Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 285 of 425
Found at i:88265111 original size:46 final size:48
Alignment explanation
Indices: 88264983--88265246 Score: 221
Period size: 46 Copynumber: 5.6 Consensus size: 48
88264973 AAGCCAACGC
* * * *
88264983 CATGTCCCAGACATGGTCTAACATTAGCTCTCACATATCCGT-GCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCT-ACATCT-CGTAGCCGATG
* *
88265032 CCATGTCCCAGACATGGTCCTACACT-G-AC-ACATCTCGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAGCCGATG
**
88265078 CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCG-AGGTTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTA-GCCGATG
* * * *
88265124 CATGTCCCAAACAT-GTCTTACATTAGCTCT-CATCTC-AATGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTA-GCCGATG
* * *
88265170 ACATGTCCCAGACATGGTCTTACACTGACTCT-CATAAT-GTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCTACAT-CTCGTAGCCGATG
* *
88265218 CATGTCCCAGACGT-GTCTTACACTAGCTC
1 CATGTCCCAGACATGGTCTTACACTGGCTC
88265247 ACAAATAACC
Statistics
Matches: 178, Mismatches: 25, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
44 9 0.05
45 19 0.11
46 75 0.42
47 27 0.15
48 24 0.13
49 2 0.01
50 22 0.12
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAGCCGATG
Found at i:88265218 original size:94 final size:92
Alignment explanation
Indices: 88265071--88265246 Score: 230
Period size: 94 Copynumber: 1.9 Consensus size: 92
88265061 ACATCTCGTA
* * **
88265071 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGTTGATGCATGTCCCAAAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACTTACATATCGAGGCCGATGCATGTCCCAAAC
*
88265136 ATGTCTTACATTAGCTCTCATCTCAAT
66 ATGTCTTACACTAGCTCTCATCTCAAT
*
88265163 GCCGATGACATGTCCCAGACATGGTCTTACACTGACTCT-CATAAT-GTGGCCGATGCATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACT-TACAT-ATCGAGGCCGATGCATGTCCC
* *
88265226 AGACGTGTCTTACACTAGCTC
62 AAACATGTCTTACACTAGCTC
88265247 ACAAATAACC
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 7 0.10
93 14 0.19
94 49 0.68
95 2 0.03
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTTACATATCGAGGCCGATGCATGTCCCAAAC
ATGTCTTACACTAGCTCTCATCTCAAT
Found at i:88265236 original size:140 final size:140
Alignment explanation
Indices: 88264983--88265241 Score: 362
Period size: 140 Copynumber: 1.8 Consensus size: 140
88264973 AAGCCAACGC
* ** *
88264983 CATGTCCCAGACATGGTCTAACATTAGCTCTCACATATCCGTGCCGATGCCATGTCCCAGACATG
1 CATGTCCCAAACATGGTCTAACATTAGCTCT-ACATATCAATGCCGATGACATGTCCCAGACATG
88265048 GTCCTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCT
65 GTCCTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCT
88265113 CGAGGTTGATG
130 CGAGGTTGATG
* *
88265124 CATGTCCCAAACAT-GTCTTACATTAGCTCT-CATCTCAATGCCGATGACATGTCCCAGACATGG
1 CATGTCCCAAACATGGTCTAACATTAGCTCTACATATCAATGCCGATGACATGTCCCAGACATGG
* * * * *
88265187 TCTTACACTGACTC-TCATAATGTGGCCGATGCATGTCCCAGACGTGTCTTACACT
66 TCCTACACTGACACATC-T--CGTAGCCGATGCATGTCCCAGACATGTCTTACACT
88265242 AGCTCACAAA
Statistics
Matches: 104, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
137 2 0.02
138 42 0.40
140 47 0.45
141 13 0.12
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (140 bp):
CATGTCCCAAACATGGTCTAACATTAGCTCTACATATCAATGCCGATGACATGTCCCAGACATGG
TCCTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTC
GAGGTTGATG
Found at i:88277107 original size:62 final size:62
Alignment explanation
Indices: 88277002--88277137 Score: 229
Period size: 62 Copynumber: 2.2 Consensus size: 62
88276992 TCTCATCATA
**
88277002 AGAG-AGAGATATGGCATCCCAAGTATTATTTACTAGGGTGTGTCGCCTGCCCTATTCTACTT
1 AGAGTAGA-ATATGGCATCCCAAGTATTATTTACTAGGGTGTGTCGCCCACCCTATTCTACTT
88277064 AGAGTAGAATATGGCATCCCAAGTATTATTTACTAGGGTGTGTCGCCCACCCTATTCTACTT
1 AGAGTAGAATATGGCATCCCAAGTATTATTTACTAGGGTGTGTCGCCCACCCTATTCTACTT
*
88277126 ACAGTAGAATAT
1 AGAGTAGAATAT
88277138 TGTTTTCTAT
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
62 67 0.96
63 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (62 bp):
AGAGTAGAATATGGCATCCCAAGTATTATTTACTAGGGTGTGTCGCCCACCCTATTCTACTT
Found at i:88277158 original size:21 final size:23
Alignment explanation
Indices: 88277118--88277163 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
88277108 GCCCACCCTA
88277118 TTCTACTTACAGTAGAATATTGTT
1 TTCTACTTACAGTAGAATATT-TT
88277142 TTCTA-TTA-AGTA-AATATTTT
1 TTCTACTTACAGTAGAATATTTT
88277162 TT
1 TT
88277164 ATGTTTTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.18
21 6 0.27
22 4 0.18
23 3 0.14
24 5 0.23
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (23 bp):
TTCTACTTACAGTAGAATATTTT
Found at i:88277629 original size:30 final size:30
Alignment explanation
Indices: 88277595--88277655 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
88277585 ATTTTTCTAA
88277595 ACCGAAATTTTCCAATTATTTTGTAATTCT
1 ACCGAAATTTTCCAATTATTTTGTAATTCT
88277625 ACCGAAATTTTCCAATTATTTTGTAATTCT
1 ACCGAAATTTTCCAATTATTTTGTAATTCT
88277655 A
1 A
88277656 TCTCATTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.46
Consensus pattern (30 bp):
ACCGAAATTTTCCAATTATTTTGTAATTCT
Found at i:88278444 original size:20 final size:20
Alignment explanation
Indices: 88278408--88278445 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
88278398 AGTAACCGTT
*
88278408 TTAACTAAACCTTAACAATC
1 TTAACTAAAACTTAACAATC
88278428 TTAAC-AAAACTTGAACAA
1 TTAACTAAAACTT-AACAA
88278446 ACTCAATAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (20 bp):
TTAACTAAAACTTAACAATC
Found at i:88279746 original size:190 final size:190
Alignment explanation
Indices: 88279423--88279807 Score: 628
Period size: 190 Copynumber: 2.0 Consensus size: 190
88279413 GATCCACTTT
* * *
88279423 TTTAGAAGAATTGCCTGTGACGATTATGTCATCAACATATACCACTAAAAGCAATGATGTTTCAG
1 TTTAGAAGAATTGCCCGTGACAATTATGTCATCAACATACACCACTAAAAGCAATGATGTTTCAG
*
88279488 CAGATGTTCGAACAAAGAGGGAATGGTCAATGTTTGAAACACAAAACCCAAGTTGATGAACTAGA
66 CAGATGTTCGAACAAAGAGAGAATGGTCAATGTTTGAAACACAAAACCCAAGTTGATGAACTAGA
*
88279553 TACTGCCTCAGAGCATAAAATTATGCACGAGGTGATTGTCGAAGCTCATATAAACCCTTG
131 TACTGCCTCAGAGCATAAAATTATGCACAAGGTGATTGTCGAAGCTCATATAAACCCTTG
* *
88279613 TTTAGAAGAATTGCCCGTGACAATTATGTCATCAACATACACCACTAAAAGTAATGATGTTTTAG
1 TTTAGAAGAATTGCCCGTGACAATTATGTCATCAACATACACCACTAAAAGCAATGATGTTTCAG
* *
88279678 CAGATGTTCGAACGAAA-AGAGAATGGTTAATGTTTGAAACACAAAACCCGAGTTGATGAACTAG
66 CAGATGTTCGAAC-AAAGAGAGAATGGTCAATGTTTGAAACACAAAACCCAAGTTGATGAACTAG
* * * * *
88279742 ATACTGCCTTAGAGTATGAAATTATGCACAAGGTGATTGTCGAAGCTTATATAGACCCTTG
130 ATACTGCCTCAGAGCATAAAATTATGCACAAGGTGATTGTCGAAGCTCATATAAACCCTTG
88279803 TTTAG
1 TTTAG
88279808 TCGAAAAACA
Statistics
Matches: 180, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
190 177 0.98
191 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (190 bp):
TTTAGAAGAATTGCCCGTGACAATTATGTCATCAACATACACCACTAAAAGCAATGATGTTTCAG
CAGATGTTCGAACAAAGAGAGAATGGTCAATGTTTGAAACACAAAACCCAAGTTGATGAACTAGA
TACTGCCTCAGAGCATAAAATTATGCACAAGGTGATTGTCGAAGCTCATATAAACCCTTG
Found at i:88281538 original size:43 final size:43
Alignment explanation
Indices: 88281490--88281683 Score: 230
Period size: 43 Copynumber: 4.5 Consensus size: 43
88281480 AATTAACGGG
* *
88281490 ATGTGATTATGTGTAAGACAATGTCTGGGACATTGGCATCCTT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCCTT
*
88281533 ATGTGATTACGTGTAAGACCATGTCTGAGACATTGGCATCCTT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCCTT
* *
88281576 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGTATCGTT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCCTT
* ** * * **
88281619 ATTTGATTTTGTGTAAGACCATAG-CTAGG-CTATCGGCATCGAT
1 ATGTGATTACGTGTAAGACCAT-GTCTGGGAC-ATTGGCATCCTT
* *
88281662 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACGTGTAAGACCAT
88281684 ATCTAGGATA
Statistics
Matches: 131, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
42 1 0.01
43 129 0.98
44 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCCTT
Found at i:88290940 original size:18 final size:19
Alignment explanation
Indices: 88290909--88290945 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
88290899 AGAGTGTTTT
88290909 GAAAATTCAGAGAA-AAAA
1 GAAAATTCAGAGAAGAAAA
88290927 GAAAATT-AGAAGAAGAAAA
1 GAAAATTCAG-AGAAGAAAA
88290946 TATCAAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 2 0.12
18 11 0.65
19 4 0.24
ACGTcount: A:0.68, C:0.03, G:0.19, T:0.11
Consensus pattern (19 bp):
GAAAATTCAGAGAAGAAAA
Found at i:88295243 original size:101 final size:101
Alignment explanation
Indices: 88295068--88295270 Score: 397
Period size: 101 Copynumber: 2.0 Consensus size: 101
88295058 CATCGATTCC
88295068 GGCTTGGACAAGTCTTGTTAACCACAATAACATTGCCATAAAGGTAAATATTTTGAGCTGCCTTG
1 GGCTTGGACAAGTCTTGTTAACCACAATAACATTGCCATAAAGGTAAATATTTTGAGCTGCCTTG
*
88295133 CTTTCAACACTACGCCATCCCTATCGGTGCTTGTGG
66 CTTTCAACACTACGCCATCCCTACCGGTGCTTGTGG
88295169 GGCTTGGACAAGTCTTGTTAACCACAATAACATTGCCATAAAGGTAAATATTTTGAGCTGCCTTG
1 GGCTTGGACAAGTCTTGTTAACCACAATAACATTGCCATAAAGGTAAATATTTTGAGCTGCCTTG
88295234 CTTTCAACACTACGCCATCCCTACCGGTGCTTGTGG
66 CTTTCAACACTACGCCATCCCTACCGGTGCTTGTGG
88295270 G
1 G
88295271 CTGATGCCAA
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (101 bp):
GGCTTGGACAAGTCTTGTTAACCACAATAACATTGCCATAAAGGTAAATATTTTGAGCTGCCTTG
CTTTCAACACTACGCCATCCCTACCGGTGCTTGTGG
Found at i:88302322 original size:40 final size:40
Alignment explanation
Indices: 88302245--88302462 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
88302235 AGACCAAGTA
* * *
88302245 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCACTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
88302284 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
88302324 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
88302364 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
88302404 CCTTCGGGACTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
88302444 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
88302463 TTACCATCCG
Statistics
Matches: 165, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 17 0.10
40 147 0.89
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:88307909 original size:22 final size:21
Alignment explanation
Indices: 88307872--88307942 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
88307862 AAATAGATAT
88307872 TTATTATTTATC--ATTATTA
1 TTATTATTTATCAAATTATTA
88307891 TTATTATTCTATCAAATTA-TA
1 TTATTATT-TATCAAATTATTA
* * *
88307912 TAATTTATATTATTAAATTATGA
1 TTA-TTAT-TTATCAAATTATTA
88307935 TTATTATT
1 TTATTATT
88307943 ATTATTAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
19 8 0.19
20 4 0.10
21 5 0.12
22 21 0.50
23 4 0.10
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (21 bp):
TTATTATTTATCAAATTATTA
Found at i:88308201 original size:3 final size:3
Alignment explanation
Indices: 88308193--88308254 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
88308183 AAATAAGATA
88308193 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
88308241 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
88308255 AGTTAATAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:88308307 original size:4 final size:4
Alignment explanation
Indices: 88308276--88308317 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
88308266 TAAAAGAATA
* *
88308276 AAAG AAATG AAAT AAAT AAAG AAA- AAAG AAAG AAAG AAAG AA
1 AAAG AAA-G AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
88308318 CAACAGAAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 3 0.09
4 27 0.79
5 4 0.12
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (4 bp):
AAAG
Found at i:88310379 original size:37 final size:37
Alignment explanation
Indices: 88310320--88310465 Score: 220
Period size: 37 Copynumber: 3.9 Consensus size: 37
88310310 AGCTCAGATG
* * *
88310320 AAATCTCCACACGAAGTTATTGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
88310357 AAATCTCCACACGTAGTCATTGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
88310394 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
88310431 TAATCTCCACATGTAATCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
88310466 ATGTATTTCC
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:88311722 original size:47 final size:47
Alignment explanation
Indices: 88311659--88312099 Score: 702
Period size: 47 Copynumber: 9.4 Consensus size: 47
88311649 CCCTTCGGGA
* *
88311659 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * * *
88311706 CTTATCACATATATACACCTTCGCATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
88311753 CTTATCTCATATATACACTTTCATATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
88311800 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
88311847 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
88311894 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
88311941 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
88311988 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
88312035 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
88312082 CTTATCACATATACACAC
1 CTTATCACATATATACAC
88312100 CTTGTACATC
Statistics
Matches: 361, Mismatches: 33, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 361 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:88311831 original size:25 final size:25
Alignment explanation
Indices: 88311803--88311881 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
88311793 ACTCGGCCTT
88311803 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
88311828 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
88311850 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
88311875 ATCACAT
1 ATCACAT
88311882 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:88315023 original size:48 final size:48
Alignment explanation
Indices: 88314963--88315539 Score: 1010
Period size: 48 Copynumber: 12.0 Consensus size: 48
88314953 TATACACACG
* * * *
88314963 TCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
88315011 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
88315059 TCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
88315107 TCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
88315155 TCTCATACATATTTCACATTAGCCATTCGGCTTTATCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
88315203 TCTCATACATGTTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
88315251 TCTCATACATGTTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
88315299 TCTCATACATGTTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
88315347 TCTCATACATGTTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
88315395 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
88315443 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
88315491 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
88315539 T
1 T
88315540 ATTTATCTTG
Statistics
Matches: 514, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 514 1.00
ACGTcount: A:0.29, C:0.28, G:0.07, T:0.36
Consensus pattern (48 bp):
TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
Found at i:88318639 original size:27 final size:27
Alignment explanation
Indices: 88318602--88318664 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
88318592 GAAAGGAGTG
88318602 ATACT-AGAGAAAGAGATAATTCATAA
1 ATACTCAGAGAAAGAGATAATTCATAA
88318628 ATACTCAGAGAAAGAGATAATTCATAA
1 ATACTCAGAGAAAGAGATAATTCATAA
88318655 ATACTCAGAG
1 ATACTCAGAG
88318665 TGATCGCTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 5 0.14
27 31 0.86
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.22
Consensus pattern (27 bp):
ATACTCAGAGAAAGAGATAATTCATAA
Found at i:88321244 original size:50 final size:50
Alignment explanation
Indices: 88321169--88321369 Score: 298
Period size: 50 Copynumber: 4.0 Consensus size: 50
88321159 GAGCTAAATG
*
88321169 ACCTTGTGTATTC-AGCCATGTAGGTAGGTATTTATGTGATGATATATTGA
1 ACCTTGTGTATTCGA-CCATGTAGGTAAGTATTTATGTGATGATATATTGA
88321219 ACCTTGTGTATTCGACCATGTAGGTAAGTATTTATGTGATGATATATTGA
1 ACCTTGTGTATTCGACCATGTAGGTAAGTATTTATGTGATGATATATTGA
* *
88321269 ACCTTGTGTATTCGGCCATGTAGGTAAGTATTCATGTGATGATATATTGA
1 ACCTTGTGTATTCGACCATGTAGGTAAGTATTTATGTGATGATATATTGA
* * * *
88321319 ACCTTGTATATTTGGCCATAT-GAGTAAGTATTTATGTGATGATATACTTGA
1 ACCTTGTGTATTCGACCATGTAG-GTAAGTATTTATGTGATGATATA-TTGA
88321370 TCTTGCATAT
Statistics
Matches: 141, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
49 1 0.01
50 135 0.96
51 5 0.04
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.40
Consensus pattern (50 bp):
ACCTTGTGTATTCGACCATGTAGGTAAGTATTTATGTGATGATATATTGA
Found at i:88321938 original size:2 final size:2
Alignment explanation
Indices: 88321931--88321957 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
88321921 TTCAGAAATG
88321931 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
88321958 AGTAGGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:88322665 original size:23 final size:23
Alignment explanation
Indices: 88322631--88322677 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
88322621 ACCGATTAGA
88322631 CACTTTAAGTGTCGTATATCAGG
1 CACTTTAAGTGTCGTATATCAGG
* *
88322654 CACTTTATGTGTCGTATTTCAGG
1 CACTTTAAGTGTCGTATATCAGG
88322677 C
1 C
88322678 TCGTGTGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (23 bp):
CACTTTAAGTGTCGTATATCAGG
Found at i:88327138 original size:14 final size:14
Alignment explanation
Indices: 88327119--88327148 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
88327109 AAGTATGAAA
*
88327119 TATATGTATTTAGT
1 TATATGTATTCAGT
88327133 TATATGTATTCAGT
1 TATATGTATTCAGT
88327147 TA
1 TA
88327149 CCATGACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.03, G:0.13, T:0.53
Consensus pattern (14 bp):
TATATGTATTCAGT
Found at i:88333118 original size:13 final size:13
Alignment explanation
Indices: 88333091--88333120 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
88333081 GACATGGGCA
*
88333091 TGTGCCTAGGGCG
1 TGTGCCTAGGCCG
88333104 TGTGCCTAGGCCG
1 TGTGCCTAGGCCG
88333117 TGTG
1 TGTG
88333121 AAGTCTGCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.23, G:0.43, T:0.27
Consensus pattern (13 bp):
TGTGCCTAGGCCG
Found at i:88335552 original size:68 final size:68
Alignment explanation
Indices: 88335436--88335573 Score: 240
Period size: 68 Copynumber: 2.0 Consensus size: 68
88335426 TTCGATAACC
*
88335436 TTTGATTTTCCCCGATCAAAATCCGATTTCTTTCGTTCTTGATCTATATACATTCAAAATTAACT
1 TTTGATTTTCCCCGATCAAAATCCAATTTCTTTCGTTCTTGATCTATATACATTCAAAATTAACT
88335501 CAT
66 CAT
* * *
88335504 TTTGATTTTCCCCGATCTAAATCCAATTTCTTTCGTTCTTTATGTATATACATTCAAAATTAACT
1 TTTGATTTTCCCCGATCAAAATCCAATTTCTTTCGTTCTTGATCTATATACATTCAAAATTAACT
88335569 CAT
66 CAT
88335572 TT
1 TT
88335574 ATTCATCAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.45
Consensus pattern (68 bp):
TTTGATTTTCCCCGATCAAAATCCAATTTCTTTCGTTCTTGATCTATATACATTCAAAATTAACT
CAT
Found at i:88346641 original size:93 final size:93
Alignment explanation
Indices: 88346527--88346698 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
88346517 GCCCATAAGT
* * *
88346527 GAACTCGGACTCAACTCAATGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTTA
1 GAACTCGGACTCAACTCAATGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
88346591 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* * *
88346620 GAACTTGGACTCAACTCAATGAGTTCGGATATTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
88346685 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
88346699 CAAACATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:88346690 original size:46 final size:46
Alignment explanation
Indices: 88346519--88346695 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
88346509 TGTAACCCGC
* *** *
88346519 CCATAAGTGAACTCGGACTCAACTCAATGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGATATTCGTAT
* * ** *
88346565 CCATAAGTGAACTCGGACTCAACTTAACGAGCTCGGATGCCTAGT-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT-ATTCGTAT
* *** * *
88346611 ACATCTCTCGAACTTGGACTCAACTCAATGAGTTCGGATATTCGTAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGATATTCGTAT
88346658 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
88346696 GCCCAAACAT
Statistics
Matches: 101, Mismatches: 26, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
45 1 0.01
46 67 0.66
47 33 0.33
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATATTCGTAT
Found at i:88346713 original size:46 final size:45
Alignment explanation
Indices: 88346570--88346713 Score: 105
Period size: 46 Copynumber: 3.1 Consensus size: 45
88346560 CGCATCCATA
* * *
88346570 AGTGAACTCGGACTCAACTTAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATC-CT
* * * *** **
88346619 --CGAACTTGGACTCAACTCAATGAGTTCGGATATTC-GTATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC-T
88346662 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCT
88346709 AGTGA
1 AGTGA
88346714 CATGTCACTT
Statistics
Matches: 70, Mismatches: 19, Indels: 15
0.67 0.18 0.14
Matches are distributed among these distances:
42 1 0.01
43 4 0.06
46 34 0.49
47 27 0.39
48 4 0.06
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCT
Found at i:88352072 original size:46 final size:45
Alignment explanation
Indices: 88352005--88352179 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
88351995 TGTAACCCAC
*
88352005 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * *
88352051 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * * ***
88352097 ACATCTCTCGAACTCGGACTCAACTCAATGAGTTCAGATATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTC-GGGCTTCGCAT
*
88352144 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
88352180 ATGCCCAAAC
Statistics
Matches: 102, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
45 1 0.01
46 67 0.66
47 31 0.30
48 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:88352199 original size:46 final size:45
Alignment explanation
Indices: 88352010--88352199 Score: 127
Period size: 46 Copynumber: 4.1 Consensus size: 45
88352000 CCCACCCATA
* * ** ** *
88352010 AGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC-T
* *
88352055 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATC-CT
* * * *** *
88352105 --CGAACTCGGACTCAACTCAATGAGTTCAGATATTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC-T
88352148 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCT
88352195 AGTGA
1 AGTGA
88352200 CATGTCACTT
Statistics
Matches: 110, Mismatches: 23, Indels: 22
0.71 0.15 0.14
Matches are distributed among these distances:
42 1 0.01
43 5 0.05
46 65 0.59
47 28 0.25
48 5 0.05
50 5 0.05
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCT
Found at i:88354160 original size:43 final size:43
Alignment explanation
Indices: 88354113--88354209 Score: 131
Period size: 43 Copynumber: 2.3 Consensus size: 43
88354103 TACCCTAGAT
*
88354113 ATGGTCTTACTCAAAATCAAATAACGATGCAAATGTCCCAGAC
1 ATGGTCTTACACAAAATCAAATAACGATGCAAATGTCCCAGAC
** * * * *
88354156 ATGGTCTTACACGTAATCATATAATGATGCCAATTTCCCAGAC
1 ATGGTCTTACACAAAATCAAATAACGATGCAAATGTCCCAGAC
88354199 ATGGTCTTACA
1 ATGGTCTTACA
88354210 TATAATTACA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACAAAATCAAATAACGATGCAAATGTCCCAGAC
Found at i:88356514 original size:36 final size:36
Alignment explanation
Indices: 88356449--88356525 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
88356439 AAGCTGTCCT
* *
88356449 ATGATTCAAGATACGACAATCCGCAGGACCTACCTC
1 ATGATTCAAGATACAACAATCCACAGGACCTACCTC
* * * * *
88356485 ATGATTCAAGGTACAACAGTCCACTGGACCTATCTT
1 ATGATTCAAGATACAACAATCCACAGGACCTACCTC
88356521 ATGAT
1 ATGAT
88356526 ACATGTTACG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (36 bp):
ATGATTCAAGATACAACAATCCACAGGACCTACCTC
Found at i:88361302 original size:32 final size:32
Alignment explanation
Indices: 88361261--88361339 Score: 131
Period size: 32 Copynumber: 2.5 Consensus size: 32
88361251 ACAGTCTCAA
* *
88361261 TTGGGCCTAGCCCATCTCAGAATAAATATCAG
1 TTGGGCCTAGCCCATATCAGAACAAATATCAG
*
88361293 TTGGGCCTAGCCCATATCAGAACCAATATCAG
1 TTGGGCCTAGCCCATATCAGAACAAATATCAG
88361325 TTGGGCCTAGCCCAT
1 TTGGGCCTAGCCCAT
88361340 TTCAATATCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (32 bp):
TTGGGCCTAGCCCATATCAGAACAAATATCAG
Found at i:88364013 original size:27 final size:28
Alignment explanation
Indices: 88363971--88364071 Score: 91
Period size: 27 Copynumber: 3.6 Consensus size: 28
88363961 ATTTTAATTG
*
88363971 TATGTGAGCTATATATGCTGAAATGGAA
1 TATGTGAGATATATATGCTGAAATGGAA
* * **
88363999 TATGTGA-ATATATAT-ATGTAATTTTAA
1 TATGTGAGATATATATGCTG-AAATGGAA
*
88364026 TTGTATGTGAGCTATATATGCTGAAATGGAA
1 ---TATGTGAGATATATATGCTGAAATGGAA
88364057 TATGTGA-ATATATAT
1 TATGTGAGATATATAT
88364072 ATGTAATAGC
Statistics
Matches: 56, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
26 2 0.04
27 19 0.34
28 14 0.25
30 7 0.12
31 12 0.21
32 2 0.04
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.40
Consensus pattern (28 bp):
TATGTGAGATATATATGCTGAAATGGAA
Found at i:88364015 original size:29 final size:29
Alignment explanation
Indices: 88363980--88364074 Score: 97
Period size: 29 Copynumber: 3.3 Consensus size: 29
88363970 GTATGTGAGC
88363980 TATATATGCTGAAATGGAATATGTGAATA
1 TATATATGCTGAAATGGAATATGTGAATA
* ** **
88364009 TATATATG-T-AATTTTAATTGTATGTG-AGC
1 TATATATGCTGAAATGGAA---TATGTGAATA
88364038 TATATATGCTGAAATGGAATATGTGAATA
1 TATATATGCTGAAATGGAATATGTGAATA
88364067 TATATATG
1 TATATATG
88364075 TAATAGCCGA
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
27 5 0.10
28 7 0.14
29 26 0.52
30 7 0.14
31 5 0.10
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.40
Consensus pattern (29 bp):
TATATATGCTGAAATGGAATATGTGAATA
Found at i:88364051 original size:58 final size:58
Alignment explanation
Indices: 88363961--88364078 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
88363951 AACATTGTTT
88363961 ATTTTAATTGTATGTGAGCTATATATGCTGAAATGGAATATGTGAATATATATATGTA
1 ATTTTAATTGTATGTGAGCTATATATGCTGAAATGGAATATGTGAATATATATATGTA
88364019 ATTTTAATTGTATGTGAGCTATATATGCTGAAATGGAATATGTGAATATATATATGTA
1 ATTTTAATTGTATGTGAGCTATATATGCTGAAATGGAATATGTGAATATATATATGTA
88364077 AT
1 AT
88364079 AGCCGAATGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.42
Consensus pattern (58 bp):
ATTTTAATTGTATGTGAGCTATATATGCTGAAATGGAATATGTGAATATATATATGTA
Found at i:88368757 original size:26 final size:26
Alignment explanation
Indices: 88368726--88368775 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
88368716 ATGGATTAAT
88368726 TTTTAGCATTTATGAACCCAATTGAA
1 TTTTAGCATTTATGAACCCAATTGAA
*
88368752 TTTTAGCGTTTATGAACCCAATTG
1 TTTTAGCATTTATGAACCCAATTG
88368776 TGAAAAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (26 bp):
TTTTAGCATTTATGAACCCAATTGAA
Found at i:88369859 original size:46 final size:47
Alignment explanation
Indices: 88369796--88370022 Score: 178
Period size: 46 Copynumber: 4.8 Consensus size: 47
88369786 CATATGGGTT
* * * *
88369796 AATGTGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AT
1 AATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAA
* * * *
88369842 TATGAGAGCCAGTGTAAGACCATGTATGGGACATGTGATCGG-CATC-GA
1 AATGAGAGCCAGTGTAAGA-CATGTCTGGGACATG-CATCGGCCA-CAAA
** * * *
88369890 GGTGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGA
1 AATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAA-A
* * * * *
88369938 CAT-A-AGCCAATGTAAGGCATGTCTAGGACATGCATCGGCTAC-AA
1 AATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAA
* *
88369982 AATGATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 AATGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
88370023 ACTTGAGATA
Statistics
Matches: 141, Mismatches: 30, Indels: 18
0.75 0.16 0.10
Matches are distributed among these distances:
44 3 0.02
45 2 0.01
46 63 0.45
47 45 0.32
48 28 0.20
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
AATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAA
Found at i:88370039 original size:93 final size:94
Alignment explanation
Indices: 88369900--88370069 Score: 229
Period size: 93 Copynumber: 1.8 Consensus size: 94
88369890 GGTGAGTGCT
* *
88369900 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACATAAGCCAATGTAAG-GCATGTCTAG
1 AGTGTAAGACATGTCTGGGACATGCATCGGACTCAAGACATAAGCCAATGTAAGACCATGTCTAG
88369964 GACAT-GCATCGGCTACAAAATGATAGTC
66 GACATGGCATCGGCTACAAAATGATAGTC
** * * *
88369992 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGATATGAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGACTCAAGACATAAGCCAATGTAAGACCATGTCT
*
88370056 AGGACTTGGCATCG
64 AGGACATGGCATCG
88370070 ACACCTTACT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
92 9 0.14
93 33 0.50
94 18 0.27
95 6 0.09
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGACTCAAGACATAAGCCAATGTAAGACCATGTCTAG
GACATGGCATCGGCTACAAAATGATAGTC
Found at i:88370042 original size:47 final size:47
Alignment explanation
Indices: 88369800--88370071 Score: 181
Period size: 47 Copynumber: 5.8 Consensus size: 47
88369790 TGGGTTAATG
* *
88369800 TGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC-AGC-C-ACATTA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTCGAGA-TA
* * *
88369844 TGAGAGCCAGTGTAAGACCATGTATGGGACATGTG-ATCGGCATCGAGGTGA
1 T--GAGCCAGTGTAAGACCATGTCTGGGACATG-GCATCGAC-TCGAGAT-A
* * * * *
88369895 -GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGACA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGAGATA
* * * * * * *
88369940 TAAGCCAATGTAAG-GCATGTCTAGGACAT-GCATCGGCTACAAAATGA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGAGAT-A
* *
88369987 T-AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATA
* *
88370033 TGAGCCAGTGTAAGACCATGTCTAGGACTTGGCATCGAC
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
88370072 ACCTTACTCC
Statistics
Matches: 178, Mismatches: 31, Indels: 35
0.73 0.13 0.14
Matches are distributed among these distances:
44 1 0.01
45 5 0.03
46 63 0.35
47 80 0.45
48 24 0.13
49 1 0.01
50 2 0.01
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATA
Found at i:88373178 original size:32 final size:32
Alignment explanation
Indices: 88373138--88373201 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
88373128 TTGTATTAAG
*
88373138 CCTCAAATGATGGTAATTATTCATTTTGATTT
1 CCTCAAATGATGGTAATTATTCATTTTAATTT
88373170 CCTCAAATGATGGTAATTATTCATTTTAATTT
1 CCTCAAATGATGGTAATTATTCATTTTAATTT
88373202 GTATGCAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (32 bp):
CCTCAAATGATGGTAATTATTCATTTTAATTT
Found at i:88382533 original size:30 final size:31
Alignment explanation
Indices: 88382446--88382577 Score: 168
Period size: 30 Copynumber: 4.5 Consensus size: 31
88382436 TGACAAATTG
* * * * *
88382446 GCACTAAGTGTGCGGGTTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTCTGAAAATTATATA
*
88382477 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAGTCTGAAAATTATATA
88382505 GCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGTCTGAAAATTATATA
88382535 GCACTAAGTGTGCGAG-CTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTCTGAAAATTATATA
88382564 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
88382578 GATTCACTAT
Statistics
Matches: 93, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 31 0.33
31 18 0.19
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (31 bp):
GCACTAAGTGTGCGAGTCTGAAAATTATATA
Found at i:88382562 original size:59 final size:59
Alignment explanation
Indices: 88382446--88382577 Score: 169
Period size: 59 Copynumber: 2.2 Consensus size: 59
88382436 TGACAAATTG
* * * * * *
88382446 GCACTAAGTGTGCGGGTTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTCTGAAAATTATACAGCACTAAGTGTGCGAGTCTGAATATATA
*
88382505 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAG-CTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTGAAAATTATACAGCACTAAGTGTGCGAGTCTG--AATATATA
88382564 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
88382578 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
57 2 0.03
58 26 0.41
59 36 0.56
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (59 bp):
GCACTAAGTGTGCGAGTCTGAAAATTATACAGCACTAAGTGTGCGAGTCTGAATATATA
Found at i:88387404 original size:40 final size:40
Alignment explanation
Indices: 88387359--88387525 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
88387349 CGGAATATAA
88387359 CCGGATATAAGCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
88387399 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
88387439 CCGGATAT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAG-CACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
88387479 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
88387518 CCGGATAT
1 CCGGATAT
88387526 CATTCAATTT
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
39 15 0.14
40 88 0.85
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:88387509 original size:80 final size:79
Alignment explanation
Indices: 88387359--88387525 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 79
88387349 CGGAATATAA
*
88387359 CCGGATATAAGCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAAGCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
88387424 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
88387439 CCGGATAT-AGCCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TA
1 CCGGATATAAG-CACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGA
*
88387500 ATTGTCTTCGGGCTTAGC
63 A-TGCCTTCGGGCTTAGC
88387518 CCGGATAT
1 CCGGATAT
88387526 CATTCAATTT
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
79 20 0.26
80 56 0.74
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (79 bp):
CCGGATATAAGCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:88388782 original size:57 final size:54
Alignment explanation
Indices: 88388718--88388828 Score: 136
Period size: 57 Copynumber: 2.0 Consensus size: 54
88388708 CCCCCTTTTC
88388718 CCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTTCTTTTCTTT
1 CCTTAGTACA-TTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTTT-TTTTCTTT
***
88388775 CCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTTCTTT
1 CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTTCTTT
88388829 TTTCTTTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
54 8 0.16
55 7 0.14
57 30 0.61
58 4 0.08
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (54 bp):
CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTTCTTT
Found at i:88393636 original size:30 final size:31
Alignment explanation
Indices: 88393549--88393680 Score: 168
Period size: 30 Copynumber: 4.5 Consensus size: 31
88393539 TGACAAATTG
* * * * *
88393549 GCACTAAGTGTGCGGGTTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTCTGAAAATTATATA
*
88393580 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAGTCTGAAAATTATATA
88393608 GCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGTCTGAAAATTATATA
88393638 GCACTAAGTGTGCGAG-CTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTCTGAAAATTATATA
88393667 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
88393681 GATTCACTAT
Statistics
Matches: 93, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 31 0.33
31 18 0.19
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (31 bp):
GCACTAAGTGTGCGAGTCTGAAAATTATATA
Found at i:88393665 original size:59 final size:59
Alignment explanation
Indices: 88393549--88393680 Score: 169
Period size: 59 Copynumber: 2.2 Consensus size: 59
88393539 TGACAAATTG
* * * * * *
88393549 GCACTAAGTGTGCGGGTTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTCTGAAAATTATACAGCACTAAGTGTGCGAGTCTGAATATATA
*
88393608 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAG-CTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTGAAAATTATACAGCACTAAGTGTGCGAGTCTG--AATATATA
88393667 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
88393681 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
57 2 0.03
58 26 0.41
59 36 0.56
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (59 bp):
GCACTAAGTGTGCGAGTCTGAAAATTATACAGCACTAAGTGTGCGAGTCTGAATATATA
Found at i:88399123 original size:29 final size:29
Alignment explanation
Indices: 88399081--88399137 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
88399071 ATCTGGGAAA
*
88399081 GGCTAATGTTGTTGCTGACGCTTTAAGCC
1 GGCTAATGTTGTTGCTGACGCTCTAAGCC
88399110 GGCTAATGTTGTTGCTGACGCTCTAAGC
1 GGCTAATGTTGTTGCTGACGCTCTAAGC
88399138 TGAAAATCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.18, C:0.21, G:0.28, T:0.33
Consensus pattern (29 bp):
GGCTAATGTTGTTGCTGACGCTCTAAGCC
Found at i:88409163 original size:1 final size:1
Alignment explanation
Indices: 88409157--88409182 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
88409147 AGAATTACGC
88409157 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
88409183 CAACAACAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:88409187 original size:3 final size:3
Alignment explanation
Indices: 88409181--88409206 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
88409171 AAAAAAAAAA
88409181 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
88409207 GGAGAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:88411569 original size:12 final size:12
Alignment explanation
Indices: 88411547--88411579 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
88411537 TGTGGACAAA
88411547 AATAGGCCATTTG
1 AATA-GCCATTTG
88411560 AATAGCCATTTG
1 AATAGCCATTTG
88411572 AATAGCCA
1 AATAGCCA
88411580 ACTTGCCACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (12 bp):
AATAGCCATTTG
Found at i:88419146 original size:57 final size:57
Alignment explanation
Indices: 88419080--88419267 Score: 268
Period size: 57 Copynumber: 3.3 Consensus size: 57
88419070 AACCAATTTG
* * * *
88419080 ATATAACATTGAAATGAATTATGTGAAATTGGTAGGATCTTATGGATTGATAATAGA
1 ATATGACATTGAAATGAATTATGTGAAATTTGTATGATCTTATAGATTGATAATAGA
* *
88419137 ATATGACATTGAAATGAATTATGTGAAATTTGTATGATCCTATAGATTGATAATAAA
1 ATATGACATTGAAATGAATTATGTGAAATTTGTATGATCTTATAGATTGATAATAGA
* * * * *
88419194 ATGTGACATTGAAATGAATTATGTGAAATTTGTATGATATTATCGATTGATGATGGA
1 ATATGACATTGAAATGAATTATGTGAAATTTGTATGATCTTATAGATTGATAATAGA
*
88419251 ATATGACATTGAGATGA
1 ATATGACATTGAAATGA
88419268 GTTGTAACAT
Statistics
Matches: 116, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 116 1.00
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.36
Consensus pattern (57 bp):
ATATGACATTGAAATGAATTATGTGAAATTTGTATGATCTTATAGATTGATAATAGA
Found at i:88429083 original size:49 final size:49
Alignment explanation
Indices: 88429027--88429122 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
88429017 TAGACTTCAT
*
88429027 GGAGTACCTCTT-TCAATCATTTCGGATTGAGATCCGAGATTTACATCAC
1 GGAGTACCT-TTCTCAATCATTTCGGATAGAGATCCGAGATTTACATCAC
88429076 GGAGTACCTTTCTCAATCATTTCGGATAGAGATCCGAGATTTACATC
1 GGAGTACCTTTCTCAATCATTTCGGATAGAGATCCGAGATTTACATC
88429123 GCGATTTTGG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
48 2 0.04
49 43 0.96
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (49 bp):
GGAGTACCTTTCTCAATCATTTCGGATAGAGATCCGAGATTTACATCAC
Found at i:88433819 original size:42 final size:43
Alignment explanation
Indices: 88433711--88433881 Score: 150
Period size: 43 Copynumber: 4.0 Consensus size: 43
88433701 AGCTCTTACA
* * * *
88433711 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACTTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
88433754 ATGCC-ACTGTCCCAGACAGGGTCTTACACGAAATCGAATAT-G
1 ATGCCAACT-TCCCAGACATGGTCTTACACGAAATCAAATATCG
* * * * *
88433796 ATGCCAACTTCTCACACTTGGTCTTACACGTATAAACCAA-ATCG
1 ATGCCAACTTCCCAGACATGGTCTTACACG-A-AATCAAATATCG
* ** * *
88433840 ATGCCAACGTCCCAGATGTGGTCTTACACGAAAACACATATC
1 ATGCCAACTTCCCAGACATGGTCTTACACGAAATCAAATATC
88433882 AGATCCTATG
Statistics
Matches: 103, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
42 30 0.29
43 42 0.41
44 31 0.30
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAACTTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:88435514 original size:40 final size:40
Alignment explanation
Indices: 88435462--88435569 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
88435452 TATCACGATT
** *
88435462 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
88435502 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
88435542 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
88435570 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:88441245 original size:29 final size:29
Alignment explanation
Indices: 88441139--88441300 Score: 150
Period size: 29 Copynumber: 5.6 Consensus size: 29
88441129 GTGACGAGAT
*
88441139 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
88441168 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
88441197 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* ** ***
88441226 CGGCACTGGGTGTGCGAGCTCGG-AGGGTA
1 TGGCACTAAGTGTGCGAGCT-GGAAATATA
** *
88441255 TGGCACTGTGTGTGCGAGCT-TAAAT-TA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
88441282 CGTGGCACTAAGTGTGCGA
1 --TGGCACTAAGTGTGCGA
88441301 AATCGAGTAG
Statistics
Matches: 110, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
27 2 0.02
28 1 0.01
29 105 0.95
30 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:88449315 original size:29 final size:29
Alignment explanation
Indices: 88449282--88449364 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
88449272 GTGACGAGAT
88449282 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
88449311 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
**
88449340 TGGCACTAAGTGTGCAAGCTGGAAA
1 TGGCACTAAGTGTGCGTGCTGGAAA
88449365 AACGGCACTG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:88452130 original size:46 final size:46
Alignment explanation
Indices: 88452063--88452236 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
88452053 TGTAACCCGC
*
88452063 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
88452109 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
88452159 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
88452201 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
88452237 ATGCCCAAAT
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 1 0.01
44 3 0.03
45 28 0.25
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:88452229 original size:92 final size:93
Alignment explanation
Indices: 88452071--88452241 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
88452061 GCCCATAAGT
* *
88452071 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
88452136 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
88452164 GAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
88452228 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
88452242 CAAATATCCA
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:88452255 original size:45 final size:45
Alignment explanation
Indices: 88452068--88452255 Score: 168
Period size: 46 Copynumber: 4.1 Consensus size: 45
88452058 CCCGCCCATA
* * * * * *
88452068 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCATACATCC
*
88452114 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-C
* * * *
88452162 A-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-CGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCC
* *
88452206 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCC
88452251 AGTGA
1 AGTGA
88452256 CATGTCACTT
Statistics
Matches: 115, Mismatches: 18, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
43 2 0.02
44 9 0.08
45 35 0.30
46 36 0.31
47 28 0.24
48 3 0.03
49 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCC
Found at i:88454636 original size:15 final size:15
Alignment explanation
Indices: 88454614--88454691 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
88454604 AAAAAACCGA
88454614 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
88454629 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
88454643 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
88454658 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
88454674 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
88454689 ATA
1 ATA
88454692 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:88454646 original size:30 final size:30
Alignment explanation
Indices: 88454612--88454691 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
88454602 ACAAAAAACC
*
88454612 GAATAAAGAAATCCAAGATAGAGAAACCCA
1 GAATAAAGAAATCCAAGATAAAGAAACCCA
* *
88454642 GAATAAAGAAATCC-AGAATAAAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAACCCA
* *
88454672 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
88454692 CGATACTATG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 2 0.05
30 39 0.91
31 2 0.05
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCCA
Found at i:88457710 original size:93 final size:93
Alignment explanation
Indices: 88457598--88457769 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
88457588 GCCCATAAGT
* *
88457598 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
88457663 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
88457691 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
88457756 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
88457770 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:88457765 original size:46 final size:46
Alignment explanation
Indices: 88457590--88457765 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
88457580 TGTAACCCGC
* * *
88457590 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
88457636 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
88457686 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
88457729 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
88457766 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:88479275 original size:18 final size:18
Alignment explanation
Indices: 88479252--88479287 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
88479242 ATAAGTATGT
88479252 GAGATTAATCTTTGAGTG
1 GAGATTAATCTTTGAGTG
88479270 GAGATTAATCTTTGAGTG
1 GAGATTAATCTTTGAGTG
88479288 ATATAGATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.28, T:0.39
Consensus pattern (18 bp):
GAGATTAATCTTTGAGTG
Found at i:88479722 original size:29 final size:29
Alignment explanation
Indices: 88479657--88479771 Score: 108
Period size: 29 Copynumber: 4.0 Consensus size: 29
88479647 GCATGAGTAT
* * *
88479657 AATATGATTTGGGCCTAATGGGCTATATG
1 AATATGAATTGGGCCTAGTGGGCCATATG
** * *
88479686 AAGGTGAATTAGGCCTAGTGGGCCATAAG
1 AATATGAATTGGGCCTAGTGGGCCATATG
* *
88479715 AATATGAATTGGGCC-AGATGAGCCATTTG
1 AATATGAATTGGGCCTAG-TGGGCCATATG
* *
88479744 AATAAG-ATTGGGCCTAGTGGGCTATATG
1 AATATGAATTGGGCCTAGTGGGCCATATG
88479772 CATGTATGTA
Statistics
Matches: 67, Mismatches: 17, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
28 18 0.27
29 49 0.73
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.28
Consensus pattern (29 bp):
AATATGAATTGGGCCTAGTGGGCCATATG
Found at i:88481899 original size:12 final size:12
Alignment explanation
Indices: 88481884--88481909 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
88481874 GATTACATTT
88481884 CTATTACTGTTA
1 CTATTACTGTTA
88481896 CTATTACTGTTA
1 CTATTACTGTTA
88481908 CT
1 CT
88481910 GTAATGGGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.50
Consensus pattern (12 bp):
CTATTACTGTTA
Found at i:88481943 original size:34 final size:34
Alignment explanation
Indices: 88481900--88481971 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
88481890 CTGTTACTAT
*
88481900 TACTGTTACTGTAATGGGCTAAGGCCC-ACACTGA
1 TACTGTTACTATAATGGGCTAAGGCCCTA-ACTGA
*
88481934 TACTGTTACTATAATGGGCTATGGCCCTAACTGA
1 TACTGTTACTATAATGGGCTAAGGCCCTAACTGA
88481968 TACT
1 TACT
88481972 AGACTGTCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 34 0.97
35 1 0.03
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (34 bp):
TACTGTTACTATAATGGGCTAAGGCCCTAACTGA
Found at i:88483811 original size:27 final size:28
Alignment explanation
Indices: 88483762--88483819 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
88483752 AGACTGCTAC
* *
88483762 TGTTACTGAAATGGGCTAAGGCCCTAAT
1 TGTTACCGAAATGGGCTAAGGCCCAAAT
*
88483790 TGTTACCGAAA-GGGCTTAGGCCCAAAT
1 TGTTACCGAAATGGGCTAAGGCCCAAAT
88483817 TGT
1 TGT
88483820 GCTTACTCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (28 bp):
TGTTACCGAAATGGGCTAAGGCCCAAAT
Found at i:88497131 original size:9 final size:10
Alignment explanation
Indices: 88497119--88497175 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
88497109 TACGTGGGAT
88497119 ATGATAT-AC
1 ATGATATGAC
*
88497128 ATGAT-TGAT
1 ATGATATGAC
88497137 ATGATATGCAC
1 ATGATATG-AC
*
88497148 ATGATATG-T
1 ATGATATGAC
88497157 ATGATATGCAC
1 ATGATATG-AC
88497168 ATGATATG
1 ATGATATG
88497176 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (10 bp):
ATGATATGAC
Found at i:88497151 original size:20 final size:20
Alignment explanation
Indices: 88497118--88497192 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
88497108 ATACGTGGGA
88497118 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
88497135 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
88497156 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
88497176 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
88497193 GTATTCATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:88497153 original size:11 final size:11
Alignment explanation
Indices: 88497137--88497192 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
88497127 CATGATTGAT
88497137 ATGATATGCAC
1 ATGATATGCAC
*
88497148 ATGATATG--T
1 ATGATATGCAC
88497157 ATGATATGCAC
1 ATGATATGCAC
*
88497168 ATGATATG--T
1 ATGATATGCAC
*
88497177 ATGAAATGCAC
1 ATGATATGCAC
88497188 ATGAT
1 ATGAT
88497193 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:88497271 original size:26 final size:26
Alignment explanation
Indices: 88497242--88497412 Score: 220
Period size: 26 Copynumber: 6.6 Consensus size: 26
88497232 GAGGAAGTGC
88497242 AAAAGGGCTTATGCCCCAGTTT-TCCG
1 AAAAGGGCTTATGCCCCAGTTTAT-CG
* *
88497268 AAAATGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
88497294 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
88497320 AAAGGGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
88497346 AAAAGGGCTTATGCCCCAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* * *
88497372 AAAAGGGCTTATGCCCTAGATTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
88497398 -AAAGGGCTTCTGCCC
1 AAAAGGGCTTATGCCC
88497413 AATTATTAAA
Statistics
Matches: 128, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
25 14 0.11
26 113 0.88
27 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:88497375 original size:78 final size:77
Alignment explanation
Indices: 88497243--88497412 Score: 261
Period size: 78 Copynumber: 2.2 Consensus size: 77
88497233 AGGAAGTGCA
* *
88497243 AAAGGGCTTATGCCCCAGTTTTCCGAAAATGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGC
1 AAAGGGCTTATGCCCCAGTTTTCCGAAAAGGGCTTATGCCCCAATTTATTGAAAAGGGCTTATGC
* **
88497308 CCTAGTTTATTG
66 CCTAGATTACCG
88497320 AAAGGGGCTTATGCCCCAGTTTAT-CGAAAAGGGCTTATGCCCCAATTTATTGAAAAGGGCTTAT
1 AAA-GGGCTTATGCCCCAGTTT-TCCGAAAAGGGCTTATGCCCCAATTTATTGAAAAGGGCTTAT
88497384 GCCCTAGATTACCG
64 GCCCTAGATTACCG
*
88497398 AAAGGGCTTCTGCCC
1 AAAGGGCTTATGCCC
88497413 AATTATTAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
77 14 0.16
78 70 0.82
79 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (77 bp):
AAAGGGCTTATGCCCCAGTTTTCCGAAAAGGGCTTATGCCCCAATTTATTGAAAAGGGCTTATGC
CCTAGATTACCG
Found at i:88506505 original size:30 final size:30
Alignment explanation
Indices: 88506471--88506529 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
88506461 TCCTTGACTC
*
88506471 AAACTTTGGCAAAATTACATTTTTGCCCTT
1 AAACTTTGACAAAATTACATTTTTGCCCTT
* * *
88506501 AAACTTTTACATATTTACATTTTTGCCCT
1 AAACTTTGACAAAATTACATTTTTGCCCT
88506530 AAGACTCGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.44
Consensus pattern (30 bp):
AAACTTTGACAAAATTACATTTTTGCCCTT
Found at i:88510393 original size:40 final size:39
Alignment explanation
Indices: 88510349--88510567 Score: 217
Period size: 40 Copynumber: 5.5 Consensus size: 39
88510339 GCTCGATTGT
* * *
88510349 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
88510389 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
88510429 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
88510469 CTTCGGGACTTAACTCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
88510509 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
88510550 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
88510568 ACACCATTCG
Statistics
Matches: 154, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 2 0.01
40 125 0.81
41 25 0.16
42 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:88510447 original size:80 final size:79
Alignment explanation
Indices: 88510349--88510568 Score: 260
Period size: 80 Copynumber: 2.7 Consensus size: 79
88510339 GCTCGATTGT
* * * * *
88510349 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
88510414 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * * * *
88510429 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGTTTTGGT
1 CTTCGGGACTTAACCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
88510494 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * * *
88510509 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAACCCGG-TTTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
88510569 CACCATTCGA
Statistics
Matches: 116, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
80 87 0.75
81 29 0.25
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAACCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
ACTCGCACAAATGC
Found at i:88513134 original size:18 final size:19
Alignment explanation
Indices: 88513111--88513146 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
88513101 ATTAACATCT
88513111 TTTCTCTCTTC-TCTCCAC
1 TTTCTCTCTTCTTCTCCAC
88513129 TTTCTCTCTTCTTCTCCA
1 TTTCTCTCTTCTTCTCCA
88513147 TTCATAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.06, C:0.42, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTCTCTCTTCTTCTCCAC
Found at i:88524708 original size:40 final size:40
Alignment explanation
Indices: 88524600--88524809 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
88524590 CGGGATTTAA
* * * * *
88524600 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
88524640 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
88524680 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
88524720 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
88524760 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
88524800 CCGGATATAT
1 CCGGATATAT
88524810 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:88532840 original size:40 final size:40
Alignment explanation
Indices: 88532732--88532941 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
88532722 CGGGATTTAA
* * * * *
88532732 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
88532772 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
88532812 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
88532852 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
88532892 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
88532932 CCGGATATAT
1 CCGGATATAT
88532942 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:88542685 original size:16 final size:17
Alignment explanation
Indices: 88542651--88542685 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
88542641 ATTTTAAAGA
88542651 AAGGTTTTCAATGAAAAC
1 AAGGTTTTCAA-GAAAAC
88542669 AAGGTTTTCAA-AAAAC
1 AAGGTTTTCAAGAAAAC
88542685 A
1 A
88542686 CTTCCATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
18 11 0.65
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (17 bp):
AAGGTTTTCAAGAAAAC
Found at i:88544859 original size:21 final size:21
Alignment explanation
Indices: 88544833--88544882 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
88544823 TTTCCAGCAC
*
88544833 ATTTTTACATAAAATTTTAGA
1 ATTTTTACATAAAATTTTACA
*
88544854 ATTTTT-CATTAAATTTTACA
1 ATTTTTACATAAAATTTTACA
88544874 A-TTTTACAT
1 ATTTTTACAT
88544883 TTTAGTCCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 4 0.15
20 16 0.62
21 6 0.23
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (21 bp):
ATTTTTACATAAAATTTTACA
Found at i:88547749 original size:17 final size:18
Alignment explanation
Indices: 88547727--88547762 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
88547717 CACATTGAAG
88547727 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
88547744 TGTTTTCATTGAAAACCT
1 TGTTTTCATCGAAAACCT
88547762 T
1 T
88547763 TCTTGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:88552122 original size:28 final size:28
Alignment explanation
Indices: 88552090--88552172 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 28
88552080 AAATGTGATC
88552090 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* *
88552118 ACGTGTATAG-A-T-GGTG-AGG-T-C-
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
88552139 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
88552167 ACGTGT
1 ACGTGT
88552173 ACCAGACTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
21 9 0.20
22 2 0.05
23 2 0.05
24 6 0.14
25 6 0.14
26 2 0.05
27 2 0.05
28 15 0.34
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:88552160 original size:49 final size:49
Alignment explanation
Indices: 88552033--88552229 Score: 227
Period size: 49 Copynumber: 4.0 Consensus size: 49
88552023 TGATCTATTG
* * * *
88552033 TGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAA
1 TGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATA
* * * * *
88552083 TGTGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TAGATGG
1 TGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-A
*
88552132 TGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTA
1 TGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TA
* * * *
88552182 T-TGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
88552230 GCTTCGGCTA
Statistics
Matches: 126, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
48 3 0.02
49 81 0.64
50 41 0.33
51 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (49 bp):
TGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
Found at i:88555241 original size:15 final size:15
Alignment explanation
Indices: 88555221--88555285 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
88555211 GTATCTTGGG
88555221 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
88555236 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
88555251 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
88555266 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
88555280 TTTCTT
1 TTTCTT
88555286 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 12 0.28
15 27 0.63
16 4 0.09
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:88555253 original size:30 final size:31
Alignment explanation
Indices: 88555217--88555285 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
88555207 TATCGTATCT
88555217 TGGGTTTCTT-TAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCT-TGGATTTCTTTATTC
88555247 TGGGTTT-TTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCTTGGATTTCTTTATTC
*
88555277 -GGTTTTCTT
1 TGGGTTTCTT
88555286 GTTATCTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.09, C:0.13, G:0.17, T:0.61
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTGGATTTCTTTATTC
Found at i:88557533 original size:49 final size:49
Alignment explanation
Indices: 88557415--88557600 Score: 205
Period size: 49 Copynumber: 3.8 Consensus size: 49
88557405 TGAGGTCGCA
* * * * *
88557415 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTATAGGTCACG
** *
88557466 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-ATAGGTCACG
* * *
88557515 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATAGGTCACG
* *
88557564 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
88557601 TAGCTTCGGC
Statistics
Matches: 118, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 82 0.69
50 1 0.01
51 30 0.25
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATAGGTCACG
Found at i:88560626 original size:29 final size:30
Alignment explanation
Indices: 88560594--88560652 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
88560584 TATCGTATCT
88560594 TGGGTTTTT-TAT-TCTGGATTTCTTTATTC
1 TGGGTTTTTCTATCT-TGGATTTCTTTATTC
88560623 TGGGTTTTTCTATCTTGGATTTCTTTATTC
1 TGGGTTTTTCTATCTTGGATTTCTTTATTC
88560653 GGTTTTCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 9 0.32
30 18 0.64
31 1 0.04
ACGTcount: A:0.10, C:0.12, G:0.17, T:0.61
Consensus pattern (30 bp):
TGGGTTTTTCTATCTTGGATTTCTTTATTC
Found at i:88560661 original size:14 final size:15
Alignment explanation
Indices: 88560601--88560661 Score: 65
Period size: 15 Copynumber: 4.1 Consensus size: 15
88560591 TCTTGGGTTT
88560601 TTTATTCTGGATTTC
1 TTTATTCTGGATTTC
*
88560616 TTTATTCTGGGTTT-
1 TTTATTCTGGATTTC
88560630 TTCTA-TCTTGGATTTC
1 TT-TATTC-TGGATTTC
*
88560646 TTTATTC-GGTTTTC
1 TTTATTCTGGATTTC
88560660 TT
1 TT
88560662 GTTATCTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 12 0.31
15 23 0.59
16 4 0.10
ACGTcount: A:0.10, C:0.13, G:0.15, T:0.62
Consensus pattern (15 bp):
TTTATTCTGGATTTC
Found at i:88562904 original size:49 final size:48
Alignment explanation
Indices: 88562786--88562968 Score: 208
Period size: 48 Copynumber: 3.7 Consensus size: 48
88562776 TGAGGTCGCA
* * *
88562786 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC---AACTGTAGGTCACG
**
88562837 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-ACT-GTAGGTCACG
* * *
88562886 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAACTGTAGGTCACG
* *
88562934 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
88562969 GATAGCTTCG
Statistics
Matches: 116, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
47 2 0.02
48 44 0.38
49 40 0.34
51 30 0.26
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAACTGTAGGTCACG
Found at i:88565824 original size:20 final size:19
Alignment explanation
Indices: 88565799--88565867 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 19
88565789 GAACTTTAAG
88565799 AATTTTTCGTGACTTTTCAA
1 AATTTTTCG-GACTTTTCAA
88565819 AATTTTTCCAGGAAC-TTT-AA
1 AATTTTT-C-GG-ACTTTTCAA
88565839 GAATTTTTCGCGACTTTTCAA
1 -AATTTTTCG-GACTTTTCAA
88565860 AATTTTTC
1 AATTTTTC
88565868 CAAGGTGCAG
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
19 3 0.07
20 22 0.52
21 14 0.33
22 3 0.07
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.46
Consensus pattern (19 bp):
AATTTTTCGGACTTTTCAA
Found at i:88565843 original size:21 final size:21
Alignment explanation
Indices: 88565786--88565847 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
88565776 GGGACTTAAT
88565786 CAGGAACTTTAAGAATTTTT-
1 CAGGAACTTTAAGAATTTTTC
88565806 C-GTG-ACTTTTCAA-AATTTTTC
1 CAG-GAAC-TTT-AAGAATTTTTC
88565827 CAGGAACTTTAAGAATTTTTC
1 CAGGAACTTTAAGAATTTTTC
88565848 GCGACTTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
19 3 0.09
20 14 0.40
21 15 0.43
22 3 0.09
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (21 bp):
CAGGAACTTTAAGAATTTTTC
Found at i:88565843 original size:41 final size:41
Alignment explanation
Indices: 88565786--88565869 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
88565776 GGGACTTAAT
*
88565786 CAGGAACTTTAAGAATTTTTCGTGACTTTTCAAAATTTTTC
1 CAGGAACTTTAAGAATTTTTCGCGACTTTTCAAAATTTTTC
88565827 CAGGAACTTTAAGAATTTTTCGCGACTTTTCAAAATTTTTC
1 CAGGAACTTTAAGAATTTTTCGCGACTTTTCAAAATTTTTC
88565868 CA
1 CA
88565870 AGGTGCAGGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (41 bp):
CAGGAACTTTAAGAATTTTTCGCGACTTTTCAAAATTTTTC
Found at i:88567960 original size:28 final size:28
Alignment explanation
Indices: 88567920--88568037 Score: 218
Period size: 28 Copynumber: 4.2 Consensus size: 28
88567910 ATGTACTAGA
88567920 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
88567948 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
88567976 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* *
88568004 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
88568032 ATACCC
1 ATACCC
88568038 TTAGGGTTAA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 88 1.00
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:88568204 original size:27 final size:27
Alignment explanation
Indices: 88568146--88568235 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
88568136 AGGAAGCGTC
88568146 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
88568174 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
88568201 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
88568230 CTGGTG
1 CTGGTG
88568236 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:88575736 original size:28 final size:28
Alignment explanation
Indices: 88575696--88575816 Score: 224
Period size: 28 Copynumber: 4.3 Consensus size: 28
88575686 ATGTACTAGA
88575696 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
88575724 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
88575752 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* *
88575780 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
88575808 ATACCCCTA
1 ATACCCCTA
88575817 GGGTTAATTT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 91 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:88575980 original size:27 final size:27
Alignment explanation
Indices: 88575922--88576011 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
88575912 AGGAAGCGTC
88575922 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
88575950 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
88575977 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
88576006 CTGGTG
1 CTGGTG
88576012 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:88576030 original size:55 final size:56
Alignment explanation
Indices: 88575922--88576036 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
88575912 AGGAAGCGTC
* *
88575922 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
88575977 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
88576033 CTGG
1 CTGG
88576037 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:88579180 original size:93 final size:93
Alignment explanation
Indices: 88579068--88579239 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
88579058 GCCCATAAGT
* *
88579068 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
88579133 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
88579161 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
88579226 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
88579240 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:88579235 original size:46 final size:46
Alignment explanation
Indices: 88579060--88579235 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
88579050 TGTAACCCGC
* * *
88579060 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
88579106 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
88579156 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
88579199 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
88579236 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:88581663 original size:30 final size:30
Alignment explanation
Indices: 88581619--88581707 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
88581609 CAAAGATAAC
88581619 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
88581648 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
88581678 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
88581708 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:88581667 original size:15 final size:15
Alignment explanation
Indices: 88581619--88581698 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
88581609 CAAAGATAAC
*
88581619 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
88581633 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
88581648 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
88581663 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
88581678 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
88581693 AAGAAA
1 AAGAAA
88581699 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:88581707 original size:15 final size:15
Alignment explanation
Indices: 88581630--88581707 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
88581620 AGAAAACCGA
88581630 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
88581645 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
88581659 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
88581674 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
88581690 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
88581705 ATA
1 ATA
88581708 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:88584731 original size:93 final size:93
Alignment explanation
Indices: 88584619--88584790 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
88584609 GCCCATAAGT
* *
88584619 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
88584684 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
88584712 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
88584777 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
88584791 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:88584786 original size:46 final size:46
Alignment explanation
Indices: 88584611--88584786 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
88584601 TGTAACCCGC
* * *
88584611 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
88584657 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
88584707 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
88584750 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
88584787 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:88592505 original size:28 final size:29
Alignment explanation
Indices: 88592415--88592545 Score: 147
Period size: 29 Copynumber: 4.6 Consensus size: 29
88592405 CCTTCGAGCT
** * * *
88592415 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * ** *
88592444 TGCACACATAGTGTTATATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
88592473 TGCACACTTAGTGCCTTATA-TTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
88592501 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
88592530 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
88592546 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 26 0.30
29 61 0.70
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:88592513 original size:57 final size:57
Alignment explanation
Indices: 88592386--88592544 Score: 156
Period size: 57 Copynumber: 2.8 Consensus size: 57
88592376 AATTTAAGCC
* *** * * ** * * *
88592386 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCTTA-TATTCCAGCA
* ** * *
88592444 TGCACACATAGTGTTATATTTTTCCAGCATGCACACTTAGTGCCTTATATTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCTTATATTCCAGCA
*
88592501 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
88592545 AATCTCGTCA
Statistics
Matches: 80, Mismatches: 21, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
57 46 0.57
58 34 0.43
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (57 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCTTATATTCCAGCA
Found at i:88593192 original size:142 final size:141
Alignment explanation
Indices: 88593026--88593317 Score: 566
Period size: 142 Copynumber: 2.1 Consensus size: 141
88593016 TATACCCCAT
88593026 ATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 ATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
88593091 GTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAGG
66 GTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAGG
88593156 AAGACAACATGC
131 AA-ACAACATGC
88593168 ATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 ATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
*
88593233 GTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACGCTCACCAAGG
66 GTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAGG
88593298 AAACAACATGC
131 AAACAACATGC
88593309 ATGGCCGAA
1 ATGGCCGAA
88593318 ATTTAACTCA
Statistics
Matches: 149, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
141 18 0.12
142 131 0.88
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (141 bp):
ATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
GTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAGG
AAACAACATGC
Found at i:88594495 original size:40 final size:39
Alignment explanation
Indices: 88594451--88594576 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
88594441 GGGACTCAAC
*
88594451 CCGGATTTAGTAGCTTGCCCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
88594491 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
88594531 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
88594571 CCGGAT
1 CCGGAT
88594577 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:88594535 original size:80 final size:80
Alignment explanation
Indices: 88594390--88594576 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
88594380 GCTACACATT
* * *
88594390 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
88594454 GATTTAGT-AGCTT-GCC
64 GATTTAGTCA-CTTAGCA
* * * **
88594470 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
88594533 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
88594551 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
88594577 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:88598632 original size:28 final size:27
Alignment explanation
Indices: 88598592--88598660 Score: 113
Period size: 28 Copynumber: 2.6 Consensus size: 27
88598582 AAATTTGTAC
88598592 AGCACTAAGTGTGCGAGTTGGATCATAT
1 AGCACTAAGTGTGCGAGTT-GATCATAT
*
88598620 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATCATAT
88598647 AGCACT-AGTGTGCG
1 AGCACTAAGTGTGCG
88598661 GACTCACTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 8 0.20
27 13 0.32
28 19 0.47
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATCATAT
Found at i:88598671 original size:26 final size:27
Alignment explanation
Indices: 88598592--88598672 Score: 69
Period size: 28 Copynumber: 3.0 Consensus size: 27
88598582 AAATTTGTAC
* *
88598592 AGCACTAAGTGTGCGAGTTGGA-TCATAT
1 AGCACTAAGTGTGCGAGCT-CACT-ATAT
* * *
88598620 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
88598647 AGCACT-AGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
88598673 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
25 1 0.02
26 15 0.31
27 12 0.25
28 20 0.42
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:88600498 original size:43 final size:43
Alignment explanation
Indices: 88600451--88600574 Score: 178
Period size: 43 Copynumber: 2.9 Consensus size: 43
88600441 AAATCGATTA
* *
88600451 ACAATGCCAATGTCCTAGACATGGTCTTACACGTAATCTCAAT
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTAAAT
* * *
88600494 ACAATGGCAATGTCCCA-ACCGTGGTTTTACACGTAATCTAAAT
1 ACAATGCCAATGTCCCAGA-CATGGTCTTACACGTAATCTAAAT
*
88600537 ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATC
88600575 ACATTTCGAT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.01
43 68 0.97
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTAAAT
Found at i:88604143 original size:132 final size:132
Alignment explanation
Indices: 88603984--88604246 Score: 472
Period size: 132 Copynumber: 2.0 Consensus size: 132
88603974 TATATGTGCT
88603984 GAATTGAGTTGTAAAGAAATATATATGTGATGCCGAATTGAATTGAGCTTTGGAGAATCTATTTC
1 GAATTGAGTTGTAAAGAAATATATATGTGATGCCGAATTGAATTGAGCTTTGGAGAATCTATTTC
* * * *
88604049 GATCATTGATTGATTGAATATGTGTAATTGAGAAAGTTCTGATAATGTGACAATGTCTAAAAAGC
66 GATCATGGATTGATTGAATATGTGTAATTGACAAAGTTCTAATAATGTGACAACGTCTAAAAAGC
88604114 CA
131 CA
* *
88604116 GAATTGAGTTGTAAAGCAATATATATGTGATGCCGAATTGAATTGAGCTTTGGAGAATCTATTTT
1 GAATTGAGTTGTAAAGAAATATATATGTGATGCCGAATTGAATTGAGCTTTGGAGAATCTATTTC
88604181 GATCATGGATTGATTGAATATGTGTAATTGACAAAGTTCTAATAATGTGACAACGTCTAAAAAGC
66 GATCATGGATTGATTGAATATGTGTAATTGACAAAGTTCTAATAATGTGACAACGTCTAAAAAGC
88604246 C
131 C
88604247 CCATACAAAC
Statistics
Matches: 125, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 125 1.00
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (132 bp):
GAATTGAGTTGTAAAGAAATATATATGTGATGCCGAATTGAATTGAGCTTTGGAGAATCTATTTC
GATCATGGATTGATTGAATATGTGTAATTGACAAAGTTCTAATAATGTGACAACGTCTAAAAAGC
CA
Found at i:88604419 original size:42 final size:43
Alignment explanation
Indices: 88604335--88604456 Score: 140
Period size: 42 Copynumber: 2.8 Consensus size: 43
88604325 TTTGGGACGT
* * * *
88604335 TGGCATCGATTTGTGATTTACATGTAAGACCATGTCTGGGACAT
1 TGGCATCGATATATGA-TTACATGTAAGACCATGTCTCGGACAA
* *
88604379 TGGCATCG-TATATGACTT-CGTGTAAGACCCTGTCTCGGACAA
1 TGGCATCGATATATGA-TTACATGTAAGACCATGTCTCGGACAA
* *
88604421 TGGCATCGATATTTGATTACATGTAAGACCACGTCT
1 TGGCATCGATATATGATTACATGTAAGACCATGTCT
88604457 GGGATGTTGG
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 30 0.46
43 27 0.42
44 8 0.12
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (43 bp):
TGGCATCGATATATGATTACATGTAAGACCATGTCTCGGACAA
Found at i:88607023 original size:56 final size:55
Alignment explanation
Indices: 88606961--88607150 Score: 265
Period size: 56 Copynumber: 3.4 Consensus size: 55
88606951 TCCCAGACAG
*
88606961 GGTCTTACTCGAAAACACATATCGGAATCACCTATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCG-AAACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* *
88607017 GGTCTTACTC-ACACACATATCGGAATCACATATTGATGCCAACGTATTAAACGT
1 GGTCTTACTCGAAACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* * * * *
88607071 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACATATTAAACAT
1 GGTCTTACTCG-AAACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
*
88607127 GGTCTTACTCGTAATCACATATCG
1 GGTCTTACTCG-AAACACATATCG
88607151 ACGCCAACGT
Statistics
Matches: 119, Mismatches: 13, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
54 51 0.43
56 68 0.57
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (55 bp):
GGTCTTACTCGAAACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:88607157 original size:43 final size:43
Alignment explanation
Indices: 88607096--88607277 Score: 166
Period size: 43 Copynumber: 4.2 Consensus size: 43
88607086 CATATATCAG
** * *
88607096 AATCACATATCGATGCCAACATATTAAACATGGTCTTACTCGT
1 AATCACATATCGATGCCAACATACGAAAAATGGTCTTACACGT
* * *
88607139 AATCACATATCGACGCCAACGTCCGAAAAATGGTCTTACACGT
1 AATCACATATCGATGCCAACATACGAAAAATGGTCTTACACGT
* * * **** *
88607182 AATCACATATCGATGCCAACGTCCCAGGCGTGGTCTTACACAT
1 AATCACATATCGATGCCAACATACGAAAAATGGTCTTACACGT
* * * * ** *
88607225 AATCACATATCGATGCCAGCATCCCAGACGTGATCTTACACGT
1 AATCACATATCGATGCCAACATACGAAAAATGGTCTTACACGT
88607268 AATCACATAT
1 AATCACATAT
88607278 TCTTACACGT
Statistics
Matches: 120, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 120 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (43 bp):
AATCACATATCGATGCCAACATACGAAAAATGGTCTTACACGT
Done.