGATAAAAAA
* *
1400013 AATCAGAAAGGAATACGACCATGG
1 AATCAGAAACGAATACGACCAGGG
1400037 AATCAGAAACGAATACGACCAGGG
1 AATCAGAAACGAATACGACCAGGG
*
1400061 AAGCAGAAA
1 AATCAGAAA
1400070 TAAAAGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.49, C:0.18, G:0.25, T:0.09
Consensus pattern (24 bp):
AATCAGAAACGAATACGACCAGGG
Found at i:1401241 original size:191 final size:191
Alignment explanation
Indices: 1400917--1401300 Score: 768
Period size: 191 Copynumber: 2.0 Consensus size: 191
1400907 ACATACTTCG
1400917 TATCATATTTATGCTTAATCGGCTTGTGTTACTTGTATGTAGTTCAATTAGATAGTTGTGTATTA
1 TATCATATTTATGCTTAATCGGCTTGTGTTACTTGTATGTAGTTCAATTAGATAGTTGTGTATTA
1400982 CTAAGATTCCAAAGCTCATTCTTCAAATTATTTTCTCCATTTTAGATAAATAGATTCAAATAGAG
66 CTAAGATTCCAAAGCTCATTCTTCAAATTATTTTCTCCATTTTAGATAAATAGATTCAAATAGAG
1401047 TTGGGGCGTCGACATCTTTTCAGAGTTCCAACAATCATTTTTTACAGAGTACAATACTATT
131 TTGGGGCGTCGACATCTTTTCAGAGTTCCAACAATCATTTTTTACAGAGTACAATACTATT
1401108 TATCATATTTATGCTTAATCGGCTTGTGTTACTTGTATGTAGTTCAATTAGATAGTTGTGTATTA
1 TATCATATTTATGCTTAATCGGCTTGTGTTACTTGTATGTAGTTCAATTAGATAGTTGTGTATTA
1401173 CTAAGATTCCAAAGCTCATTCTTCAAATTATTTTCTCCATTTTAGATAAATAGATTCAAATAGAG
66 CTAAGATTCCAAAGCTCATTCTTCAAATTATTTTCTCCATTTTAGATAAATAGATTCAAATAGAG
1401238 TTGGGGCGTCGACATCTTTTCAGAGTTCCAACAATCATTTTTTACAGAGTACAATACTATT
131 TTGGGGCGTCGACATCTTTTCAGAGTTCCAACAATCATTTTTTACAGAGTACAATACTATT
1401299 TA
1 TA
1401301 CTTTTAGAGG
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
191 193 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (191 bp):
TATCATATTTATGCTTAATCGGCTTGTGTTACTTGTATGTAGTTCAATTAGATAGTTGTGTATTA
CTAAGATTCCAAAGCTCATTCTTCAAATTATTTTCTCCATTTTAGATAAATAGATTCAAATAGAG
TTGGGGCGTCGACATCTTTTCAGAGTTCCAACAATCATTTTTTACAGAGTACAATACTATT
Found at i:1405250 original size:21 final size:19
Alignment explanation
Indices: 1405203--1405241 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1405193 TTAAATATAT
* *
1405203 TAATAAAACATAAAATGAC
1 TAATAAAACAGAAAAAGAC
1405222 TAATAAAACAGAAAAAGAC
1 TAATAAAACAGAAAAAGAC
1405241 T
1 T
1405242 GAAATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.64, C:0.10, G:0.08, T:0.18
Consensus pattern (19 bp):
TAATAAAACAGAAAAAGAC
Found at i:1407256 original size:91 final size:91
Alignment explanation
Indices: 1407098--1407263 Score: 244
Period size: 91 Copynumber: 1.8 Consensus size: 91
1407088 GGAATGTCAA
* * ** * *
1407098 TTCTTCTCATTATGATCTCATTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCAACTG
1 TTCTTCTCATTATGAACTCATTCTCCCTCATTGGACAAGTCCTTCTCATTATGAACCCTCAACTG
1407163 GAAATCTTGAACTAAGGTTGAACAAG
66 GAAATCTTGAACTAAGGTTGAACAAG
* *
1407189 TTCTTCTCATTATGAACTTATTCTCCCTCATTGGACAAGTCCTTCTCATTATTAACCCTCCAA-T
1 TTCTTCTCATTATGAACTCATTCTCCCTCATTGGACAAGTCCTTCTCATTATGAACCCT-CAACT
1407253 GGAAATCTTGA
65 GGAAATCTTGA
1407264 GTCACCTCCT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
91 63 0.95
92 3 0.05
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (91 bp):
TTCTTCTCATTATGAACTCATTCTCCCTCATTGGACAAGTCCTTCTCATTATGAACCCTCAACTG
GAAATCTTGAACTAAGGTTGAACAAG
Found at i:1407401 original size:105 final size:106
Alignment explanation
Indices: 1407182--1407463 Score: 372
Period size: 105 Copynumber: 2.6 Consensus size: 106
1407172 AACTAAGGTT
* * *
1407182 GAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATT-GGACAAGTCCTTCTCATTATTAACC
1 GAACAAGTTCTTCTCATTATGAAC-T-TTCT-CCT--TTAGGACGAGTTCTTCTCATTATGAACC
* * * *
1407246 CTCCAATGGAAATCTTGAGTCACCTCCTTCTGCGGTGGACTTGGAAG
61 CTTC-ATAGAAATCTTGAGTCACCTCCTTCTGCGGTGAACTTGAAAG
*
1407293 GAACACGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACCCTTC-
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACCCTTCA
* * *
1407357 TAGAAATGTTG-GTTCACCTCCTTCTGTGGTGAATTTGAAAG
66 TAGAAATCTTGAG-TCACCTCCTTCTGCGGTGAACTTGAAAG
*
1407398 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCA
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACCCTTCA
1407463 T
66 T
1407464 TGGAAATGTC
Statistics
Matches: 155, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
104 1 0.01
105 95 0.61
106 3 0.02
107 25 0.16
108 3 0.02
109 4 0.03
110 1 0.01
111 23 0.15
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (106 bp):
GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACCCTTCA
TAGAAATCTTGAGTCACCTCCTTCTGCGGTGAACTTGAAAG
Found at i:1407637 original size:136 final size:135
Alignment explanation
Indices: 1407398--1407728 Score: 445
Period size: 136 Copynumber: 2.5 Consensus size: 135
1407388 AATTTGAAAG
* * *
1407398 GAACAAGTTCTTCTCATTATGAAC-T-TTCT-C-CTTTAGGACGAGTTCTTCTCATTATGAACTC
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCTCTTTCGGATGAGTTCTTCTCATTATGAACTC
* * * * * **
1407459 TTCATTGGAAATGTCAATCCCTCGAGCGAGGTGTCACTGATTCAAAATGCTGTGAATCGAGTGAT
66 TCCATTGGAAATGACAATCCCTCAAGCGAGGAGTCACTGATTCAAAATACTAAGAATCGAGTGAT
1407524 AGGTC
131 AGGTC
*
1407529 GAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTTCGGATAAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTC-TCCTCTTTCGGATGAGTTCTTCTCATTATGAACT
* * * *
1407594 CTCCATTGGAAATGACAATCCCTCAAGTGAGGAGTCACTGATTCGAAATATTAAGAATTGAGTGA
65 CTCCATTGGAAATGACAATCCCTCAAGCGAGGAGTCACTGATTCAAAATACTAAGAATCGAGTGA
1407659 TAGGTC
130 TAGGTC
* * * * *
1407665 GAACAAGCTCTTCTCATTATAAACTTCTTCTCCTCTGTCGAATGAGTTATTCTCATTATAAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCTCTTTCGGATGAGTTCTTCTCATTATGAACT
1407729 TCTTCTCCTT
Statistics
Matches: 174, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
131 23 0.13
132 1 0.01
133 3 0.02
134 1 0.01
135 30 0.17
136 116 0.67
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (135 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCTCTTTCGGATGAGTTCTTCTCATTATGAACTC
TCCATTGGAAATGACAATCCCTCAAGCGAGGAGTCACTGATTCAAAATACTAAGAATCGAGTGAT
AGGTC
Found at i:1407718 original size:39 final size:39
Alignment explanation
Indices: 1407675--1407762 Score: 149
Period size: 39 Copynumber: 2.3 Consensus size: 39
1407665 GAACAAGCTC
1407675 TTCTCATTATAAACTTCTTCTCCTCTGTCGAATGAGTTA
1 TTCTCATTATAAACTTCTTCTCCTCTGTCGAATGAGTTA
* * *
1407714 TTCTCATTATAAACTTCTTCTCCTTTGTCTAATGAGTTC
1 TTCTCATTATAAACTTCTTCTCCTCTGTCGAATGAGTTA
1407753 TTCTCATTAT
1 TTCTCATTAT
1407763 GAAATCTCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.22, C:0.23, G:0.08, T:0.48
Consensus pattern (39 bp):
TTCTCATTATAAACTTCTTCTCCTCTGTCGAATGAGTTA
Found at i:1407833 original size:174 final size:176
Alignment explanation
Indices: 1407539--1407903 Score: 468
Period size: 174 Copynumber: 2.1 Consensus size: 176
1407529 GAACAAGCTC
* * * *
1407539 TTCTCATTATGAACTTCTTCTTCCTCTTTCGGATAAGTTCTTCTCATTATGAACTCTCCATTGGA
1 TTCTCATTATGAACTTCTTCTTCCTCTTTCGAATAAGTTCTTCTCATTATGAAATCTCAATTAGA
* * * ** *
1407604 AATGACAATCCCTCAAGTGAGGAGTCACTGATTCGAAATATTAAGAATTGAGTGATAGGTCGAAC
66 AATGACAATCCCTAAAGAGAGGAGTCACTGATTCAAAATACCAAGAATCGAGTGATAGGTCGAAC
1407669 AAGCTCTTCTCATTATAAACTTCTTCT-CCTCTGTCGAATGAGTTA
131 AAGCTCTTCTCATTATAAACTTCTTCTCCCTCTGTCGAATGAGTTA
* * *
1407714 TTCTCATTATAAACTTCTTC-TCCT-TTGTCTAATGAGTTCTTCTCATTATGAAATCTCAATTAG
1 TTCTCATTATGAACTTCTTCTTCCTCTT-TCGAATAAGTTCTTCTCATTATGAAATCTCAATTAG
* * ** *
1407777 AAATGTCAATCCCTAAAGAGAGGCA-TCACTGATTCAAAATGCCGTGAATCGAGTGATAGGTTGA
65 AAATGACAATCCCTAAAGAGAGG-AGTCACTGATTCAAAATACCAAGAATCGAGTGATAGGTCGA
* * * * * *
1407841 ACAAGCTTTTCTCATTATGAACTTTTTCTCCCTCTGTTGGATGAGTTC
129 ACAAGCTCTTCTCATTATAAACTTCTTCTCCCTCTGTCGAATGAGTTA
1407889 TTCTCATTATGAACT
1 TTCTCATTATGAACT
1407904 CTGTACTAAA
Statistics
Matches: 162, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
173 2 0.01
174 111 0.69
175 49 0.30
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (176 bp):
TTCTCATTATGAACTTCTTCTTCCTCTTTCGAATAAGTTCTTCTCATTATGAAATCTCAATTAGA
AATGACAATCCCTAAAGAGAGGAGTCACTGATTCAAAATACCAAGAATCGAGTGATAGGTCGAAC
AAGCTCTTCTCATTATAAACTTCTTCTCCCTCTGTCGAATGAGTTA
Found at i:1408370 original size:36 final size:36
Alignment explanation
Indices: 1408330--1408508 Score: 205
Period size: 36 Copynumber: 4.8 Consensus size: 36
1408320 AGAAAAACCA
* *
1408330 TCTCAAGGGAGACACAATTTGTTTAAAGGGAAACTG
1 TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTG
1408366 TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTG
1 TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTG
** *
1408402 TCTCAAGTAAGACAAAATTTGTTTCAAGGGAAACTA
1 TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTG
* * * *
1408438 TCTCAAGCGAGATAAAATCTTTTGTTTCGAGGGAAACTA
1 TCTCAAGGGAGACAAAA---TTTGTTTCAAGGGAAACTG
* *
1408477 TCTAAAGGGAGATAAAATCTTCTGTTTCAAGG
1 TCTCAAGGGAGACAAAA--TT-TGTTTCAAGG
1408509 AAAAACAACC
Statistics
Matches: 125, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
36 81 0.65
38 2 0.02
39 42 0.34
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (36 bp):
TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTG
Found at i:1408536 original size:40 final size:40
Alignment explanation
Indices: 1408446--1408882 Score: 633
Period size: 40 Copynumber: 10.9 Consensus size: 40
1408436 TATCTCAAGC
* * * * ** *
1408446 GAGATAAAATCTTTTGTTTCGAGG-GAAACTATCTAAAGG
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
1408485 GAGATAAAATCTTCTGTTTCAAGGAAAAACAACCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
1408525 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
1408565 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
1408605 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* * * *
1408645 TAGATAAAATCTTATGTTTAAAGGAAAAAAAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
** *
1408685 GAGATAAAAAATTTTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* * **
1408725 GAGATAAAATCTTTTGATTCAAGGAAAAACAATCTTGAAC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* **
1408765 GAGATAAAATCTTCTGTTTCAAGGAAAAACAACCTTGAAC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* **
1408805 GAGATAAAATCTTTTGTTTCAAGGAAAAACAATCTTGAAC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
1408845 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGA
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGA
1408883 ATAAAACCAA
Statistics
Matches: 365, Mismatches: 32, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
39 22 0.06
40 343 0.94
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (40 bp):
GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
Found at i:1408695 original size:19 final size:19
Alignment explanation
Indices: 1408671--1408733 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
1408661 TTTAAAGGAA
1408671 AAAAAATCTTGAGTGAGAT
1 AAAAAATCTTGAGTGAGAT
* ** *
1408690 AAAAAATTTTGTTTCAAGGA-
1 AAAAAATCTTGAGT-GA-GAT
1408710 AAAACAATCTTGAGTGAGAT
1 AAAA-AATCTTGAGTGAGAT
1408730 AAAA
1 AAAA
1408734 TCTTTTGATT
Statistics
Matches: 32, Mismatches: 8, Indels: 7
0.68 0.17 0.15
Matches are distributed among these distances:
19 13 0.41
20 10 0.31
21 9 0.28
ACGTcount: A:0.49, C:0.06, G:0.17, T:0.27
Consensus pattern (19 bp):
AAAAAATCTTGAGTGAGAT
Found at i:1409911 original size:54 final size:55
Alignment explanation
Indices: 1409826--1409935 Score: 195
Period size: 54 Copynumber: 2.0 Consensus size: 55
1409816 CACTGGTTCA
* *
1409826 TAAAACATTTGACAACACATTTATCCTTTCCTGTGGCTTCTGCCTAGATTT-TTG
1 TAAAACATTTGACAACACATTCATCCCTTCCTGTGGCTTCTGCCTAGATTTCTTG
1409880 TAAAACATTTGACAACACATTCATCCCTTCCTGTGGCTTCTGCCTAGATTTCTTG
1 TAAAACATTTGACAACACATTCATCCCTTCCTGTGGCTTCTGCCTAGATTTCTTG
1409935 T
1 T
1409936 TAGTGAAGCT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
54 49 0.92
55 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.39
Consensus pattern (55 bp):
TAAAACATTTGACAACACATTCATCCCTTCCTGTGGCTTCTGCCTAGATTTCTTG
Found at i:1414214 original size:6 final size:6
Alignment explanation
Indices: 1414199--1414241 Score: 77
Period size: 6 Copynumber: 7.2 Consensus size: 6
1414189 TTATGCAAAG
*
1414199 ATGCAA ATGCAG ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA A
1 ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA A
1414242 AAAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.49, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
ATGCAA
Found at i:1419778 original size:45 final size:45
Alignment explanation
Indices: 1419726--1419947 Score: 150
Period size: 45 Copynumber: 5.2 Consensus size: 45
1419716 AATACACCAT
* * *
1419726 TATGCATTTCAAGTAT-AGCATATTTTTATGACGATAATGCACCCA
1 TATGCATTTCAAGTATGA-CATACTTTCATGACAATAATGCACCCA
* * *
1419771 TATGCATTTCAGGTATGACATCCTTTCATGCCAATAATGCACCCA
1 TATGCATTTCAAGTATGACATACTTTCATGACAATAATGCACCCA
* * * * *
1419816 TATGCATTATTC--TTTTGACATCCTTTCATGTCGATAATGCACCCA
1 TATGCA-T-TTCAAGTATGACATACTTTCATGACAATAATGCACCCA
* *
1419861 TATACA-TT--A-T-T---AT--TTT-ATGCCAATAATGCACCCA
1 TATGCATTTCAAGTATGACATACTTTCATGACAATAATGCACCCA
* * * *
1419895 TATACATTTC-AGCTATGGCATACTTTCATGCCAATAATGCACCCG
1 TATGCATTTCAAG-TATGACATACTTTCATGACAATAATGCACCCA
1419940 TATGCATT
1 TATGCATT
1419948 ATTCTTTTAT
Statistics
Matches: 147, Mismatches: 15, Indels: 30
0.77 0.08 0.16
Matches are distributed among these distances:
34 22 0.15
35 5 0.03
36 1 0.01
37 2 0.01
38 1 0.01
39 1 0.01
40 1 0.01
41 1 0.01
42 4 0.03
44 3 0.02
45 101 0.69
46 2 0.01
47 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.36
Consensus pattern (45 bp):
TATGCATTTCAAGTATGACATACTTTCATGACAATAATGCACCCA
Found at i:1419932 original size:79 final size:79
Alignment explanation
Indices: 1419793--1420034 Score: 299
Period size: 79 Copynumber: 3.1 Consensus size: 79
1419783 GTATGACATC
* * * * *
1419793 CTTTCATGCCAATAATGCACCCATATGCATTATTC--TTTTGACATCCTTTCATGTCGATAATGC
1 CTTTTATGCCAATAATGCACCCATATGCA-T-TTCAGCTATGACATCCTTTCATGCCAATAATGC
*
1419856 ACCCATATACATTATT
64 ACCCATATGCATTATT
* * * *
1419872 ATTTTATGCCAATAATGCACCCATATACATTTCAGCTATGGCATACTTTCATGCCAATAATGCAC
1 CTTTTATGCCAATAATGCACCCATATGCATTTCAGCTATGACATCCTTTCATGCCAATAATGCAC
*
1419937 CCGTATGCATTATT
66 CCATATGCATTATT
** * * * *
1419951 CTTTTATATCGATAATGCACCCATATGCATTTTAGCTATGACGTCCTTTCATGCCAATAAGGCAC
1 CTTTTATGCCAATAATGCACCCATATGCATTTCAGCTATGACATCCTTTCATGCCAATAATGCAC
1420016 CCATATGCATTATT
66 CCATATGCATTATT
1420030 CTTTT
1 CTTTT
1420035 GTTCATTCAT
Statistics
Matches: 139, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
77 3 0.02
78 1 0.01
79 135 0.97
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (79 bp):
CTTTTATGCCAATAATGCACCCATATGCATTTCAGCTATGACATCCTTTCATGCCAATAATGCAC
CCATATGCATTATT
Found at i:1420536 original size:15 final size:15
Alignment explanation
Indices: 1420518--1420553 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
1420508 TAGTCAATTT
1420518 AATCTTAAATTTTCA
1 AATCTTAAATTTTCA
1420533 AATCTTAAATTTTCA
1 AATCTTAAATTTTCA
*
1420548 TATCTT
1 AATCTT
1420554 TTCGATATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (15 bp):
AATCTTAAATTTTCA
Found at i:1425239 original size:79 final size:78
Alignment explanation
Indices: 1425145--1425341 Score: 250
Period size: 79 Copynumber: 2.5 Consensus size: 78
1425135 TTTTTCAATC
* * * * * * * * *
1425145 CTTTCATGTCGATAATGAACCCATATGTATTATTGTTTTATGCCAATAATGTACCCATATGCATT
1 CTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGACAATAATGCACCCACATACATT
*
1425210 TCATCTATGGCATT
66 TCAGCTATGGCA-T
* *
1425224 CTTTCATGCCAATAATGCACTCATATGCATTATTCTTTTATGACTATAATGCACCCACATACATT
1 CTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGACAATAATGCACCCACATACATT
1425289 TCAGCTATGGCAT
66 TCAGCTATGGCAT
* *
1425302 CATTTCATGCCAATAATGCACCCATATGCTTTATTTTTTT
1 C-TTTCATGCCAATAATGCACCCATATGCATTATTCTTTT
1425342 GTTCATTCAT
Statistics
Matches: 102, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
78 2 0.02
79 100 0.98
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.40
Consensus pattern (78 bp):
CTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGACAATAATGCACCCACATACATT
TCAGCTATGGCAT
Found at i:1431619 original size:21 final size:21
Alignment explanation
Indices: 1431593--1431659 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 21
1431583 GTTCTACGCT
*
1431593 GTCCTTCGGGACATATATATG
1 GTCCTTCGGGACATTTATATG
* *
1431614 GTCCTTCGAGACATTTCTATG
1 GTCCTTCGGGACATTTATATG
1431635 CAGTCCTTCGGGACATTTTATATG
1 --GTCCTTCGGGACA-TTTATATG
1431659 G
1 G
1431660 CACTCAGTGC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
21 18 0.47
22 1 0.03
23 12 0.32
24 7 0.18
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (21 bp):
GTCCTTCGGGACATTTATATG
Found at i:1431644 original size:23 final size:22
Alignment explanation
Indices: 1431584--1431652 Score: 77
Period size: 23 Copynumber: 3.1 Consensus size: 22
1431574 GAGTCGAGGG
*
1431584 TTCTACGCTGTCCTTCGGGACAT
1 TTCTATGC-GTCCTTCGGGACAT
* * *
1431607 ATATATG-GTCCTTCGAGACAT
1 TTCTATGCGTCCTTCGGGACAT
1431628 TTCTATGCAGTCCTTCGGGACAT
1 TTCTATGC-GTCCTTCGGGACAT
1431651 TT
1 TT
1431653 TATATGGCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 18 0.49
23 19 0.51
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (22 bp):
TTCTATGCGTCCTTCGGGACAT
Found at i:1435359 original size:26 final size:28
Alignment explanation
Indices: 1435298--1435359 Score: 65
Period size: 31 Copynumber: 2.2 Consensus size: 28
1435288 GAGTATTGCT
* *
1435298 GAGCTCGACTCGACTCGAAAACTTTGAAAT
1 GAGCTCGACTCGACTCGAAAACTTCG--AC
1435328 GAAGCTCGACTCGACTCGAAAAC-TCG-C
1 G-AGCTCGACTCGACTCGAAAACTTCGAC
1435355 GAGCT
1 GAGCT
1435360 TAAAATTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
26 4 0.14
27 1 0.03
30 3 0.10
31 21 0.72
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (28 bp):
GAGCTCGACTCGACTCGAAAACTTCGAC
Found at i:1438226 original size:214 final size:215
Alignment explanation
Indices: 1437857--1438285 Score: 794
Period size: 214 Copynumber: 2.0 Consensus size: 215
1437847 CATTCTACGG
1437857 CTTTCGAATCTGGAAATAAGTTTTTCAGTATTTTTAAATTGAACACCAAAATTAATTTAGGGATT
1 CTTTCGAATCTGGAAATAAGTTTTTCAGTATTTTTAAATTGAACACCAAAATTAATTTAGGGATT
*
1437922 TAGGAAAAAAATTCTCAAATGTTAGGTTTTTTAATTAGATTTTAATTAGGGTGTTTATACTATTT
66 TAGGAAAAAAATTCTCAAATGTTAGGTTTTTTAATTAGATTTAAATTAGGGTGTTTATACTATTT
1437987 TCTATGAAAACATTGACTTATTTATGATTATTTACATCTATTTACAATTTTAAA-TTTTTTATAT
131 TCTATGAAAACATTGACTTATTTATGATTATTTACATCTATTTACAATTTTAAATTTTTTTATAT
1438051 GATGTA-CCTTGCCGGTTCTA
196 GATGTACCCTTGCC-GTTCTA
1438071 CTTTCGAATCTGGAAATAAGTTTTTCAGTATTTTTAAATTGAACACCAAAATTAATTTAGGGATT
1 CTTTCGAATCTGGAAATAAGTTTTTCAGTATTTTTAAATTGAACACCAAAATTAATTTAGGGATT
1438136 TAGGAAAAAAATTCTCAAATGTTAGGTTTTTTAATTAGATTTAAATTAGGGTG-TTATACTAATT
66 TAGGAAAAAAATTCTCAAATGTTAGGTTTTTTAATTAGATTTAAATTAGGGTGTTTATACT-ATT
1438200 TTCTATG-AAACATTGACTTTATTTATGATTATTTACATCTATTTACAATTTTAAATTTTTTTAT
130 TTCTATGAAAACATTGAC-TTATTTATGATTATTTACATCTATTTACAATTTTAAATTTTTTTAT
1438264 ATGATGTACCCTTGCCGTTCTA
194 ATGATGTACCCTTGCCGTTCTA
1438286 GTATCCTGTA
Statistics
Matches: 210, Mismatches: 1, Indels: 7
0.96 0.00 0.03
Matches are distributed among these distances:
213 17 0.08
214 164 0.78
215 22 0.10
216 7 0.03
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (215 bp):
CTTTCGAATCTGGAAATAAGTTTTTCAGTATTTTTAAATTGAACACCAAAATTAATTTAGGGATT
TAGGAAAAAAATTCTCAAATGTTAGGTTTTTTAATTAGATTTAAATTAGGGTGTTTATACTATTT
TCTATGAAAACATTGACTTATTTATGATTATTTACATCTATTTACAATTTTAAATTTTTTTATAT
GATGTACCCTTGCCGTTCTA
Found at i:1440294 original size:23 final size:24
Alignment explanation
Indices: 1440268--1440322 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 24
1440258 TACTTAGCAT
*
1440268 AAAAAAA-AACTTGAAAATAAAGAA
1 AAAAAAAGAACTTGAAAAGAAA-AA
1440292 AAATAAAAGGAACTTGAAAAGAAAAA
1 AAA-AAAA-GAACTTGAAAAGAAAAA
1440318 AAAAA
1 AAAAA
1440323 CTTTTATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 3 0.11
25 6 0.22
26 5 0.19
27 13 0.48
ACGTcount: A:0.75, C:0.04, G:0.11, T:0.11
Consensus pattern (24 bp):
AAAAAAAGAACTTGAAAAGAAAAA
Found at i:1456643 original size:18 final size:17
Alignment explanation
Indices: 1456620--1456667 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
1456610 TGATTTGTCT
1456620 GGGCCTGGATCGGATTCC
1 GGGCCTGGATCGG-TTCC
* **
1456638 GGGCCTGGATCAGTTTT
1 GGGCCTGGATCGGTTCC
1456655 GGGCCTGGATCGG
1 GGGCCTGGATCGG
1456668 GTTTTGGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.10, C:0.23, G:0.42, T:0.25
Consensus pattern (17 bp):
GGGCCTGGATCGGTTCC
Found at i:1456673 original size:18 final size:18
Alignment explanation
Indices: 1456619--1456675 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
1456609 TTGATTTGTC
* *
1456619 TGGGCCTGGATCGGATTC
1 TGGGCCTGGATCGGGTTT
* *
1456637 CGGGCCTGGATC-AGTTT
1 TGGGCCTGGATCGGGTTT
1456654 TGGGCCTGGATCGGGTTT
1 TGGGCCTGGATCGGGTTT
1456672 TGGG
1 TGGG
1456676 TTTGGTTGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 13 0.41
18 19 0.59
ACGTcount: A:0.09, C:0.19, G:0.42, T:0.30
Consensus pattern (18 bp):
TGGGCCTGGATCGGGTTT
Found at i:1456740 original size:3 final size:3
Alignment explanation
Indices: 1456734--1456758 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1456724 ATTATTATTT
1456734 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
1456759 ATGGAACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1457077 original size:55 final size:55
Alignment explanation
Indices: 1456993--1457622 Score: 228
Period size: 47 Copynumber: 12.3 Consensus size: 55
1456983 TTGCCCCACT
*
1456993 CTTG-TTCAAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGGATCTGCTCCAAA
1 CTTGTTTC-AGGGAGATAAGACTCGAGAAATCTTTGAAAAACGGATCTGCTCCAAA
* **
1457048 CTTGTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAAAATGGATCTGCTCCACT
1 CTTGTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAAAACGGATCTGCTCCAAA
* * * * * **
1457103 CTTGTTTCAAGGAGATAAGA-TC---CAA----GGAAAGAA-GAATCTACTCCACT
1 CTTGTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAA-AACGGATCTGCTCCAAA
* ** **
1457150 CTTGTTTTAGGGAGATAAGACTTAAGAAATCTTT-AAAAACGGATCTGCT-CACT
1 CTTGTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAAAACGGATCTGCTCCAAA
* * * * * * * **
1457203 CTTGTTTCAAGGAGATAAGA-TC---CAA----GGGAAGATGAATCTGCTCCACT
1 CTTGTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAAAACGGATCTGCTCCAAA
* * ** **
1457250 CTTGTTTTAGGGAG--AAGACTTGA-ATAATCTTTGAAAAACATATCTGCTCCACT
1 CTTGTTTCAGGGAGATAAGACTCGAGA-AATCTTTGAAAAACGGATCTGCTCCAAA
* * * * * * * **
1457303 CTTGTTTTACGGAGATAAGA-TC---CAA----GGAAAGACGAATCTACTCCACT
1 CTTGTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAAAACGGATCTGCTCCAAA
* * *
1457350 CTTGTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGAATCTGCT-CAAT
1 CTTGTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAAAACGGATCTGCTCCAAA
* * * * * * * ** **
1457404 CTTGTTTCAAGGAGATAAGA-TC---CAA----GGGAAGATGAATCTGCTTTACT
1 CTTGTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAAAACGGATCTGCTCCAAA
* **
1457451 CTTGTTTCAGGGAG--AAGACTCGAGAAATCTTTGGAAAACGGATCTGCTCCACT
1 CTTGTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAAAACGGATCTGCTCCAAA
* * * * * * * **
1457504 CTTGTTTCAAGGAGATAAGA-TC---CAA----GGAAAGATGAATCTACTCCACT
1 CTTGTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAAAACGGATCTGCTCCAAA
* * * * **
1457551 CTTGTTTCAGGGAGATAAGACTCAAGAAATATTTGTAAAACGGATATGCT-CACT
1 CTTGTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAAAACGGATCTGCTCCAAA
1457605 CTTGTTTCAGGGAGATAA
1 CTTGTTTCAGGGAGATAA
1457623 TATCCAAAGA
Statistics
Matches: 441, Mismatches: 84, Indels: 101
0.70 0.13 0.16
Matches are distributed among these distances:
45 8 0.02
46 27 0.06
47 135 0.31
48 7 0.02
49 6 0.01
50 2 0.00
51 12 0.03
52 1 0.00
53 84 0.19
54 59 0.13
55 97 0.22
56 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (55 bp):
CTTGTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAAAACGGATCTGCTCCAAA
Found at i:1457165 original size:47 final size:47
Alignment explanation
Indices: 1457091--1458069 Score: 448
Period size: 47 Copynumber: 19.7 Consensus size: 47
1457081 TGAAAAATGG
*
1457091 ATCTGCTCCACTCTTGTTTCAAGGAGATAAGATCCAAGGAAAGAAGA
1 ATCTGCTCCACTCTTGTTTCAGGGAGATAAGATCCAAGGAAAGAAGA
* * * * * *
1457138 ATCTACTCCACTCTTGTTTTAGGGAGATAAGA-CTTAAGAAATCTTTAAAAACGG
1 ATCTGCTCCACTCTTGTTTCAGGGAGATAAGATC-CAAG-GA-----AAGAA-GA
* * *
1457192 ATCTGCT-CACTCTTGTTTCAAGGAGATAAGATCCAAGGGAAGATGA
1 ATCTGCTCCACTCTTGTTTCAGGGAGATAAGATCCAAGGAAAGAAGA
* * *** *
1457238 ATCTGCTCCACTCTTGTTTTAGGGAGA-AGACTTGAATAATCTTTGAAA-AACA
1 ATCTGCTCCACTCTTGTTTCAGGGAGATA-A---G-AT--CCAAGGAAAGAAGA
* * *
1457290 TATCTGCTCCACTCTTGTTTTACGGAGATAAGATCCAAGGAAAGACGA
1 -ATCTGCTCCACTCTTGTTTCAGGGAGATAAGATCCAAGGAAAGAAGA
* *
1457338 ATCTACTCCACTCTTGTTTCAGGGAGATAAGA-CTCGA-GAAATCTTTGTAAAACGA
1 ATCTGCTCCACTCTTGTTTCAGGGAGATAAGATC-CAAGGAAA-----G---AA-GA
* * * *
1457393 ATCTGCT-CAATCTTGTTTCAAGGAGATAAGATCCAAGGGAAGATGA
1 ATCTGCTCCACTCTTGTTTCAGGGAGATAAGATCCAAGGAAAGAAGA
** * *** * *
1457439 ATCTGCTTTACTCTTGTTTCAGGGAGAAGACTCGAGAAATCTTTGGAAA-ACGG
1 ATCTGCTCCACTCTTGTTTCA-GG-G-AGA-T--A-AGATCCAAGGAAAGAAGA
* *
1457492 ATCTGCTCCACTCTTGTTTCAAGGAGATAAGATCCAAGGAAAGATGA
1 ATCTGCTCCACTCTTGTTTCAGGGAGATAAGATCCAAGGAAAGAAGA
* * *
1457539 ATCTACTCCACTCTTGTTTCAGGGAGATAAGA-CTCAAGAAATATTTGTAAAACGG
1 ATCTGCTCCACTCTTGTTTCAGGGAGATAAGATC-CAAGGAA-A---G---AA-GA
* * * *
1457594 ATATGCT-CACTCTTGTTTCAGGGAGATAATATCCAAAGAAAGATGA
1 ATCTGCTCCACTCTTGTTTCAGGGAGATAAGATCCAAGGAAAGAAGA
* * * *
1457640 ATCTGCTCCACTCTTGTTTCAGTGAGATAATATCCAAGAAAAGACGA
1 ATCTGCTCCACTCTTGTTTCAGGGAGATAAGATCCAAGGAAAGAAGA
* * *
1457687 ATCTACTCCACTCTTGTTTCAGGGAGATAAGA-CTCGA-GAAATCTTTGTAAAACA
1 ATCTGCTCCACTCTTGTTTCAGGGAGATAAGATC-CAAGGAAA-----G---AAGA
* * * *
1457741 GATCTGCT-CACTCTTGTTTCAAGGATATAAGATCCAAGGGAAGATGA
1 -ATCTGCTCCACTCTTGTTTCAGGGAGATAAGATCCAAGGAAAGAAGA
** *
1457788 ATCTGCTCCACTCTTACTTCAGGGAG--AAGACTCGAGAAATATTTGGAAA-ACAG-
1 ATCTGCTCCACTCTTGTTTCAGGGAGATAAGA-TC----CA-A---GGAAAGA-AGA
* * * *
1457841 ATCTGCTCCGCTCTTGTTTCAGGGAGATAAGATCTAAGGGAAGATGA
1 ATCTGCTCCACTCTTGTTTCAGGGAGATAAGATCCAAGGAAAGAAGA
* * *** * *
1457888 ATATGCTCCAATCTTGTTTCAGGGAGATACTACTCGAGAAATCTTTGGAAA-ATGG
1 ATCTGCTCCACTCTTGTTTCAGGGAG--A-TA----AG--ATCCAAGGAAAGAAGA
* * * * *
1457943 ATCTACTCTACTCTTGTTTCATGGAGATAAGATCCAAGGGAAGACGA
1 ATCTGCTCCACTCTTGTTTCAGGGAGATAAGATCCAAGGAAAGAAGA
* * * * *
1457990 ATATGCTCCACTCCTGTTTCAGGGAGATAAGA-CTCGAGGGAAGATGA
1 ATCTGCTCCACTCTTGTTTCAGGGAGATAAGATC-CAAGGAAAGAAGA
* * * *
1458037 ATCTGCTCTACTATTATTTTAGGGAGATAAGAT
1 ATCTGCTCCACTCTTGTTTCAGGGAGATAAGAT
1458070 TTGAGAAATC
Statistics
Matches: 704, Mismatches: 137, Indels: 181
0.69 0.13 0.18
Matches are distributed among these distances:
45 4 0.01
46 67 0.10
47 313 0.44
48 7 0.01
49 6 0.01
50 15 0.02
51 8 0.01
52 5 0.01
53 108 0.15
54 106 0.15
55 57 0.08
56 8 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (47 bp):
ATCTGCTCCACTCTTGTTTCAGGGAGATAAGATCCAAGGAAAGAAGA
Found at i:1457240 original size:100 final size:102
Alignment explanation
Indices: 1457048--1457669 Score: 875
Period size: 100 Copynumber: 6.2 Consensus size: 102
1457038 CTGCTCCAAA
* *
1457048 CTTGTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAAAATGGATCTGCTCCACTCTTGTTTCAA
1 CTTGTTTCAGGGAGATAAGACTCAAGAAATCTTTGAAAAACGGATCTGCTCCACTCTTGTTTCAA
*
1457113 GGAGATAAGATCCAAGGAAAGAAGAATCTACTCCACT
66 GGAGATAAGATCCAAGGAAAGATGAATCTACTCCACT
* *
1457150 CTTGTTTTAGGGAGATAAGACTTAAGAAATCTTT-AAAAACGGATCTGCT-CACTCTTGTTTCAA
1 CTTGTTTCAGGGAGATAAGACTCAAGAAATCTTTGAAAAACGGATCTGCTCCACTCTTGTTTCAA
* *
1457213 GGAGATAAGATCCAAGGGAAGATGAATCTGCTCCACT
66 GGAGATAAGATCCAAGGAAAGATGAATCTACTCCACT
* * * ** *
1457250 CTTGTTTTAGGGAG--AAGACTTGAA-TAATCTTTGAAAAACATATCTGCTCCACTCTTGTTTTA
1 CTTGTTTCAGGGAGATAAGAC-TCAAGAAATCTTTGAAAAACGGATCTGCTCCACTCTTGTTTCA
* *
1457312 CGGAGATAAGATCCAAGGAAAGACGAATCTACTCCACT
65 AGGAGATAAGATCCAAGGAAAGATGAATCTACTCCACT
* * * *
1457350 CTTGTTTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACGAATCTGCT-CAATCTTGTTTCAA
1 CTTGTTTCAGGGAGATAAGACTCAAGAAATCTTTGAAAAACGGATCTGCTCCACTCTTGTTTCAA
* * **
1457414 GGAGATAAGATCCAAGGGAAGATGAATCTGCTTTACT
66 GGAGATAAGATCCAAGGAAAGATGAATCTACTCCACT
* *
1457451 CTTGTTTCAGGGAG--AAGACTCGAGAAATCTTTGGAAAACGGATCTGCTCCACTCTTGTTTCAA
1 CTTGTTTCAGGGAGATAAGACTCAAGAAATCTTTGAAAAACGGATCTGCTCCACTCTTGTTTCAA
1457514 GGAGATAAGATCCAAGGAAAGATGAATCTACTCCACT
66 GGAGATAAGATCCAAGGAAAGATGAATCTACTCCACT
* * * *
1457551 CTTGTTTCAGGGAGATAAGACTCAAGAAATATTTGTAAAACGGATATGCT-CACTCTTGTTTCAG
1 CTTGTTTCAGGGAGATAAGACTCAAGAAATCTTTGAAAAACGGATCTGCTCCACTCTTGTTTCAA
* * *
1457615 GGAGATAATATCCAAAGAAAGATGAATCTGCTCCACT
66 GGAGATAAGATCCAAGGAAAGATGAATCTACTCCACT
*
1457652 CTTGTTTCAGTGAGATAA
1 CTTGTTTCAGGGAGATAA
1457670 TATCCAAGAA
Statistics
Matches: 464, Mismatches: 47, Indels: 19
0.88 0.09 0.04
Matches are distributed among these distances:
98 12 0.03
99 48 0.10
100 181 0.39
101 137 0.30
102 86 0.19
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (102 bp):
CTTGTTTCAGGGAGATAAGACTCAAGAAATCTTTGAAAAACGGATCTGCTCCACTCTTGTTTCAA
GGAGATAAGATCCAAGGAAAGATGAATCTACTCCACT
Found at i:1457498 original size:201 final size:201
Alignment explanation
Indices: 1457036--1457666 Score: 978
Period size: 201 Copynumber: 3.1 Consensus size: 201
1457026 TGTAAAACGG
** *
1457036 ATCTGCTCCAAACTTGTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAAAATGGATCTGCTCCA
1 ATCTGCTCCACTCTTGTTTCAGGGAG--AAGACTCGAGAAATCTTTGAAAAACGGATCTGCTCCA
*
1457101 CTCTTGTTTCAAGGAGATAAGATCCAAGGAAAGAAGAATCTACTCCACTCTTGTTTTAGGGAGAT
64 CTCTTGTTTCAAGGAGATAAGATCCAAGGAAAGAAGAATCTACTCCACTCTTGTTTCAGGGAGAT
* *
1457166 AAGACTTAAGAAATCTTT-AAAAACGGATCTGCTCACTCTTGTTTCAAGGAGATAAGATCCAAGG
129 AAGACTCAAGAAATCTTTGTAAAACGGATCTGCTCACTCTTGTTTCAAGGAGATAAGATCCAAGG
1457230 GAAGATGA
194 GAAGATGA
* * **
1457238 ATCTGCTCCACTCTTGTTTTAGGGAGAAGACTTGA-ATAATCTTTGAAAAACATATCTGCTCCAC
1 ATCTGCTCCACTCTTGTTTCAGGGAGAAGACTCGAGA-AATCTTTGAAAAACGGATCTGCTCCAC
* * *
1457302 TCTTGTTTTACGGAGATAAGATCCAAGGAAAGACGAATCTACTCCACTCTTGTTTCAGGGAGATA
65 TCTTGTTTCAAGGAGATAAGATCCAAGGAAAGAAGAATCTACTCCACTCTTGTTTCAGGGAGATA
* * *
1457367 AGACTCGAGAAATCTTTGTAAAACGAATCTGCTCAATCTTGTTTCAAGGAGATAAGATCCAAGGG
130 AGACTCAAGAAATCTTTGTAAAACGGATCTGCTCACTCTTGTTTCAAGGAGATAAGATCCAAGGG
1457432 AAGATGA
195 AAGATGA
** *
1457439 ATCTGCTTTACTCTTGTTTCAGGGAGAAGACTCGAGAAATCTTTGGAAAACGGATCTGCTCCACT
1 ATCTGCTCCACTCTTGTTTCAGGGAGAAGACTCGAGAAATCTTTGAAAAACGGATCTGCTCCACT
*
1457504 CTTGTTTCAAGGAGATAAGATCCAAGGAAAGATGAATCTACTCCACTCTTGTTTCAGGGAGATAA
66 CTTGTTTCAAGGAGATAAGATCCAAGGAAAGAAGAATCTACTCCACTCTTGTTTCAGGGAGATAA
* * * * * *
1457569 GACTCAAGAAATATTTGTAAAACGGATATGCTCACTCTTGTTTCAGGGAGATAATATCCAAAGAA
131 GACTCAAGAAATCTTTGTAAAACGGATCTGCTCACTCTTGTTTCAAGGAGATAAGATCCAAGGGA
1457634 AGATGA
196 AGATGA
*
1457640 ATCTGCTCCACTCTTGTTTCAGTGAGA
1 ATCTGCTCCACTCTTGTTTCAGGGAGA
1457667 TAATATCCAA
Statistics
Matches: 388, Mismatches: 38, Indels: 7
0.90 0.09 0.02
Matches are distributed among these distances:
199 1 0.00
200 108 0.28
201 255 0.66
202 24 0.06
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (201 bp):
ATCTGCTCCACTCTTGTTTCAGGGAGAAGACTCGAGAAATCTTTGAAAAACGGATCTGCTCCACT
CTTGTTTCAAGGAGATAAGATCCAAGGAAAGAAGAATCTACTCCACTCTTGTTTCAGGGAGATAA
GACTCAAGAAATCTTTGTAAAACGGATCTGCTCACTCTTGTTTCAAGGAGATAAGATCCAAGGGA
AGATGA
Found at i:1457675 original size:148 final size:148
Alignment explanation
Indices: 1457492--1457802 Score: 498
Period size: 148 Copynumber: 2.1 Consensus size: 148
1457482 TGGAAAACGG
* *
1457492 ATCTGCTCCACTCTTGTTTCAAGGAGATAAGATCCAAGGAAAGATGAATCTACTCCACTCTTGTT
1 ATCTGCTCCACTCTTGTTTCAAGGAGATAAGATCCAAGAAAAGACGAATCTACTCCACTCTTGTT
* *
1457557 TCAGGGAGATAAGACTCAAGAAATATTTGTAAAACGGATATGCTCACTCTTGTTTCAGGGAGATA
66 TCAGGGAGATAAGACTCAAGAAATATTTGTAAAACAGATATGCTCACTCTTGTTTCAAGGAGATA
*
1457622 ATATCCAAAGAAAGATGA
131 AGATCCAAAGAAAGATGA
*
1457640 ATCTGCTCCACTCTTGTTTC-AGTGAGATAATATCCAAGAAAAGACGAATCTACTCCACTCTTGT
1 ATCTGCTCCACTCTTGTTTCAAG-GAGATAAGATCCAAGAAAAGACGAATCTACTCCACTCTTGT
* * * *
1457704 TTCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACAGATCTGCTCACTCTTGTTTCAAGGATAT
65 TTCAGGGAGATAAGACTCAAGAAATATTTGTAAAACAGATATGCTCACTCTTGTTTCAAGGAGAT
* *
1457769 AAGATCCAAGGGAAGATGA
130 AAGATCCAAAGAAAGATGA
1457788 ATCTGCTCCACTCTT
1 ATCTGCTCCACTCTT
1457803 ACTTCAGGGA
Statistics
Matches: 150, Mismatches: 12, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
147 2 0.01
148 148 0.99
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (148 bp):
ATCTGCTCCACTCTTGTTTCAAGGAGATAAGATCCAAGAAAAGACGAATCTACTCCACTCTTGTT
TCAGGGAGATAAGACTCAAGAAATATTTGTAAAACAGATATGCTCACTCTTGTTTCAAGGAGATA
AGATCCAAAGAAAGATGA
Found at i:1457698 original size:349 final size:349
Alignment explanation
Indices: 1457291--1458082 Score: 1131
Period size: 349 Copynumber: 2.3 Consensus size: 349
1457281 TGAAAAACAT
*
1457291 ATCTGCTCCACTCTTGTTTTACGGAGATAAGATCCAAGGAAAGACGAATCTACTCCACTCTTGTT
1 ATCTGCTCCACTCTTGTTTCA-GGAGATAAGATCCAAGGAAAGACGAATCTACTCCACTCTTGTT
1457356 TCAGGGAGATAAGACTCGAGAAATCTTTGTAAAAC-GAATCTGCTCAATCTTGTTTCAAGGAGAT
65 TCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACAG-ATCTGCTCAATCTTGTTTCAAGGAGAT
** ** *
1457420 AAGATCCAAGGGAAGATGAATCTGCTTTACTCTTGTTTCAGGGAGAAGACTCGAGAAATCTTTGG
129 AAGATCCAAGGGAAGATGAATCTGCTCCACTCTTACTTCAGGGAGAAGACTCGAGAAATATTTGG
* * *
1457485 AAAACGGATCTGCTCCACTCTTGTTTCAAGGAGATAAGATCCAAGGAAAGATGAATCTACTCCAC
194 AAAACAGATCTGCTCCACTCTTGTTTCAAGGAGATAAGATCCAAGGAAAGATGAATATACTCCAA
* *
1457550 TCTTGTTTCAGGGAGATAAGACTCAAGAAATATTTGTAAAACGGATATGCTC-ACTCTTGTTTCA
259 TCTTGTTTCAGGGAGATAAGACTCAAGAAATATTTGGAAAACGGATATACTCTACTCTTGTTTCA
* *
1457614 GGGAGATAATATCCAAAGAAAGATGA
324 GGGAGATAAGATCCAAAGAAAGACGA
* *
1457640 ATCTGCTCCACTCTTGTTTCAGTGAGATAATATCCAAGAAAAGACGAATCTACTCCACTCTTGTT
1 ATCTGCTCCACTCTTGTTTCAG-GAGATAAGATCCAAGGAAAGACGAATCTACTCCACTCTTGTT
* *
1457705 TCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACAGATCTGCTCACTCTTGTTTCAAGGATATA
65 TCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACAGATCTGCTCAATCTTGTTTCAAGGAGATA
1457770 AGATCCAAGGGAAGATGAATCTGCTCCACTCTTACTTCAGGGAGAAGACTCGAGAAATATTTGGA
130 AGATCCAAGGGAAGATGAATCTGCTCCACTCTTACTTCAGGGAGAAGACTCGAGAAATATTTGGA
* * * * *
1457835 AAACAGATCTGCTCCGCTCTTGTTTCAGGGAGATAAGATCTAAGGGAAGATGAATATGCTCCAAT
195 AAACAGATCTGCTCCACTCTTGTTTCAAGGAGATAAGATCCAAGGAAAGATGAATATACTCCAAT
** * * * * *
1457900 CTTGTTTCAGGGAGATACTACTCGAGAAATCTTTGGAAAATGGATCTACTCTACTCTTGTTTCAT
260 CTTGTTTCAGGGAGATAAGACTCAAGAAATATTTGGAAAACGGATATACTCTACTCTTGTTTCAG
* *
1457965 GGAGATAAGATCCAAGGGAAGACGA
325 GGAGATAAGATCCAAAGAAAGACGA
* * * * * * * * *
1457990 ATATGCTCCACTCCTGTTTCAGGGAGATAAGA-CTCGAGGGAAGATGAATCTGCTCTACTATTAT
1 ATCTGCTCCACTCTTGTTTCA-GGAGATAAGATC-CAAGGAAAGACGAATCTACTCCACTCTTGT
* * *
1458054 TTTAGGGAGATAAGATTTGAGAAATCTTT
64 TTCAGGGAGATAAGACTCGAGAAATCTTT
1458083 TGATATCCCT
Statistics
Matches: 393, Mismatches: 45, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
348 1 0.00
349 282 0.72
350 109 0.28
351 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (349 bp):
ATCTGCTCCACTCTTGTTTCAGGAGATAAGATCCAAGGAAAGACGAATCTACTCCACTCTTGTTT
CAGGGAGATAAGACTCGAGAAATCTTTGTAAAACAGATCTGCTCAATCTTGTTTCAAGGAGATAA
GATCCAAGGGAAGATGAATCTGCTCCACTCTTACTTCAGGGAGAAGACTCGAGAAATATTTGGAA
AACAGATCTGCTCCACTCTTGTTTCAAGGAGATAAGATCCAAGGAAAGATGAATATACTCCAATC
TTGTTTCAGGGAGATAAGACTCAAGAAATATTTGGAAAACGGATATACTCTACTCTTGTTTCAGG
GAGATAAGATCCAAAGAAAGACGA
Found at i:1457905 original size:201 final size:203
Alignment explanation
Indices: 1457640--1458027 Score: 546
Period size: 201 Copynumber: 1.9 Consensus size: 203
1457630 AGAAAGATGA
* * * *
1457640 ATCTGCTCCACTCTTGTTTCAGTGAGATAATATCCAAGAAAAGACGAATCTACTCCACTCTTGTT
1 ATCTGCTCCACTCTTGTTTCAGGGAGATAAGATCCAAGAAAAGACGAATATACTCCAATCTTGTT
* * *
1457705 TCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACAGATCTGCTC-ACTCTTGTTTCAAGGATAT
66 TCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACAGATCTACTCTACTCTTGTTTCAAGGAGAT
* * *
1457769 AAGATCCAAGGGAAGATGAATCTGCTCCACTCTTACTTCAGGGAG-AAGACTCGAGAAATATTTG
131 AAGATCCAAGGGAAGACGAATATGCTCCACTCCTACTTCAGGGAGAAAGACTCGAGAAATATTTG
1457833 GAAAACAG
196 GAAAACAG
* * ** * *
1457841 ATCTGCTCCGCTCTTGTTTCAGGGAGATAAGATCTAAGGGAAGATGAATATGCTCCAATCTTGTT
1 ATCTGCTCCACTCTTGTTTCAGGGAGATAAGATCCAAGAAAAGACGAATATACTCCAATCTTGTT
** ** *
1457906 TCAGGGAGATACTACTCGAGAAATCTTTGGAAAATGGATCTACTCTACTCTTGTTTCATGGAGAT
66 TCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACAGATCTACTCTACTCTTGTTTCAAGGAGAT
**
1457971 AAGATCCAAGGGAAGACGAATATGCTCCACTCCTGTTTCAGGGAGATAAGACTCGAG
131 AAGATCCAAGGGAAGACGAATATGCTCCACTCCTACTTCAGGGAGA-AAGACTCGAG
1458028 GGAAGATGAA
Statistics
Matches: 161, Mismatches: 23, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
201 94 0.58
202 57 0.35
204 10 0.06
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (203 bp):
ATCTGCTCCACTCTTGTTTCAGGGAGATAAGATCCAAGAAAAGACGAATATACTCCAATCTTGTT
TCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACAGATCTACTCTACTCTTGTTTCAAGGAGAT
AAGATCCAAGGGAAGACGAATATGCTCCACTCCTACTTCAGGGAGAAAGACTCGAGAAATATTTG
GAAAACAG
Found at i:1457969 original size:102 final size:101
Alignment explanation
Indices: 1457640--1458027 Score: 512
Period size: 102 Copynumber: 3.8 Consensus size: 101
1457630 AGAAAGATGA
* ** * *
1457640 ATCTGCTCCACTCTTGTTTCAGTGAGATAATATCCAAGAAAAGACGAATCTACTCCACTCTTGTT
1 ATCTGCTCCACTCTTGTTTCAG-GAGATAAGATCCAAGGGAAGACGAATATGCTCCACTCTTGTT
*
1457705 TCAGGGAGATAAGACTCGAGAAATCTTTGTAAAACAG
65 TCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACAG
* * * **
1457742 ATCTGCT-CACTCTTGTTTCAAGGATATAAGATCCAAGGGAAGATGAATCTGCTCCACTCTTACT
1 ATCTGCTCCACTCTTGTTTC-AGGAGATAAGATCCAAGGGAAGACGAATATGCTCCACTCTTGTT
*
1457806 TCAGGGAG--AAGACTCGAGAAATATTTGGAAAACAG
65 TCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACAG
* * * *
1457841 ATCTGCTCCGCTCTTGTTTCAGGGAGATAAGATCTAAGGGAAGATGAATATGCTCCAATCTTGTT
1 ATCTGCTCCACTCTTGTTTCA-GGAGATAAGATCCAAGGGAAGACGAATATGCTCCACTCTTGTT
** **
1457906 TCAGGGAGATACTACTCGAGAAATCTTTGGAAAATGG
65 TCAGGGAGATAAGACTCGAGAAATCTTTGGAAAACAG
* * *
1457943 ATCTACTCTACTCTTGTTTCATGGAGATAAGATCCAAGGGAAGACGAATATGCTCCACTCCTGTT
1 ATCTGCTCCACTCTTGTTTCA-GGAGATAAGATCCAAGGGAAGACGAATATGCTCCACTCTTGTT
1458008 TCAGGGAGATAAGACTCGAG
65 TCAGGGAGATAAGACTCGAG
1458028 GGAAGATGAA
Statistics
Matches: 249, Mismatches: 32, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
99 33 0.13
100 56 0.22
101 54 0.22
102 106 0.43
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (101 bp):
ATCTGCTCCACTCTTGTTTCAGGAGATAAGATCCAAGGGAAGACGAATATGCTCCACTCTTGTTT
CAGGGAGATAAGACTCGAGAAATCTTTGGAAAACAG
Found at i:1458868 original size:195 final size:194
Alignment explanation
Indices: 1458531--1458922 Score: 750
Period size: 195 Copynumber: 2.0 Consensus size: 194
1458521 CTTACAGGTT
1458531 AAAACCATTGTTAGTTTTAGAACACCTGTAATTTTCTAAAACTTTTTGTACAATAATACACAAAA
1 AAAACCATTGTTAGTTTTAGAACACCTGTAATTTTCTAAAACTTTTTGTACAATAATACACAAAA
1458596 ATTTCATGTCTTCAAGTTAAACTACATGTTTTTAATTTTCAAAGTACGATGCTTGCAAAAAGAGA
66 ATTTCATGTCTTCAAGTTAAACTACATGTTTTTAATTTTCAAAGTACGATGCTTGCAAAAAGAGA
*
1458661 ATTAACAAGAAAATGTATCTTTTTATTTATATAAATGTATAGAGTCTTTGAGTGACTACACATGG
131 ATTAACAAGAAAATGTATCTTTTTAATTATATAAATGTATAGAGTCTTTGAGTGACT--ACATGG
1458726 C
194 C
1458727 AAAA-CATTGTTAGTTTTAGAACACCTGTAATTTTCTAAAACTTTTTGTACAATAATACACAAAA
1 AAAACCATTGTTAGTTTTAGAACACCTGTAATTTTCTAAAACTTTTTGTACAATAATACACAAAA
1458791 ATTTCATGTCTTCAAGTTAAACTACATGTTTTTAATTTTCAAAGTACGATGCTTGCAAAAAGAGA
66 ATTTCATGTCTTCAAGTTAAACTACATGTTTTTAATTTTCAAAGTACGATGCTTGCAAAAAGAGA
1458856 ATTAACAAGAAAATGTATCTTTTTAATTATATAAATGTATAGAGTCTTTGAGTGACTACATGGC
131 ATTAACAAGAAAATGTATCTTTTTAATTATATAAATGTATAGAGTCTTTGAGTGACTACATGGC
1458920 AAA
1 AAA
1458923 CTTTTACTAT
Statistics
Matches: 195, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
193 10 0.05
195 181 0.93
196 4 0.02
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (194 bp):
AAAACCATTGTTAGTTTTAGAACACCTGTAATTTTCTAAAACTTTTTGTACAATAATACACAAAA
ATTTCATGTCTTCAAGTTAAACTACATGTTTTTAATTTTCAAAGTACGATGCTTGCAAAAAGAGA
ATTAACAAGAAAATGTATCTTTTTAATTATATAAATGTATAGAGTCTTTGAGTGACTACATGGC
Found at i:1459339 original size:6 final size:6
Alignment explanation
Indices: 1459323--1459352 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
1459313 AATCCTCCAT
1459323 TTTTTC TTTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC -TTTTTC TTTTTC TTTTTC TTTTT
1459353 TTTCATTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTC
Found at i:1471933 original size:23 final size:25
Alignment explanation
Indices: 1471880--1471938 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 25
1471870 GGGTCTACTG
1471880 TTGGGTTTTCGGGTTGTTAGTTGTAA
1 TTGGGTTTT-GGGTTGTTAGTTGTAA
* * *
1471906 ATGGGTTTTGGG-T-TTGGTTGTAT
1 TTGGGTTTTGGGTTGTTAGTTGTAA
1471929 TTGGGTTTTG
1 TTGGGTTTTG
1471939 TTTTTATTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 17 0.59
24 1 0.03
25 3 0.10
26 8 0.28
ACGTcount: A:0.08, C:0.02, G:0.37, T:0.53
Consensus pattern (25 bp):
TTGGGTTTTGGGTTGTTAGTTGTAA
Found at i:1474110 original size:17 final size:18
Alignment explanation
Indices: 1474085--1474118 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1474075 CTATTTTTTA
*
1474085 AAATTAAGA-AAATAAAT
1 AAATGAAGATAAATAAAT
1474102 AAATGAAGATAAATAAA
1 AAATGAAGATAAATAAA
1474119 ATTGAGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (18 bp):
AAATGAAGATAAATAAAT
Found at i:1475474 original size:4 final size:4
Alignment explanation
Indices: 1475467--1475495 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
1475457 AAAACAAACA
1475467 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1475496 TAAAAAACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1475526 original size:18 final size:18
Alignment explanation
Indices: 1475473--1475529 Score: 66
Period size: 17 Copynumber: 3.3 Consensus size: 18
1475463 AACAAAATAA
*
1475473 ATAA-ATAAATAAATAAAT
1 ATAATATAAA-AAATTAAT
*
1475491 A-AATATAAAAAACT-AT
1 ATAATATAAAAAATTAAT
1475507 ATAATATAAAAAATTAAT
1 ATAATATAAAAAATTAAT
1475525 ATAAT
1 ATAAT
1475530 TTTTGAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 3 0.09
17 17 0.52
18 13 0.39
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAATATAAAAAATTAAT
Found at i:1475668 original size:38 final size:38
Alignment explanation
Indices: 1475530--1475932 Score: 490
Period size: 38 Copynumber: 10.7 Consensus size: 38
1475520 TTAATATAAT
* * *
1475530 TTTTGAAAAATGTTTTC-CAAATTATATA-T-TATATA
1 TTTTCAAAAATGTTTTCAAAAACTATATATTATATATA
* **
1475565 TTTTC-AAAACGTTTT--AAAACTATATATTGCATATA
1 TTTTCAAAAATGTTTTCAAAAACTATATATTATATATA
1475600 TTTTCAAAAATGTTTTC-AAAACTATATATTATATATA
1 TTTTCAAAAATGTTTTCAAAAACTATATATTATATATA
*
1475637 TTTTCAAAAGTGTTTTCAAAAACTATATATTATATATA
1 TTTTCAAAAATGTTTTCAAAAACTATATATTATATATA
1475675 TTTTCAAAAATGTTTTCAAAAACTATATATTATATATA
1 TTTTCAAAAATGTTTTCAAAAACTATATATTATATATA
*
1475713 TTTTCAAAAATGTTTTCAAAAACTATATTTTATATATA
1 TTTTCAAAAATGTTTTCAAAAACTATATATTATATATA
1475751 TTTTCAAAAATGTTTTCAAAAACTATATATTATATATA
1 TTTTCAAAAATGTTTTCAAAAACTATATATTATATATA
*
1475789 TTTTCAAAAATGTTTTC-AAAACTATATAATATATATA
1 TTTTCAAAAATGTTTTCAAAAACTATATATTATATATA
* * * *
1475826 TATTCGAAAACTAAT-TTTTTAAATA-TATATATATATTATATG
1 TTTTC--AAA--AATGTTTTCAAAAACTATATAT-TA-TATATA
*
1475868 TTTTCAAAAACCCGTTTTCTAAAAACTATATA-T-TATAT-
1 TTTTCAAAAA--TGTTTTC-AAAAACTATATATTATATATA
* *
1475906 TTTTCAAAAATATTTTCAAAAATTATA
1 TTTTCAAAAATGTTTTCAAAAACTATA
1475933 CTATATTAAC
Statistics
Matches: 326, Mismatches: 25, Indels: 34
0.85 0.06 0.09
Matches are distributed among these distances:
33 9 0.03
34 10 0.03
35 23 0.07
36 14 0.04
37 57 0.17
38 160 0.49
39 8 0.02
40 13 0.04
41 13 0.04
42 13 0.04
43 6 0.02
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.45
Consensus pattern (38 bp):
TTTTCAAAAATGTTTTCAAAAACTATATATTATATATA
Found at i:1476667 original size:85 final size:85
Alignment explanation
Indices: 1476524--1477798 Score: 1793
Period size: 85 Copynumber: 15.0 Consensus size: 85
1476514 CAATGGAGTG
* * *
1476524 GATATGCCCTTGAGCTTAATGGAATCGAACTCGAAGGTTTTTGTTGAAAGATAACCCTTCTCGCC
1 GATATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCC
* * *
1476589 TTAAGTTATCCTGTAAATTT
66 TTGAGCTATGCTGTAAATTT
* * * * * *
1476609 GATATGTCATTTAGCTGAATGGAAACAAACTTGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCC
1 GATATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCC
1476674 TTGAGCTATGCTGTAAATTT
66 TTGAGCTATGCTGTAAATTT
* * * * * *
1476694 GAAATGCCCTTAAGTTGAATGGAATTGAGCTCGTAGGTTTTTGTTGACAGATAGCCCTTCTCGCC
1 GATATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCC
* * *
1476759 TTGAGCTATGTTGTAGATTG
66 TTGAGCTATGCTGTAAATTT
* * *
1476779 GATTTGCCCTTGAGTTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCACC
1 GATATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCC
* *
1476844 TTGAGCTATTCTGTAAATTG
66 TTGAGCTATGCTGTAAATTT
* * * * *
1476864 GATATGCCCTTGAGCTTAATGGAATCGAACACGAAGGTTTTTGTTGAAAGATAGCCCATCTAGCC
1 GATATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCC
*
1476929 TTGAGCTATGTTGTAAATTT
66 TTGAGCTATGCTGTAAATTT
* * * *
1476949 GATATGCCCTTGAGCTTAATGGAATCAAACTTGAAGGTTTTTTTTGACAGATAGCCCTTCTCGCC
1 GATATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCC
1477014 TTGAGCTATGCTGTAAATTT
66 TTGAGCTATGCTGTAAATTT
*
1477034 GATATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCACC
1 GATATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCC
*
1477099 TTGAGCTATGATGTAAATTT
66 TTGAGCTATGCTGTAAATTT
* * * *
1477119 GATATGCCTTTGAGATAAATGTAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCC
1 GATATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCC
*
1477184 TTGAGCTATGCTGTAAATTG
66 TTGAGCTATGCTGTAAATTT
* *
1477204 GATATGCCCTTGAGCTGAATGAAATC-AAGCTCGAAGGTTTTTATTGACAGATAGCCCTTCTCGC
1 GATATGCCCTTGAGCTGAATGGAATCGAA-CTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGC
* * *
1477268 CTTGAGTTATGTTGTAAATTG
65 CTTGAGCTATGCTGTAAATTT
* * * * *
1477289 GATATGTCCTTGAGTTGAATGGAATCGAACTCGAAGGTTTTTGTAGACATATAGCACTTCTCGCC
1 GATATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCC
1477354 TTGAGCTATGCTGTAAATTT
66 TTGAGCTATGCTGTAAATTT
* * *
1477374 GATATGCCCTTGAGCTAAATGTAATCAAACTCGAAGGTTTTTGTTGACAGAT-GCCCTTCTCGCC
1 GATATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCC
* *
1477438 TTTAGTTATGCTGTAAATTT
66 TTGAGCTATGCTGTAAATTT
*
1477458 GATATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGATAGATAGCCCTTCTCGCC
1 GATATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCC
* *
1477523 TTGAGTTATGTTGTAAATTT
66 TTGAGCTATGCTGTAAATTT
* * * *
1477543 GATATGCCCTTGAGCTGAATAGAATCGAACTTGAAGGTTTTTGCTGACAGGTAGCCCTTCTCGCC
1 GATATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCC
*
1477608 TCT-AGCAATGCTGTAAATATT
66 T-TGAGCTATGCTGTAAAT-TT
* * * * *
1477629 -ATATACCCTTGAGTTGAATGTAATCGAACTCGAAGGTTTTTGCTGACAGATTGCCCTTCTCGCC
1 GATATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCC
*
1477693 TTGAGCTATTCTGTAAATTT
66 TTGAGCTATGCTGTAAATTT
* * * * *
1477713 GATATGCCCATGAGCTAAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAGTCCTTCTCGCC
1 GATATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCC
*
1477778 TTCAGCTATGCTGTAAATTT
66 TTGAGCTATGCTGTAAATTT
1477798 G
1 G
1477799 GTTGGGAGAT
Statistics
Matches: 1055, Mismatches: 128, Indels: 14
0.88 0.11 0.01
Matches are distributed among these distances:
84 82 0.08
85 968 0.92
86 5 0.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (85 bp):
GATATGCCCTTGAGCTGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCC
TTGAGCTATGCTGTAAATTT
Found at i:1478317 original size:28 final size:28
Alignment explanation
Indices: 1478285--1478352 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
1478275 ATATGTCTCG
1478285 AAGGACCACATATAACACATATATCCCA
1 AAGGACCACATATAACACATATATCCCA
* * * *
1478313 AAGGACCATATATAACACATATGTCTCG
1 AAGGACCACATATAACACATATATCCCA
1478341 AAGGACCACATA
1 AAGGACCACATA
1478353 CATATTCCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.44, C:0.25, G:0.12, T:0.19
Consensus pattern (28 bp):
AAGGACCACATATAACACATATATCCCA
Found at i:1478406 original size:21 final size:21
Alignment explanation
Indices: 1478341--1478433 Score: 64
Period size: 21 Copynumber: 4.4 Consensus size: 21
1478331 ATATGTCTCG
* *
1478341 AAGGACCACATACATATTCCA
1 AAGGACCACATATATGTTCCA
* * * *
1478362 ATGGATCAAATA-AGTGTACCA
1 AAGGACCACATATA-TGTTCCA
*
1478383 AAGTACCACATATATGTTCCA
1 AAGGACCACATATATGTTCCA
** *
1478404 AAGGATTACATATATG-TCTCG
1 AAGGACCACATATATGTTC-CA
1478425 AAGGACCAC
1 AAGGACCAC
1478434 GTAGAACCCT
Statistics
Matches: 53, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
20 3 0.06
21 49 0.92
22 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.24
Consensus pattern (21 bp):
AAGGACCACATATATGTTCCA
Found at i:1478433 original size:42 final size:42
Alignment explanation
Indices: 1478331--1478433 Score: 111
Period size: 42 Copynumber: 2.5 Consensus size: 42
1478321 TATATAACAC
*
1478331 ATATGTCTCGAAGGACCACATACATATTCCAATGGATCAAAT
1 ATATGTCTCGAAGGACCACATACATATTCCAAAGGATCAAAT
* * * * * *
1478373 A-AGTGTAC-CAAAGTACCACATATATGTTCCAAAGGATTACAT
1 ATA-TGT-CTCGAAGGACCACATACATATTCCAAAGGATCAAAT
1478415 ATATGTCTCGAAGGACCAC
1 ATATGTCTCGAAGGACCAC
1478434 GTAGAACCCT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
41 2 0.04
42 44 0.92
43 2 0.04
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (42 bp):
ATATGTCTCGAAGGACCACATACATATTCCAAAGGATCAAAT
Found at i:1482489 original size:19 final size:19
Alignment explanation
Indices: 1482465--1482505 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
1482455 CCACATATAA
*
1482465 CACATATGTCCCAAAGAAC
1 CACATATATCCCAAAGAAC
*
1482484 CACATATATCCCGAAGAAC
1 CACATATATCCCAAAGAAC
1482503 CAC
1 CAC
1482506 TCCTTAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.34, G:0.10, T:0.15
Consensus pattern (19 bp):
CACATATATCCCAAAGAAC
Found at i:1482585 original size:42 final size:42
Alignment explanation
Indices: 1482514--1482603 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 42
1482504 ACTCCTTAAA
* *
1482514 GACCACATACATATTCCAATGGATCAAATATATGT-ACCGAAG
1 GACCACATACATATTACAAAGGATCAAATATATGTCA-CGAAG
* * * *
1482556 TACCACATATATGTTACAAAGGATTAAATATATGTCACGAAG
1 GACCACATACATATTACAAAGGATCAAATATATGTCACGAAG
1482598 GACCAC
1 GACCAC
1482604 GTAGAACCCT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 39 0.98
43 1 0.03
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.24
Consensus pattern (42 bp):
GACCACATACATATTACAAAGGATCAAATATATGTCACGAAG
Found at i:1488858 original size:15 final size:14
Alignment explanation
Indices: 1488834--1488867 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
1488824 TTTTTAAAGT
1488834 AAAAAAATGTTAAG
1 AAAAAAATGTTAAG
*
1488848 AAAATAAATGTTAAT
1 AAAA-AAATGTTAAG
1488863 AAAAA
1 AAAAA
1488868 TACCAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (14 bp):
AAAAAAATGTTAAG
Found at i:1490126 original size:4 final size:4
Alignment explanation
Indices: 1490119--1490151 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
1490109 AAAACAAACA
1490119 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1490152 TAAAAAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1490263 original size:37 final size:37
Alignment explanation
Indices: 1490164--1490490 Score: 305
Period size: 37 Copynumber: 8.8 Consensus size: 37
1490154 AAAAAAACTA
* * *
1490164 ATATAAATTTTCGAAAAATGTTTTCCAAATTATATA-T
1 ATATATATTTTC-AAAAATGTTTTCAAAACTATATATT
*
1490201 -TATATATTTTC-AAAACGTTTT-AAAACTATATATT
1 ATATATATTTTCAAAAATGTTTTCAAAACTATATATT
**
1490235 GCATATATTTTCAAAAATGTTTTCAAAACTATATATT
1 ATATATATTTTCAAAAATGTTTTCAAAACTATATATT
*
1490272 ATATATATTTTTCAAAAGTGTTTTCAAAA--ACTATATT
1 ATATATA-TTTTCAAAAATGTTTTCAAAACTA-TATATT
*
1490309 ATATATATTTTTAAAAATGTTTTCAAAAACTATATATT
1 ATATATATTTTCAAAAATGTTTTC-AAAACTATATATT
* *
1490347 ATATATATTTTCAAAAATATTTTCAAAACTATATAAT
1 ATATATATTTTCAAAAATGTTTTCAAAACTATATATT
* * * **
1490384 ATATATTTTTTCAAAAATCATTTTTTTTAAAAAAATATA-T
1 ATATATATTTTC-AAAA--A-TGTTTTCAAAACTATATATT
* *
1490424 ATTATATGTTTTCAAAAAACCGTTTTCAAAAAACTATATA-T
1 A-TATATATTTTC-AAAAA-TGTTTTC--AAAACTATATATT
*
1490465 -TATAT-TTTTCAAAAATATTTTCAAAA
1 ATATATATTTTCAAAAATGTTTTCAAAA
1490491 ATTATACTAT
Statistics
Matches: 246, Mismatches: 28, Indels: 35
0.80 0.09 0.11
Matches are distributed among these distances:
33 9 0.04
34 14 0.06
35 10 0.04
36 40 0.16
37 63 0.26
38 57 0.23
39 11 0.04
40 3 0.01
41 39 0.16
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (37 bp):
ATATATATTTTCAAAAATGTTTTCAAAACTATATATT
Found at i:1490450 original size:14 final size:14
Alignment explanation
Indices: 1490431--1490457 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1490421 TATATTATAT
1490431 GTTTTCAAAAAACC
1 GTTTTCAAAAAACC
1490445 GTTTTCAAAAAAC
1 GTTTTCAAAAAAC
1490458 TATATATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (14 bp):
GTTTTCAAAAAACC
Found at i:1490450 original size:80 final size:77
Alignment explanation
Indices: 1490259--1490485 Score: 229
Period size: 80 Copynumber: 2.9 Consensus size: 77
1490249 AAATGTTTTC
* * *
1490259 AAAACTATATATTATATATATTTTTCAAAAGTGTTTTCAAAAACTATATTATATATATTTTT--A
1 AAAAATATATATTATATATA-TTTTCAAAAATATTTTCAAAAACTATA-TAT-TATATTTTTCAA
* *
1490322 AAA-A--TGTTTTCA
63 AAATATTTTTTTTAA
*
1490334 AAAACTATATATTATATATATTTTCAAAAATATTTTC-AAAACTATATAATATATATTTTTTCAA
1 AAAAATATATATTATATATATTTTCAAAAATATTTTCAAAAACTATAT-AT-TATA-TTTTTCAA
1490398 AAATCATTTTTTTTAA
63 AAAT-ATTTTTTTTAA
*
1490414 AAAAATATATA-T-TATATGTTTTCAAAAA-ACCGTTTTCAAAAAACTATATATTATATTTTTCA
1 AAAAATATATATTATATATATTTTCAAAAATA---TTTTC-AAAAACTATATATTATATTTTTCA
1490476 AAAATATTTT
62 AAAATATTTT
1490486 CAAAAATTAT
Statistics
Matches: 133, Mismatches: 6, Indels: 23
0.82 0.04 0.14
Matches are distributed among these distances:
72 1 0.01
73 16 0.12
74 20 0.15
75 20 0.15
76 4 0.03
77 1 0.01
78 21 0.16
79 13 0.10
80 25 0.19
81 2 0.02
82 10 0.08
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (77 bp):
AAAAATATATATTATATATATTTTCAAAAATATTTTCAAAAACTATATATTATATTTTTCAAAAA
TATTTTTTTTAA
Found at i:1491521 original size:86 final size:84
Alignment explanation
Indices: 1491429--1491698 Score: 260
Period size: 86 Copynumber: 3.2 Consensus size: 84
1491419 AAGTTAAAGG
* * *
1491429 CCTCAATTATAAAAGTAAAAAGTATAATT-AAAAAAATAGAGACCTCAAATATAAAGGTAAAAGA
1 CCTCAATTATAAAGGTAAAAAGTATAATTGAAAAAAATAGAGACATCAATTATAAAGGTAAAA-A
*
1491493 CGAGATTAAAAAAAATTGGAGA
65 CGAGATT-AAAAAAATT-AAGA
* *
1491515 CCTCAATTATAAAGGTAGAAAGTA-AGATTGAAAAAAATTAG-GAGCATTAATTATAAAGGTAGA
1 CCTCAATTATAAAGGTAAAAAGTATA-ATTGAAAAAAA-TAGAGA-CATCAATTATAAAGGTA-A
* * * *
1491578 AAATGTGATTGAAAAAATTAAGG
62 AAACGAGATTAAAAAAATTAAGA
* * * * *
1491601 TCTCAATTAT-AAGGTAAAAAGTATGATTGAAAAAATTAAAAACATCAATTATAAAGGTAAAAAG
1 CCTCAATTATAAAGGTAAAAAGTATAATTGAAAAAAATAGAGACATCAATTATAAAGGTAAAAA-
* *
1491665 TGATATTAAAAAAATTAAGAA
65 CGAGATTAAAAAAATTAAG-A
* *
1491686 CTTCAACTATAAA
1 CCTCAATTATAAA
1491699 AATTAAAAAT
Statistics
Matches: 150, Mismatches: 24, Indels: 20
0.77 0.12 0.10
Matches are distributed among these distances:
83 4 0.03
84 34 0.23
85 31 0.21
86 38 0.25
87 17 0.11
88 23 0.15
89 3 0.02
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (84 bp):
CCTCAATTATAAAGGTAAAAAGTATAATTGAAAAAAATAGAGACATCAATTATAAAGGTAAAAAC
GAGATTAAAAAAATTAAGA
Found at i:1491628 original size:41 final size:43
Alignment explanation
Indices: 1491431--1491698 Score: 214
Period size: 44 Copynumber: 6.3 Consensus size: 43
1491421 GTTAAAGGCC
* * * *
1491431 TCAATTATAAAAGTAAAAAGTATAATT-AAAAAAAT-AGAGACC
1 TCAATTATAAAGGTAAAAAGTATGATTGAAAAAATTAAG-GACA
* * * *
1491473 TCAAATATAAAGGTAAAAGACG-A-GATTAAAAAAAATT-GGAGACC
1 TCAATTATAAAGGTAAAA-A-GTATGATT-GAAAAAATTAAG-GACA
* *
1491517 TCAATTATAAAGGTAGAAAGTAAGATTGAAAAAAATT-AGGAGCA
1 TCAATTATAAAGGTAAAAAGTATGATTG-AAAAAATTAAGGA-CA
* * *
1491561 TTAATTATAAAGGTAGAAAA-TGTGATTGAAAAAATTAAGGTC-
1 TCAATTATAAAGGTA-AAAAGTATGATTGAAAAAATTAAGGACA
**
1491603 TCAATTAT-AAGGTAAAAAGTATGATTGAAAAAATTAAAAACA
1 TCAATTATAAAGGTAAAAAGTATGATTGAAAAAATTAAGGACA
* * *
1491645 TCAATTATAAAGGTAAAAAGTGAT-ATTAAAAAAATTAAGAACT
1 TCAATTATAAAGGTAAAAAGT-ATGATTGAAAAAATTAAGGACA
*
1491688 TCAACTATAAA
1 TCAATTATAAA
1491699 AATTAAAAAT
Statistics
Matches: 188, Mismatches: 24, Indels: 27
0.79 0.10 0.11
Matches are distributed among these distances:
40 4 0.02
41 24 0.13
42 35 0.19
43 53 0.28
44 69 0.37
45 3 0.02
ACGTcount: A:0.54, C:0.06, G:0.15, T:0.25
Consensus pattern (43 bp):
TCAATTATAAAGGTAAAAAGTATGATTGAAAAAATTAAGGACA
Found at i:1491681 original size:43 final size:42
Alignment explanation
Indices: 1491430--1491768 Score: 185
Period size: 44 Copynumber: 7.9 Consensus size: 42
1491420 AGTTAAAGGC
* * *
1491430 CTCAATTATAAAAGTAAAAAGT-ATAATTAAAAAAA-TAGAGAC
1 CTCAATTATAAAGGTAAAAAGTAAT-ATTAAAAAAATTA-AAAA
* * * * *
1491472 CTCAAATATAAAGGTAAAAGACG-AGAT-TAAAAAAAATTGGAGAC
1 CTCAATTATAAAGGTAAAA-A-GTA-ATATTAAAAAAATT-AAAAA
* * ** *
1491516 CTCAATTATAAAGGTAGAAAGTAAGATTGAAAAAAATTAGGAG
1 CTCAATTATAAAGGTAAAAAGTAATATT-AAAAAAATTAAAAA
* * * ***
1491559 CATTAATTATAAAGGTAGAAAATGT--GATTGAAAAAATTAAGGT
1 C-TCAATTATAAAGGTA-AAAA-GTAATATTAAAAAAATTAAAAA
*
1491602 CTCAATTAT-AAGGTAAAAAGT-ATGATTGAAAAAATTAAAAA
1 CTCAATTATAAAGGTAAAAAGTAAT-ATTAAAAAAATTAAAAA
* *
1491643 CATCAATTATAAAGGTAAAAAGTGATATTAAAAAAATTAAGAA
1 C-TCAATTATAAAGGTAAAAAGTAATATTAAAAAAATTAAAAA
* ** * *
1491686 CTTCAACTATAAAAATTAAAAATTAAAAATT-AAAAAATTAAAAA
1 C-TCAATTAT-AAAGGTAAAAAGT-AATATTAAAAAAATTAAAAA
* * *
1491730 TCTTAATTATAAAGATAAAATA-TAAAATTAAAAAAATTA
1 -CTCAATTATAAAGGTAAAA-AGTAATATTAAAAAAATTA
1491769 GAGACTGAGT
Statistics
Matches: 239, Mismatches: 36, Indels: 43
0.75 0.11 0.14
Matches are distributed among these distances:
39 2 0.01
40 4 0.02
41 21 0.09
42 40 0.17
43 79 0.33
44 81 0.34
45 10 0.04
46 2 0.01
ACGTcount: A:0.57, C:0.05, G:0.12, T:0.26
Consensus pattern (42 bp):
CTCAATTATAAAGGTAAAAAGTAATATTAAAAAAATTAAAAA
Found at i:1491714 original size:8 final size:7
Alignment explanation
Indices: 1491695--1491730 Score: 63
Period size: 7 Copynumber: 5.0 Consensus size: 7
1491685 ACTTCAACTA
1491695 TAAAAAT
1 TAAAAAT
1491702 TAAAAAT
1 TAAAAAT
1491709 TAAAAAT
1 TAAAAAT
1491716 TAAAAAAT
1 T-AAAAAT
1491724 TAAAAAT
1 TAAAAAT
1491731 CTTAATTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
TAAAAAT
Found at i:1491714 original size:14 final size:15
Alignment explanation
Indices: 1491695--1491730 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
1491685 ACTTCAACTA
1491695 TAAAAATT-AAAAAT
1 TAAAAATTAAAAAAT
1491709 TAAAAATTAAAAAAT
1 TAAAAATTAAAAAAT
1491724 TAAAAAT
1 TAAAAAT
1491731 CTTAATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAAATTAAAAAAT
Found at i:1496024 original size:21 final size:21
Alignment explanation
Indices: 1495998--1496042 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
1495988 TTTTTTCACA
*
1495998 GTTAAGATTAAAGAGACCTCG
1 GTTAAGATCAAAGAGACCTCG
*
1496019 GTTAAGATCAAAGAGGCCTCG
1 GTTAAGATCAAAGAGACCTCG
1496040 GTT
1 GTT
1496043 CTCTACAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (21 bp):
GTTAAGATCAAAGAGACCTCG
Found at i:1501017 original size:46 final size:46
Alignment explanation
Indices: 1500964--1501057 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
1500954 AGATGTTGGC
1500964 AAAAATACCCTTGGGTTGTCGACGGGGAAGGCCAAGGAACATAAAG
1 AAAAATACCCTTGGGTTGTCGACGGGGAAGGCCAAGGAACATAAAG
*
1501010 AAAAATACCCTTGGGTTGTCGACGGGGGAGGCCAAGGAACATAAAG
1 AAAAATACCCTTGGGTTGTCGACGGGGAAGGCCAAGGAACATAAAG
1501056 AA
1 AA
1501058 TCGTGGTGGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.37, C:0.17, G:0.31, T:0.15
Consensus pattern (46 bp):
AAAAATACCCTTGGGTTGTCGACGGGGAAGGCCAAGGAACATAAAG
Found at i:1504882 original size:202 final size:203
Alignment explanation
Indices: 1504557--1504928 Score: 597
Period size: 202 Copynumber: 1.8 Consensus size: 203
1504547 TCGTCATGTT
1504557 GGCGTGACGAGTCCTAATAAAAAATAATTTTTTGATTTTTTTAAAAAAAAATTGTAAAAAAATAT
1 GGCGTGACGAGTCCTAATAAAAAATAATTTTTTGATTTTTTT--AAAAAAATTGTAAAAAAATAT
* * *
1504622 AATATTTTAATGGATAGGGAACTCGTCACGGCAGTGTGACGAGTTCCAACAGGTATAAATTTGAA
64 AATATTTTAATGGATAGGGAACTCGTCACGCCAGTGTGACAAGTTACAACAGGTATAAATTTGAA
* * *
1504687 TTTTTAGATTGTGGGGTGACCGTCGTTGAACGAGCAATTTTTTTTAATTCAATGGAACTCGTCAC
129 TATTTAGATCGTGGGGTGACCATCGTTGAACGAGCAATTTTTTTTAATTCAATGGAACTCGTCAC
1504752 GCCGGCCGGC
194 GCCGGCCGGC
*
1504762 GGCGTGACGAGTCCTAAT-AAAAATAATTTTTTGGAATTTTTTT-AAAAAATTG-AATAAAATAT
1 GGCGTGACGAGTCCTAATAAAAAATAATTTTTT-G-ATTTTTTTAAAAAAATTGTAAAAAAATAT
* *
1504824 AATATTTTAATGGATAGGGAACTCTTCACGCCAGTGTGACAAGTTACAACATGTATAAATTTGAA
64 AATATTTTAATGGATAGGGAACTCGTCACGCCAGTGTGACAAGTTACAACAGGTATAAATTTGAA
*
1504889 TATTTAGATCGTGGGGTGACCATCGTTGAACGGGCAATTT
129 TATTTAGATCGTGGGGTGACCATCGTTGAACGAGCAATTT
1504929 GAAAAAAAAA
Statistics
Matches: 155, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
202 105 0.68
203 9 0.06
204 14 0.09
205 19 0.12
206 8 0.05
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.33
Consensus pattern (203 bp):
GGCGTGACGAGTCCTAATAAAAAATAATTTTTTGATTTTTTTAAAAAAATTGTAAAAAAATATAA
TATTTTAATGGATAGGGAACTCGTCACGCCAGTGTGACAAGTTACAACAGGTATAAATTTGAATA
TTTAGATCGTGGGGTGACCATCGTTGAACGAGCAATTTTTTTTAATTCAATGGAACTCGTCACGC
CGGCCGGC
Found at i:1513125 original size:24 final size:24
Alignment explanation
Indices: 1513093--1513138 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
1513083 GCATGATATG
1513093 GTACATAGATGTTTTATACATCGT
1 GTACATAGATGTTTTATACATCGT
1513117 GTACATAGATGTTTTATACATC
1 GTACATAGATGTTTTATACATC
1513139 ATCAGGAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (24 bp):
GTACATAGATGTTTTATACATCGT
Found at i:1518806 original size:18 final size:18
Alignment explanation
Indices: 1518783--1518834 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
1518773 TATGTGATAT
*
1518783 GTGGTCCTTTGAGACATA
1 GTGGTCCTTCGAGACATA
*
1518801 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGAGACATA
*
1518819 GTGGTCCTTCGGGACA
1 GTGGTCCTTCGAGACA
1518835 AATTGTAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.17, C:0.21, G:0.33, T:0.29
Consensus pattern (18 bp):
GTGGTCCTTCGAGACATA
Found at i:1521158 original size:321 final size:321
Alignment explanation
Indices: 1520576--1521221 Score: 1256
Period size: 321 Copynumber: 2.0 Consensus size: 321
1520566 GCTTTTCAAG
*
1520576 AAGCAGTTAGCAAGGCTAAAGCTATGGAAAAAGTTGACCTTGATGATCTAGAAGCGAAGAAAGCA
1 AAGCAGTTAACAAGGCTAAAGCTATGGAAAAAGTTGACCTTGATGATCTAGAAGCGAAGAAAGCA
* *
1520641 CAGGCAAATAAAAGGTTTGGAAATTCCTACTCTGCACCATTTTCCAAACGCAACAAGAGTCAACA
66 CAGACAAATAAAAGGTATGGAAATTCCTACTCTGCACCATTTTCCAAACGCAACAAGAGTCAACA
1520706 GCAGAAAAGTTATGCTTCTTCAGCAACTATGGGCAGAAAGGGTTTTGGTGGAGGAAAGTCCAAGC
131 GCAGAAAAGTTATGCTTCTTCAGCAACTATGGGCAGAAAGGGTTTTGGTGGAGGAAAGTCCAAGC
1520771 AGACCCATGCAGCTTTAGCAGATACTAAAGGTTCAGAATTTCGTCCTAAACCAGAATGCGAGTTT
196 AGACCCATGCAGCTTTAGCAGATACTAAAGGTTCAGAATTTCGTCCTAAACCAGAATGCGAGTTT
1520836 TGTGGAAAGAATCATTATGGTCAATTCCGACTCATGGAAGGGAAATATTATAACTGTGGAC
261 TGTGGAAAGAATCATTATGGTCAATTCCGACTCATGGAAGGGAAATATTATAACTGTGGAC
1520897 AAGCAGTTAACAAGGCTAAAGCTATGGAAAAAGTTGACCTTGATGATCTAGAAGCGAAGAAAGCA
1 AAGCAGTTAACAAGGCTAAAGCTATGGAAAAAGTTGACCTTGATGATCTAGAAGCGAAGAAAGCA
1520962 CAGACAAATAAAAGGTATGGAAATTCCTACTCTGCACCATTTTCCAAACGCAACAAGAGTCAACA
66 CAGACAAATAAAAGGTATGGAAATTCCTACTCTGCACCATTTTCCAAACGCAACAAGAGTCAACA
1521027 GCAGAAAAGTTATGCTTCTTCAGCAACTATGGGCAGAAAGGGTTTTGGTGGAGGAAAGTCCAAGC
131 GCAGAAAAGTTATGCTTCTTCAGCAACTATGGGCAGAAAGGGTTTTGGTGGAGGAAAGTCCAAGC
1521092 AGACCCATGCAGCTTTAGCAGATACTAAAGGTTCAGAATTTCGTCCTAAACCAGAATGCGAGTTT
196 AGACCCATGCAGCTTTAGCAGATACTAAAGGTTCAGAATTTCGTCCTAAACCAGAATGCGAGTTT
*
1521157 TGTGGAAAGAATCATTATGGTCAATTCCGACTCATGGAAGGGAAATGTTATAACTGTGGAC
261 TGTGGAAAGAATCATTATGGTCAATTCCGACTCATGGAAGGGAAATATTATAACTGTGGAC
1521218 AAGC
1 AAGC
1521222 GGGTCATTAT
Statistics
Matches: 321, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
321 321 1.00
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (321 bp):
AAGCAGTTAACAAGGCTAAAGCTATGGAAAAAGTTGACCTTGATGATCTAGAAGCGAAGAAAGCA
CAGACAAATAAAAGGTATGGAAATTCCTACTCTGCACCATTTTCCAAACGCAACAAGAGTCAACA
GCAGAAAAGTTATGCTTCTTCAGCAACTATGGGCAGAAAGGGTTTTGGTGGAGGAAAGTCCAAGC
AGACCCATGCAGCTTTAGCAGATACTAAAGGTTCAGAATTTCGTCCTAAACCAGAATGCGAGTTT
TGTGGAAAGAATCATTATGGTCAATTCCGACTCATGGAAGGGAAATATTATAACTGTGGAC
Found at i:1522067 original size:47 final size:45
Alignment explanation
Indices: 1521997--1522122 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
1521987 TATAAAATCT
*
1521997 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
1522042 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCTATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
1522089 CTTGCCA-TTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
1522123 GTATGGTTAC
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 23 0.32
45 10 0.14
46 2 0.03
47 37 0.51
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:1522271 original size:40 final size:40
Alignment explanation
Indices: 1522227--1522308 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
1522217 ACCGTAGTGC
1522227 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1522267 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1522307 TA
1 TA
1522309 TAAACCTACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:1529095 original size:47 final size:45
Alignment explanation
Indices: 1529025--1529150 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
1529015 TATAAAATTT
*
1529025 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
1529070 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCTATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
1529117 CTTGCCA-TTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
1529151 GCATGGTTAC
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 23 0.32
45 10 0.14
46 2 0.03
47 37 0.51
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Done.