Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 312 of 322
Found at i:103576116 original size:22 final size:22
Alignment explanation
Indices: 103576088--103576133 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
103576078 AGGTATGAGT
103576088 TAGCAATGTATTGAAAATAAGG
1 TAGCAATGTATTGAAAATAAGG
103576110 TAGCAATGTATTGAAAATAAGG
1 TAGCAATGTATTGAAAATAAGG
103576132 TA
1 TA
103576134 AGTTTTGGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.22, T:0.28
Consensus pattern (22 bp):
TAGCAATGTATTGAAAATAAGG
Found at i:103577783 original size:40 final size:40
Alignment explanation
Indices: 103577738--103577927 Score: 299
Period size: 40 Copynumber: 4.8 Consensus size: 40
103577728 CAAGCTCAAT
* * * *
103577738 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* *
103577778 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
103577818 TGCCTTCGGGTCTTAGCCCGAATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
103577858 TGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
103577898 TGCCTTCGGGTTTTAGCCCGGATATATCAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA
103577928 TTGCTCATGC
Statistics
Matches: 139, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
Found at i:103582833 original size:187 final size:187
Alignment explanation
Indices: 103582518--103582892 Score: 741
Period size: 187 Copynumber: 2.0 Consensus size: 187
103582508 GGTTTCTTTT
103582518 CTAATTCTTTGTCATCAAGTACATACGCAAGGTATGCTTCGCACCCTTTTCTTACATATTTCTGG
1 CTAATTCTTTGTCATCAAGTACATACGCAAGGTATGCTTCGCACCCTTTTCTTACATATTTCTGG
103582583 GCCAACATTGCTGATATTACAGCTGGCATCCCCTTCAAGTCCGTAGACTCAACTCGGATTACTTC
66 GCCAACATTGCTGATATTACAGCTGGCATCCCCTTCAAGTCCGTAGACTCAACTCGGATTACTTC
103582648 GTTATTTGCGCACCTCAAATCAATAGTCTTGCTTTTGCAATTCACAGCCGCATCATG
131 GTTATTTGCGCACCTCAAATCAATAGTCTTGCTTTTGCAATTCACAGCCGCATCATG
*
103582705 CTAATTCTTTGTCATCAAGTACATACGCAAGGTATGCTTTGCACCCTTTTCTTACATATTTCTGG
1 CTAATTCTTTGTCATCAAGTACATACGCAAGGTATGCTTCGCACCCTTTTCTTACATATTTCTGG
103582770 GCCAACATTGCTGATATTACAGCTGGCATCCCCTTCAAGTCCGTAGACTCAACTCGGATTACTTC
66 GCCAACATTGCTGATATTACAGCTGGCATCCCCTTCAAGTCCGTAGACTCAACTCGGATTACTTC
103582835 GTTATTTGCGCACCTCAAATCAATAGTCTTGCTTTTGCAATTCACAGCCGCATCATG
131 GTTATTTGCGCACCTCAAATCAATAGTCTTGCTTTTGCAATTCACAGCCGCATCATG
103582892 C
1 C
103582893 GCGGTCAACC
Statistics
Matches: 187, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
187 187 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.33
Consensus pattern (187 bp):
CTAATTCTTTGTCATCAAGTACATACGCAAGGTATGCTTCGCACCCTTTTCTTACATATTTCTGG
GCCAACATTGCTGATATTACAGCTGGCATCCCCTTCAAGTCCGTAGACTCAACTCGGATTACTTC
GTTATTTGCGCACCTCAAATCAATAGTCTTGCTTTTGCAATTCACAGCCGCATCATG
Found at i:103600187 original size:35 final size:35
Alignment explanation
Indices: 103600131--103600280 Score: 138
Period size: 35 Copynumber: 4.3 Consensus size: 35
103600121 CATCGTGTAG
* * * *
103600131 AGCCTATAGACCATTTTCATGGTGTCACTCCATAA
1 AGCCTGTAGACTATTTACATGATGTCACTCCATAA
* * * * ** *
103600166 ATCTTGTAGATTATTTACATGGTGTCACTCTGTAT
1 AGCCTGTAGACTATTTACATGATGTCACTCCATAA
* ** *
103600201 AGCCTGTAGACTATTTACATAATGTTGCTCCATAG
1 AGCCTGTAGACTATTTACATGATGTCACTCCATAA
* *
103600236 AGCCTGTAGACCATTTACATGATGTCACTCCGTAA
1 AGCCTGTAGACTATTTACATGATGTCACTCCATAA
*
103600271 AGTCTGTAGA
1 AGCCTGTAGA
103600281 TGATGGTCAC
Statistics
Matches: 89, Mismatches: 26, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
35 89 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (35 bp):
AGCCTGTAGACTATTTACATGATGTCACTCCATAA
Found at i:103600735 original size:45 final size:45
Alignment explanation
Indices: 103600668--103600759 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
103600658 GGATTCTAGG
* *
103600668 TTTATTAATTGAAACCTTTTTCTAATTAAAATCTCTATTGTCGCA
1 TTTATTAATTGAAACCTCTTTCTAATTAAAATATCTATTGTCGCA
103600713 TTTATTAATTGAAACCTCTTTCTAATTAAAATATCTATTGTCGCA
1 TTTATTAATTGAAACCTCTTTCTAATTAAAATATCTATTGTCGCA
103600758 TT
1 TT
103600760 AACTCAATCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.47
Consensus pattern (45 bp):
TTTATTAATTGAAACCTCTTTCTAATTAAAATATCTATTGTCGCA
Found at i:103603416 original size:23 final size:22
Alignment explanation
Indices: 103603382--103603432 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
103603372 AAATTTAGTA
*
103603382 AAATAAAAATAAATAATATAAC
1 AAATAAAAATAAATAAAATAAC
103603404 AAATAATAAATAAATAAAAT-A-
1 AAATAA-AAATAAATAAAATAAC
103603425 AAATAAAA
1 AAATAAAA
103603433 GGGGTGGCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 2 0.07
21 6 0.22
22 7 0.26
23 12 0.44
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (22 bp):
AAATAAAAATAAATAAAATAAC
Found at i:103608920 original size:46 final size:46
Alignment explanation
Indices: 103608867--103609003 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
103608857 TATATATACA
* * * * *
103608867 CATCTCATACATATTGCACATTAGCCATTTGGCTTTATCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
103608913 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
103608959 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
103609004 ATACATGTTC
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.26, C:0.30, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:103609040 original size:47 final size:47
Alignment explanation
Indices: 103608977--103609171 Score: 237
Period size: 47 Copynumber: 4.1 Consensus size: 47
103608967 ACACATTTCG
*
103608977 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
* * * *
103609024 CATTGGCCATTTGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
* *
103609071 CATTGGCCATTCGGCCTTATCACACATACGCATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTA-C-CACATA--TATACATGTTCACATTCATCA
* * * * **
103609122 CATTTGCCATTCAGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
103609169 CAT
1 CAT
103609172 AAAATCCTAA
Statistics
Matches: 126, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
47 81 0.64
49 10 0.08
51 35 0.28
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
Found at i:103609116 original size:98 final size:94
Alignment explanation
Indices: 103608977--103609171 Score: 273
Period size: 98 Copynumber: 2.0 Consensus size: 94
103608967 ACACATTTCG
* * **
103608977 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTTGGCCTT
1 CATTAGCCATTCGGCCTTACCACATACATACAGGTTCACATTCATCACATTGGCCATTCAGCCTT
* **
103609042 ATCTCATATATGCATGTTCACATTCATCA
66 ATCTCATATATACACATTCACATTCATCA
* *
103609071 CATTGGCCATTCGGCCTTATCACACATACGCATACAGGTTCACATTCATCACATTTGCCATTCAG
1 CATTAGCCATTCGGCCTTA-C-CACATA--CATACAGGTTCACATTCATCACATTGGCCATTCAG
103609136 CCTTATCTCATATATACACATTCACATTCATCA
62 CCTTATCTCATATATACACATTCACATTCATCA
103609169 CAT
1 CAT
103609172 AAAATCCTAA
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
94 18 0.20
95 1 0.01
96 6 0.07
98 63 0.72
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (94 bp):
CATTAGCCATTCGGCCTTACCACATACATACAGGTTCACATTCATCACATTGGCCATTCAGCCTT
ATCTCATATATACACATTCACATTCATCA
Found at i:103609172 original size:25 final size:23
Alignment explanation
Indices: 103609109--103609172 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 23
103609099 CGCATACAGG
*
103609109 TTCACATTCATCACAT-TTGCCA
1 TTCACATTCATCACATATTACCA
* *
103609131 TTCAGCCTT-ATCTCATATATACACA
1 TTCA-CATTCATCACATAT-TAC-CA
103609156 TTCACATTCATCACATA
1 TTCACATTCATCACATA
103609173 AAATCCTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
22 10 0.31
23 4 0.12
24 5 0.16
25 13 0.41
ACGTcount: A:0.31, C:0.30, G:0.03, T:0.36
Consensus pattern (23 bp):
TTCACATTCATCACATATTACCA
Found at i:103609317 original size:129 final size:129
Alignment explanation
Indices: 103609102--103609351 Score: 500
Period size: 129 Copynumber: 1.9 Consensus size: 129
103609092 ACACATACGC
103609102 ATACAGGTTCACATTCATCACATTTGCCATTCAGCCTTATCTCATATATACACATTCACATTCAT
1 ATACAGGTTCACATTCATCACATTTGCCATTCAGCCTTATCTCATATATACACATTCACATTCAT
103609167 CACATAAAATCCTAAATCAAAATATAAATTTCATGTATTCACATCACAATTATCCAGCATATAT
66 CACATAAAATCCTAAATCAAAATATAAATTTCATGTATTCACATCACAATTATCCAGCATATAT
103609231 ATACAGGTTCACATTCATCACATTTGCCATTCAGCCTTATCTCATATATACACATTCACATTCAT
1 ATACAGGTTCACATTCATCACATTTGCCATTCAGCCTTATCTCATATATACACATTCACATTCAT
103609296 CACATAAAATCCTAAATCAAAATATAAATTTCATGTATTCACATCACAATTATCCA
66 CACATAAAATCCTAAATCAAAATATAAATTTCATGTATTCACATCACAATTATCCA
103609352 AATATACTTC
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 121 1.00
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.33
Consensus pattern (129 bp):
ATACAGGTTCACATTCATCACATTTGCCATTCAGCCTTATCTCATATATACACATTCACATTCAT
CACATAAAATCCTAAATCAAAATATAAATTTCATGTATTCACATCACAATTATCCAGCATATAT
Found at i:103611583 original size:16 final size:15
Alignment explanation
Indices: 103611544--103611574 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
103611534 ATTAACTCTT
103611544 TCCTTCTTTTAATTA
1 TCCTTCTTTTAATTA
103611559 TCCTTCTTTTAATTA
1 TCCTTCTTTTAATTA
103611574 T
1 T
103611575 TCTTTCTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (15 bp):
TCCTTCTTTTAATTA
Found at i:103614148 original size:13 final size:13
Alignment explanation
Indices: 103614130--103614156 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
103614120 AAGCCTAAGA
103614130 AAAGACAAAAACT
1 AAAGACAAAAACT
103614143 AAAGACAAAAACT
1 AAAGACAAAAACT
103614156 A
1 A
103614157 GGAAGAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.15, G:0.07, T:0.07
Consensus pattern (13 bp):
AAAGACAAAAACT
Found at i:103616171 original size:96 final size:97
Alignment explanation
Indices: 103616002--103616178 Score: 239
Period size: 96 Copynumber: 1.8 Consensus size: 97
103615992 TGTCATTAGG
* * * * *
103616002 GATTACATTGAGTTAGCTTCGGGCTAGGATATTGGCACTTTAGATGCGAGATTCGTTGAGTTGGC
1 GATTACATTGAGTTAGCTTCGGGCCAGGATATTGGAACTTCAGATGCGAAATTCATTGAGTTGGC
103616067 TTCAGGCCATGATATTGGCACTTCGAGTGCAA
66 TTCAGGCCATGATATTGGCACTTCGAGTGCAA
* * * * *
103616099 GATT-CATTGAGTTGGTTTCGGGCCATGATATTGGAACTTCGGGTGCGAAATTCATTGAGTTGGC
1 GATTACATTGAGTTAGCTTCGGGCCAGGATATTGGAACTTCAGATGCGAAATTCATTGAGTTGGC
**
103616163 TTTGGGCCATGATATT
66 TTCAGGCCATGATATT
103616179 TGGACTTTGG
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
96 64 0.94
97 4 0.06
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.34
Consensus pattern (97 bp):
GATTACATTGAGTTAGCTTCGGGCCAGGATATTGGAACTTCAGATGCGAAATTCATTGAGTTGGC
TTCAGGCCATGATATTGGCACTTCGAGTGCAA
Found at i:103616191 original size:48 final size:48
Alignment explanation
Indices: 103616007--103616191 Score: 212
Period size: 48 Copynumber: 3.9 Consensus size: 48
103615997 TTAGGGATTA
* * * ** * *
103616007 CATTGAGTTAGCTTCGGGCTAGGATATTGGCACTTTAGATGCGAGATT
1 CATTGAGTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAAATT
* * *
103616055 CGTTGAGTTGGCTTCAGGCCATGATATTGGCACTTCGAGTGC-AAGATT
1 CATTGAGTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAA-ATT
* *
103616103 CATTGAGTTGGTTTCGGGCCATGATATTGGAACTTCGGGTGCGAAATT
1 CATTGAGTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAAATT
* *
103616151 CATTGAGTTGGCTTTGGGCCATGATATTTGG-ACTTTGGGTG
1 CATTGAGTTGGCTTCGGGCCATGATA-TTGGCACTTCGGGTG
103616192 TGAGACTTCC
Statistics
Matches: 116, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
47 1 0.01
48 109 0.94
49 6 0.05
ACGTcount: A:0.20, C:0.15, G:0.31, T:0.34
Consensus pattern (48 bp):
CATTGAGTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAAATT
Found at i:103617955 original size:27 final size:27
Alignment explanation
Indices: 103617924--103618001 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
103617914 TAGAGTCCGT
*
103617924 GGGACACTAAACATGAGGTAGTCCACC
1 GGGACATTAAACATGAGGTAGTCCACC
* * * *
103617951 GGGACATTATACACGAGGTAGTTCGCC
1 GGGACATTAAACATGAGGTAGTCCACC
* *
103617978 GAGACATTAAACATGAGGAAGTCC
1 GGGACATTAAACATGAGGTAGTCC
103618002 GCTGGGATGT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.18
Consensus pattern (27 bp):
GGGACATTAAACATGAGGTAGTCCACC
Found at i:103620401 original size:16 final size:16
Alignment explanation
Indices: 103620380--103620410 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
103620370 CGGCAGATCC
103620380 CGAAATGCCAAAAAGT
1 CGAAATGCCAAAAAGT
*
103620396 CGAAATGCCGAAAAG
1 CGAAATGCCAAAAAG
103620411 CTAGAAGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.19, G:0.23, T:0.10
Consensus pattern (16 bp):
CGAAATGCCAAAAAGT
Found at i:103620668 original size:28 final size:28
Alignment explanation
Indices: 103620635--103620726 Score: 107
Period size: 28 Copynumber: 3.3 Consensus size: 28
103620625 GACTATGAGT
*
103620635 GTGATTGGGCCT-A-ACGAGCCATATGGAA
1 GTGATTGGGCCTGATA-G-GCCATATGAAA
103620663 GTGATTGGGCCTGATAGGCCATATGAAA
1 GTGATTGGGCCTGATAGGCCATATGAAA
* * *
103620691 GTGATTGGGCCCGATGGGCCATATGAAT
1 GTGATTGGGCCTGATAGGCCATATGAAA
*
103620719 GAGATTGG
1 GTGATTGG
103620727 CCCTAAAGGG
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 54 0.95
29 2 0.04
30 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.35, T:0.24
Consensus pattern (28 bp):
GTGATTGGGCCTGATAGGCCATATGAAA
Found at i:103624564 original size:43 final size:41
Alignment explanation
Indices: 103624468--103624566 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 41
103624458 AATTTGAGAT
*
103624468 TTACATGTAAGACCATTCTGGGACATCGACATCGCATATTA
1 TTACATGTAAGACCATTCTAGGACATCGACATCGCATATTA
* * *
103624509 TTTCATGTAAGACCCTATCTAGGACAGT-GGCATCG-ATATTTGA
1 TTACATGTAAGACCAT-TCTAGGACA-TCGACATCGCATA-TT-A
103624552 TTACATGTAAGACCA
1 TTACATGTAAGACCA
103624567 CGTCTGGGAC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
41 17 0.35
42 16 0.33
43 15 0.31
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (41 bp):
TTACATGTAAGACCATTCTAGGACATCGACATCGCATATTA
Found at i:103624583 original size:43 final size:43
Alignment explanation
Indices: 103624413--103624584 Score: 140
Period size: 43 Copynumber: 4.0 Consensus size: 43
103624403 ACATAGGATT
* * * * *
103624413 TCGATATGTGATTTCGTGTAAGACCACATCTGAGAAATTGGCA
1 TCGATATTTGATTACATGTAAGACCACATCTGGGACATTGGCA
* * *
103624456 TC-A-ATTTGAGATTTACATGTAAGACCA-TTCTGGGACATCGACA
1 TCGATATTT--GA-TTACATGTAAGACCACATCTGGGACATTGGCA
* * *
103624499 TCGCATA-TT-ATTTCATGTAAGACC-CTATCTAGGACAGTGGCA
1 TCG-ATATTTGATTACATGTAAGACCAC-ATCTGGGACATTGGCA
* *
103624541 TCGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATTTGATTACATGTAAGACCACATCTGGGACATTGGCA
103624584 T
1 T
103624585 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 19, Indels: 22
0.71 0.14 0.16
Matches are distributed among these distances:
41 19 0.19
42 18 0.18
43 44 0.44
44 14 0.14
45 3 0.03
46 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.31
Consensus pattern (43 bp):
TCGATATTTGATTACATGTAAGACCACATCTGGGACATTGGCA
Found at i:103624911 original size:25 final size:25
Alignment explanation
Indices: 103624879--103624935 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
103624869 TGATATATAA
103624879 TAAG-TTTATTTGTATATGGCTTAC
1 TAAGCTTTATTTGTATATGGCTTAC
103624903 TAAGCTTTATTTGTATATGGCTTAC
1 TAAGCTTTATTTGTATATGGCTTAC
103624928 TAAGCTTT
1 TAAGCTTT
103624936 TGAAAGCTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.12
25 28 0.88
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.49
Consensus pattern (25 bp):
TAAGCTTTATTTGTATATGGCTTAC
Found at i:103631778 original size:28 final size:28
Alignment explanation
Indices: 103631738--103631835 Score: 94
Period size: 28 Copynumber: 3.5 Consensus size: 28
103631728 AAACGAAATC
103631738 CGCACACACAGTGCCTACTGACCGATCT
1 CGCACACACAGTGCCTACTGACCGATCT
* * **
103631766 CGCACACATAGTG-CT-CGGTTAAAGAAT-T
1 CGCACACACAGTGCCTAC--TGACCG-ATCT
*
103631794 CGCACACACAGTGCCCACTGACCGATCT
1 CGCACACACAGTGCCTACTGACCGATCT
*
103631822 CGCACACATAGTGC
1 CGCACACACAGTGC
103631836 TCGGTTAAAG
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
26 1 0.02
27 4 0.07
28 45 0.83
29 3 0.06
30 1 0.02
ACGTcount: A:0.28, C:0.35, G:0.19, T:0.18
Consensus pattern (28 bp):
CGCACACACAGTGCCTACTGACCGATCT
Found at i:103631799 original size:56 final size:56
Alignment explanation
Indices: 103631738--103631865 Score: 238
Period size: 56 Copynumber: 2.3 Consensus size: 56
103631728 AAACGAAATC
103631738 CGCACACACAGTGCCTACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGCCTACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
*
103631794 CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGCCTACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
*
103631850 CACACACACAGTGCCT
1 CGCACACACAGTGCCT
103631866 CAATTCATTC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 69 1.00
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.20
Consensus pattern (56 bp):
CGCACACACAGTGCCTACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
Found at i:103631855 original size:28 final size:28
Alignment explanation
Indices: 103631765--103631863 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
103631755 CTGACCGATC
*
103631765 TCGCACACATAGTGCTCGGTTAAAGAAT
1 TCGCACACACAGTGCTCGGTTAAAGAAT
* ** * **
103631793 TCGCACACACAGTGCCCACTGACCG-AT
1 TCGCACACACAGTGCTCGGTTAAAGAAT
*
103631820 CTCGCACACATAGTGCTCGGTTAAAGAAT
1 -TCGCACACACAGTGCTCGGTTAAAGAAT
*
103631849 TCACACACACAGTGC
1 TCGCACACACAGTGC
103631864 CTCAATTCAT
Statistics
Matches: 53, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
27 2 0.04
28 49 0.92
29 2 0.04
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.20
Consensus pattern (28 bp):
TCGCACACACAGTGCTCGGTTAAAGAAT
Found at i:103631881 original size:25 final size:25
Alignment explanation
Indices: 103631847--103631901 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
103631837 CGGTTAAAGA
*
103631847 ATTCACACACACAGTGCCTCA-ATTC
1 ATTCGCACACACAGTGCCT-ATATTC
* *
103631872 ATTCGCACACATAGTGTCTATATTC
1 ATTCGCACACACAGTGCCTATATTC
103631897 ATTCG
1 ATTCG
103631902 TTATTACACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTATATTC
Found at i:103632130 original size:40 final size:40
Alignment explanation
Indices: 103632070--103632145 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
103632060 CACATCACTG
103632070 GCACGAATGCCCTTCAGGACTTAGCCCGGATATAACACCA
1 GCACGAATGCCCTTCAGGACTTAGCCCGGATATAACACCA
* * *
103632110 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAAC
1 GCACGAATGCCCTTCAGGACTTAGCCCGGATATAAC
103632146 TCTCAATTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (40 bp):
GCACGAATGCCCTTCAGGACTTAGCCCGGATATAACACCA
Found at i:103643154 original size:40 final size:40
Alignment explanation
Indices: 103643065--103643328 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
103643055 TTGAATGATG
* *
103643065 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
103643104 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
103643144 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
103643183 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
103643223 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
103643263 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
103643304 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
103643329 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:103643346 original size:120 final size:118
Alignment explanation
Indices: 103643065--103643361 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
103643055 TTGAATGATG
* *
103643065 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
103643125 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
103643183 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
103643248 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
103643304 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
103643362 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:103645462 original size:27 final size:27
Alignment explanation
Indices: 103645159--103645462 Score: 371
Period size: 27 Copynumber: 11.2 Consensus size: 27
103645149 AAAGTACTCC
103645159 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
103645186 C-AGTTTACAGAATTGCCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* * *
103645213 CAATTTACAGAACTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
103645240 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
103645267 CAGTTTTTACAGAATTACCGTTTTATCCT
1 C-G-ATTTACAGAATTACCGTTTTACCCT
103645296 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
103645323 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
103645350 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * **
103645377 TAATTTACAGAATTACTGGATTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
103645404 C-AGTTTACAAAATTATCGTTTTACTCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
103645431 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
103645458 TGATT
1 CGATT
103645463 GTGAAATTAC
Statistics
Matches: 235, Mismatches: 34, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.01
27 205 0.87
28 4 0.02
29 24 0.10
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:103645662 original size:27 final size:27
Alignment explanation
Indices: 103645467--103645662 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
103645457 TTGATTGTGA
* *
103645467 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
103645494 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
103645521 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
103645548 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
103645575 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
103645602 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
103645629 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
103645656 AATTACC
1 AATTACC
103645663 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:103645904 original size:27 final size:26
Alignment explanation
Indices: 103645861--103645943 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
103645851 CGGAGGAAGC
* *
103645861 GTTCTGGTGCCTATGCCACAAATATCT
1 GTTCTGGTGACTCTGCCAC-AATATCT
*
103645888 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGACTCTGCCACAATATCT
* *
103645914 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGACTCTGCCACAATATCT
103645941 GTT
1 GTT
103645944 GACCGATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.80
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGACTCTGCCACAATATCT
Found at i:103646063 original size:22 final size:22
Alignment explanation
Indices: 103646031--103646089 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
103646021 CCCGTTATTA
*
103646031 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
103646053 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
103646075 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
103646090 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:103646267 original size:25 final size:26
Alignment explanation
Indices: 103646239--103646324 Score: 66
Period size: 27 Copynumber: 3.3 Consensus size: 26
103646229 TGCCACGTAT
* * *
103646239 TCTGTT-AGGTGGGTTTGCCACATTA
1 TCTGTTCAGGTGGCTATGCCACAATA
*
103646264 TCTGATTCTGGTGGCTATGCCACAATA
1 TCTG-TTCAGGTGGCTATGCCACAATA
* * * * *
103646291 TCTGTATCTGGTGACTCTGTCACGATA
1 TCTGT-TCAGGTGGCTATGCCACAATA
103646318 TCTGTTC
1 TCTGTTC
103646325 TGGCAGCCAT
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
25 4 0.08
26 5 0.10
27 41 0.82
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (26 bp):
TCTGTTCAGGTGGCTATGCCACAATA
Found at i:103646276 original size:27 final size:27
Alignment explanation
Indices: 103646254--103646327 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
103646244 TAGGTGGGTT
*
103646254 TGCCACATTATCTG-ATTCTGGTGGCTA
1 TGCCACAATATCTGTA-TCTGGTGGCTA
* *
103646281 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTA
* *
103646308 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
103646328 CAGCCATGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.12
27 35 0.85
28 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTA
Found at i:103646454 original size:6 final size:6
Alignment explanation
Indices: 103646445--103646619 Score: 175
Period size: 6 Copynumber: 28.8 Consensus size: 6
103646435 TTGCATTCAC
* *
103646445 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG -TTACTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATT-CTG
* *
103646494 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG
*
103646543 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG
103646591 ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
103646620 CATTTTGGTT
Statistics
Matches: 143, Mismatches: 10, Indels: 32
0.77 0.05 0.17
Matches are distributed among these distances:
5 11 0.08
6 118 0.83
7 11 0.08
8 3 0.02
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:103646502 original size:24 final size:24
Alignment explanation
Indices: 103646445--103646614 Score: 193
Period size: 24 Copynumber: 6.8 Consensus size: 24
103646435 TTGCATTCAC
* *
103646445 ATTCTGATTCTGATTCTGTCACGTA
1 ATTCTGATTCTGATTCTGTTAC-TG
103646470 ATTCTGATTCTGATTCTGTTACTG
1 ATTCTGATTCTGATTCTGTTACTG
103646494 ATTCTGATTCTGATTCTGTTACTG
1 ATTCTGATTCTGATTCTGTTACTG
103646518 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGT----T-A--CTG
*
103646549 ATTCTGATTCTGATTCTGTTACTA
1 ATTCTGATTCTGATTCTGTTACTG
103646573 ATAT-TGATTCTGATTCTGATT-CTG
1 AT-TCTGATTCTGATTCTG-TTACTG
103646597 -TTACTGATTCTGATTCTG
1 ATT-CTGATTCTGATTCTG
103646615 ATTCTCATTT
Statistics
Matches: 130, Mismatches: 4, Indels: 23
0.83 0.03 0.15
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 78 0.60
25 24 0.18
26 1 0.01
27 1 0.01
28 1 0.01
29 1 0.01
31 22 0.17
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (24 bp):
ATTCTGATTCTGATTCTGTTACTG
Found at i:103646581 original size:73 final size:73
Alignment explanation
Indices: 103646445--103646608 Score: 230
Period size: 73 Copynumber: 2.2 Consensus size: 73
103646435 TTGCATTCAC
* *
103646445 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGTTACTGATTCTAATTCTGATTC
103646510 TG-TTACTG
66 TGATT-CTG
103646518 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATT-CTG-TTACTAATAT-TGA
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTG-TTACTGATT-CTAAT-TCTGA
103646580 TTCTGATTCTG
63 TTCTGATTCTG
103646591 ATTCTG-TTACTGATTCTG
1 ATTCTGATT-CTGATTCTG
103646609 ATTCTGATTC
Statistics
Matches: 84, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
72 4 0.05
73 75 0.89
74 5 0.06
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (73 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGTTACTGATTCTAATTCTGATTC
TGATTCTG
Found at i:103646637 original size:30 final size:30
Alignment explanation
Indices: 103646491--103646640 Score: 163
Period size: 30 Copynumber: 5.2 Consensus size: 30
103646481 GATTCTGTTA
103646491 CTGATTCTGATTCTGATTCTGTT----A--
1 CTGATTCTGATTCTGATTCTGTTACCAATT
*
103646515 CTGATTCTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGATTCTGTTACC-AATT
*
103646546 CTGATTCTGATTCTGATTCTGTTACTAATAT
1 CTGATTCTGATTCTGATTCTGTTACCAAT-T
**
103646577 -TGATTCTGATTCTGATTCTGTTACTGATT
1 CTGATTCTGATTCTGATTCTGTTACCAATT
* *
103646606 CTGATTCTGATTCTCATTTTGGTT-CCAATT
1 CTGATTCTGATTCTGATTCT-GTTACCAATT
103646636 CTGAT
1 CTGAT
103646641 AATGTTTCTT
Statistics
Matches: 108, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
24 22 0.20
29 2 0.02
30 56 0.52
31 28 0.26
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.49
Consensus pattern (30 bp):
CTGATTCTGATTCTGATTCTGTTACCAATT
Found at i:103649405 original size:16 final size:17
Alignment explanation
Indices: 103649374--103649406 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
103649364 ACTTACTTAA
*
103649374 TACTTGATAATCTCAAT
1 TACTTGATAATATCAAT
103649391 TACTT-ATAATATCAAT
1 TACTTGATAATATCAAT
103649407 ATTAAATAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.42
Consensus pattern (17 bp):
TACTTGATAATATCAAT
Found at i:103649709 original size:54 final size:54
Alignment explanation
Indices: 103649520--103649716 Score: 216
Period size: 55 Copynumber: 3.6 Consensus size: 54
103649510 AACTTACCAT
* * * * * *
103649520 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GACCTCACCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* ** * *
103649573 TTCCATGCCTTGGCATGGTCTTACATGGGATCTTTGGCTTATAGTAACTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAG-AACTCATCAA
* * * *
103649628 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* * *
103649682 TGCGATGCCTTGGCATGATCTCACATGATATCCTT
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTT
103649717 ATCTTACCAA
Statistics
Matches: 118, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
53 35 0.30
54 39 0.33
55 44 0.37
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
Found at i:103652483 original size:20 final size:20
Alignment explanation
Indices: 103652455--103652493 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
103652445 CAATTTATAA
103652455 CATTAAAAT-TAATCTATCAT
1 CATTAAAATATAATC-ATCAT
*
103652475 CATTCAAATATAATCATCA
1 CATTAAAATATAATCATCA
103652494 AAAAATTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (20 bp):
CATTAAAATATAATCATCAT
Found at i:103663211 original size:21 final size:20
Alignment explanation
Indices: 103663170--103663214 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
103663160 AGCACATGTA
*
103663170 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAATTT
*
103663190 TTCATCAAAA-TTTACAACTT
1 TTCAT-AAAATTTTACAATTT
103663210 TTCAT
1 TTCAT
103663215 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.47
Consensus pattern (20 bp):
TTCATAAAATTTTACAATTT
Found at i:103663690 original size:17 final size:17
Alignment explanation
Indices: 103663668--103663701 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
103663658 GACCTCTAGT
*
103663668 TTTGATTCTCATAGCTA
1 TTTGATCCTCATAGCTA
*
103663685 TTTGATCCTTATAGCTA
1 TTTGATCCTCATAGCTA
103663702 CTAGAATTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.47
Consensus pattern (17 bp):
TTTGATCCTCATAGCTA
Found at i:103665121 original size:25 final size:25
Alignment explanation
Indices: 103665088--103665150 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
103665078 GAATCGGTAT
* * *
103665088 TCACTCGAGCTGTAGATCGATATGC
1 TCACACGAGCTGTAAATCGATATAC
** *
103665113 TCTTACGAGCTATAAATCGATATAC
1 TCACACGAGCTGTAAATCGATATAC
103665138 TCACACGAGCTGT
1 TCACACGAGCTGT
103665151 GGGTCGAAAC
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (25 bp):
TCACACGAGCTGTAAATCGATATAC
Found at i:103679901 original size:40 final size:39
Alignment explanation
Indices: 103679711--103679894 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
103679701 CGAATGATGT
* * * *
103679711 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
103679751 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
103679791 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
103679829 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
103679870 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
103679895 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:103679916 original size:79 final size:79
Alignment explanation
Indices: 103679763--103679927 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
103679753 GGACTAAGAT
* **
103679763 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
* *
103679828 ATTCGGGTTAAGTC
66 ATTCCGGTTAAATC
* *
103679842 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
103679905 TATA-TCCGGTTAAATT
63 TAAATTCCGGTTAAATC
103679921 CCGAAGG
1 CCGAAGG
103679928 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 51 0.69
80 21 0.28
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATTCCGGTTAAATC
Found at i:103693704 original size:40 final size:40
Alignment explanation
Indices: 103693630--103693851 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
103693620 AACCCAAGTA
* *
103693630 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
103693669 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
103693709 CCTTCGGGACTTAGCCCAGATTTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
103693749 CCTTCGGGACTTAGCCCGGATTTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
103693789 CCTTTGGGACTTAGCCCGGATATAGTCACTAGCATAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
103693829 CCTTCGGGACATAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
103693852 CATTCGAATA
Statistics
Matches: 166, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.07
40 153 0.92
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:103710130 original size:68 final size:68
Alignment explanation
Indices: 103710006--103710140 Score: 166
Period size: 68 Copynumber: 2.0 Consensus size: 68
103709996 AAGCCTATGG
* ** ***
103710006 GTAAACATGACACCTTATTACGTAAGACCATAGCTGGGCTATAGCAACATCTGAAGTCCACCAGG
1 GTAAACATGACACCATATTACGTAAGACCATAAATGGGCTATAGCAACAAAAGAAGTCCACCAGG
103710071 ATA
66 ATA
**
103710074 GTAAACATGACACCATATTGA-GTAAGACCATAAATGGGCTGA-AGCAACAAAAGAAGTCTGCCA
1 GTAAACATGACACCATATT-ACGTAAGACCATAAATGGGCT-ATAGCAACAAAAGAAGTCCACCA
103710137 GGAT
64 GGAT
103710141 GGTGAACCAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
68 55 0.96
69 2 0.04
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (68 bp):
GTAAACATGACACCATATTACGTAAGACCATAAATGGGCTATAGCAACAAAAGAAGTCCACCAGG
ATA
Found at i:103710609 original size:14 final size:14
Alignment explanation
Indices: 103710590--103710620 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
103710580 GCTTTCTGTT
103710590 ATGGGATAATCCAC
1 ATGGGATAATCCAC
103710604 ATGGGATAATCCAC
1 ATGGGATAATCCAC
103710618 ATG
1 ATG
103710621 AGGCTAACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (14 bp):
ATGGGATAATCCAC
Found at i:103711103 original size:18 final size:18
Alignment explanation
Indices: 103711076--103711111 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
103711066 AGGGAAAGTA
*
103711076 TGGAAGTCTGAGATAGAG
1 TGGAAATCTGAGATAGAG
103711094 TGGAAATCTGAGATAGAG
1 TGGAAATCTGAGATAGAG
103711112 CCTGATGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.22
Consensus pattern (18 bp):
TGGAAATCTGAGATAGAG
Found at i:103714529 original size:18 final size:18
Alignment explanation
Indices: 103714508--103714542 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
103714498 CATAAATCAC
* *
103714508 ATAAACTTGATAAATAAG
1 ATAAACATGAAAAATAAG
103714526 ATAAACATGAAAAATAA
1 ATAAACATGAAAAATAA
103714543 ATCAAGAGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.06, G:0.09, T:0.23
Consensus pattern (18 bp):
ATAAACATGAAAAATAAG
Found at i:103715612 original size:104 final size:104
Alignment explanation
Indices: 103715427--103715614 Score: 277
Period size: 104 Copynumber: 1.8 Consensus size: 104
103715417 GCCTATTACA
* ** * * *
103715427 GAATGTATGTGCAAGTTACCATTGCATTGAATGCATGAATTGTTTTGTGTTGGAATGTATATGTG
1 GAATGTATATGCAAGTTACCATTGCACCGAATGCATGAATTATTTTGTGATGGAATATATATGTG
* ** *
103715492 AGTTTCCATTGGATCGAATGCATGAACTGGTTTGTGATG
66 AGCTGACATTGCATCGAATGCATGAACTGGTTTGTGATG
*
103715531 GAATGTATATGCAAGTTGCCATTGCACCGAATGCATGAATTATTTTGTGATGGAATATATATGTG
1 GAATGTATATGCAAGTTACCATTGCACCGAATGCATGAATTATTTTGTGATGGAATATATATGTG
103715596 AGCTGACATTGCATCGAAT
66 AGCTGACATTGCATCGAAT
103715615 ATATGAAATG
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
104 73 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (104 bp):
GAATGTATATGCAAGTTACCATTGCACCGAATGCATGAATTATTTTGTGATGGAATATATATGTG
AGCTGACATTGCATCGAATGCATGAACTGGTTTGTGATG
Found at i:103715621 original size:52 final size:52
Alignment explanation
Indices: 103715440--103715614 Score: 224
Period size: 52 Copynumber: 3.4 Consensus size: 52
103715430 TGTATGTGCA
* * *
103715440 AGTTACCATTGCATTGAATGCATGAATTGTTTTGTGTTGGAATGTATATGTG
1 AGTTGCCATTGCATCGAATGCATGAATTGTTTTGTGATGGAATGTATATGTG
* * * * **
103715492 AGTTTCCATTGGATCGAATGCATGAACTGGTTTGTGATGGAATGTATATGCA
1 AGTTGCCATTGCATCGAATGCATGAATTGTTTTGTGATGGAATGTATATGTG
* * *
103715544 AGTTGCCATTGCACCGAATGCATGAATTATTTTGTGATGGAATATATATGTG
1 AGTTGCCATTGCATCGAATGCATGAATTGTTTTGTGATGGAATGTATATGTG
* *
103715596 AGCTGACATTGCATCGAAT
1 AGTTGCCATTGCATCGAAT
103715615 ATATGAAATG
Statistics
Matches: 103, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 103 1.00
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.37
Consensus pattern (52 bp):
AGTTGCCATTGCATCGAATGCATGAATTGTTTTGTGATGGAATGTATATGTG
Found at i:103715855 original size:27 final size:25
Alignment explanation
Indices: 103715824--103715876 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 25
103715814 GGATTTTGTA
*
103715824 AAGTATTCATGTGTGTGCTAACTCTAT
1 AAGTATTCATGTGCGTGCT--CTCTAT
103715851 AAGTATTCATGTGCGTGCTCTCTAT
1 AAGTATTCATGTGCGTGCTCTCTAT
103715876 A
1 A
103715877 GAAAGTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 7 0.28
27 18 0.72
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (25 bp):
AAGTATTCATGTGCGTGCTCTCTAT
Found at i:103716070 original size:18 final size:17
Alignment explanation
Indices: 103716049--103716083 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
103716039 CGTGCAATCC
103716049 GTGCCAAATGTGCGAGTT
1 GTGCC-AATGTGCGAGTT
*
103716067 GTGCCCATGTGCGAGTT
1 GTGCCAATGTGCGAGTT
103716084 ATGATCATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.17, C:0.20, G:0.34, T:0.29
Consensus pattern (17 bp):
GTGCCAATGTGCGAGTT
Found at i:103716092 original size:17 final size:17
Alignment explanation
Indices: 103716056--103716094 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
103716046 TCCGTGCCAA
* *
103716056 ATGTGCGAGTTGTGCCC
1 ATGTGCGAGTTATGACC
*
103716073 ATGTGCGAGTTATGATC
1 ATGTGCGAGTTATGACC
103716090 ATGTG
1 ATGTG
103716095 TGAACTATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.15, G:0.33, T:0.33
Consensus pattern (17 bp):
ATGTGCGAGTTATGACC
Found at i:103719274 original size:31 final size:31
Alignment explanation
Indices: 103719195--103719257 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
103719185 GACATGTCAC
*
103719195 TAGGAACTATGTGGATATCAGCTCATGAATA
1 TAGGAACTATGTGGATATCAACTCATGAATA
103719226 TAGGAACTATGTGGATATCAACTCATGAATA
1 TAGGAACTATGTGGATATCAACTCATGAATA
103719257 T
1 T
103719258 GTGTGTATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (31 bp):
TAGGAACTATGTGGATATCAACTCATGAATA
Found at i:103721927 original size:30 final size:30
Alignment explanation
Indices: 103721891--103721950 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
103721881 AAATGAGACA
103721891 AGGGATTATAATGTAATGAACTTATCTATG
1 AGGGATTATAATGTAATGAACTTATCTATG
103721921 AGGGATTATAATGTAATGAACTTATCTATG
1 AGGGATTATAATGTAATGAACTTATCTATG
103721951 TTAAATTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (30 bp):
AGGGATTATAATGTAATGAACTTATCTATG
Found at i:103723037 original size:15 final size:15
Alignment explanation
Indices: 103723017--103723084 Score: 82
Period size: 15 Copynumber: 4.5 Consensus size: 15
103723007 ATTATGATAT
103723017 TGTATCTTGGATTTC
1 TGTATCTTGGATTTC
*
103723032 TGTATCTTGAATTTC
1 TGTATCTTGGATTTC
* *
103723047 TTTATCTAGGATTTC
1 TGTATCTTGGATTTC
* * *
103723062 TTTGTCTTGGACTTC
1 TGTATCTTGGATTTC
103723077 TGTATCTT
1 TGTATCTT
103723085 AGTTTTTATG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 44 1.00
ACGTcount: A:0.15, C:0.15, G:0.16, T:0.54
Consensus pattern (15 bp):
TGTATCTTGGATTTC
Found at i:103730499 original size:25 final size:25
Alignment explanation
Indices: 103730471--103730530 Score: 120
Period size: 25 Copynumber: 2.4 Consensus size: 25
103730461 ACAAAATACA
103730471 CCACAAAGGCAACATACATAATATG
1 CCACAAAGGCAACATACATAATATG
103730496 CCACAAAGGCAACATACATAATATG
1 CCACAAAGGCAACATACATAATATG
103730521 CCACAAAGGC
1 CCACAAAGGC
103730531 TAGAAGAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.47, C:0.27, G:0.13, T:0.13
Consensus pattern (25 bp):
CCACAAAGGCAACATACATAATATG
Found at i:103730543 original size:20 final size:20
Alignment explanation
Indices: 103730518--103730583 Score: 80
Period size: 20 Copynumber: 3.2 Consensus size: 20
103730508 CATACATAAT
103730518 ATGCCACAAAGGCTAGA-AGA
1 ATGCCACAAAGGCTA-ACAGA
* *
103730538 ATGCCATAAAGGCTAACAAA
1 ATGCCACAAAGGCTAACAGA
103730558 ATGTGCCACAAAGGCTAACAGA
1 A--TGCCACAAAGGCTAACAGA
103730580 ATGC
1 ATGC
103730584 ATTACAAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 1 0.03
20 20 0.51
22 18 0.46
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.14
Consensus pattern (20 bp):
ATGCCACAAAGGCTAACAGA
Found at i:103730570 original size:22 final size:22
Alignment explanation
Indices: 103730519--103730582 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
103730509 ATACATAATA
103730519 TGCCACAAAGGCTAGA-AGAA--
1 TGCCACAAAGGCTA-ACAGAATG
* *
103730539 TGCCATAAAGGCTAACAAAATG
1 TGCCACAAAGGCTAACAGAATG
103730561 TGCCACAAAGGCTAACAGAATG
1 TGCCACAAAGGCTAACAGAATG
103730583 CATTACAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.03
20 16 0.43
22 20 0.54
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (22 bp):
TGCCACAAAGGCTAACAGAATG
Found at i:103738657 original size:3 final size:3
Alignment explanation
Indices: 103738649--103738675 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
103738639 GAATTGAATT
103738649 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
103738676 GCCAGGTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:103747238 original size:2 final size:2
Alignment explanation
Indices: 103747226--103747255 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
103747216 ATTAAGATTT
*
103747226 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
103747256 AAAGAACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:103747328 original size:17 final size:17
Alignment explanation
Indices: 103747306--103747340 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
103747296 AGTTATTCAT
103747306 ATGCATTTAAATTAGAC
1 ATGCATTTAAATTAGAC
103747323 ATGCATTTAAATTAGAC
1 ATGCATTTAAATTAGAC
103747340 A
1 A
103747341 ACCATTTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (17 bp):
ATGCATTTAAATTAGAC
Found at i:103747346 original size:17 final size:17
Alignment explanation
Indices: 103747309--103747347 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
103747299 TATTCATATG
**
103747309 CATTTAAATTAGACATG
1 CATTTAAATTAGACAAC
103747326 CATTTAAATTAGACAAC
1 CATTTAAATTAGACAAC
103747343 CATTT
1 CATTT
103747348 GTCTAACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (17 bp):
CATTTAAATTAGACAAC
Found at i:103761963 original size:40 final size:41
Alignment explanation
Indices: 103761900--103761992 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 41
103761890 GCTGTGTAAG
* * * *
103761900 ACGCCTGTGTCCCAGGCCGTGTCAACCACACAGCT-GAGAC
1 ACGCCCGTGTCCCAAGCCATGTCAACCACACAGCTAGACAC
*
103761940 ACGCCCGTGTCCCAAGCCATGTCAACCACACGGCTAAGACAC
1 ACGCCCGTGTCCCAAGCCATGTCAACCACACAGCT-AGACAC
103761982 ACGCCCGTGTC
1 ACGCCCGTGTC
103761993 TCTGCCTGTG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 31 0.67
42 15 0.33
ACGTcount: A:0.24, C:0.40, G:0.23, T:0.14
Consensus pattern (41 bp):
ACGCCCGTGTCCCAAGCCATGTCAACCACACAGCTAGACAC
Found at i:103762944 original size:15 final size:15
Alignment explanation
Indices: 103762924--103762954 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
103762914 TTGGGCACTC
103762924 AATTTAGTCAAAAGG
1 AATTTAGTCAAAAGG
103762939 AATTTAGTCAAAAGG
1 AATTTAGTCAAAAGG
103762954 A
1 A
103762955 CTAAATTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.26
Consensus pattern (15 bp):
AATTTAGTCAAAAGG
Found at i:103786611 original size:40 final size:39
Alignment explanation
Indices: 103786574--103786665 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
103786564 GCTACTCGTT
*
103786574 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
103786614 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
103786653 CAAATGCCTTCGG
1 CAAATGCCTTCGG
103786666 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:103786645 original size:39 final size:40
Alignment explanation
Indices: 103786555--103786718 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
103786545 CGGAATTTAA
** *
103786555 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
103786595 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
103786634 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
103786674 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
103786714 CCGGA
1 CCGGA
103786719 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:103799225 original size:28 final size:29
Alignment explanation
Indices: 103799171--103799232 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 29
103799161 GAAAACGTAT
*
103799171 ATATGAATGTGATTTGGGCATAATGGGCC
1 ATATGAATGAGATTTGGGCATAATGGGCC
* *
103799200 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGAGATTTGGGCATAATGGGCC
103799228 ATATG
1 ATATG
103799233 CATGTATGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.27, C:0.11, G:0.32, T:0.29
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCATAATGGGCC
Found at i:103801249 original size:46 final size:46
Alignment explanation
Indices: 103801154--103801322 Score: 166
Period size: 46 Copynumber: 3.6 Consensus size: 46
103801144 AAATCGATGC
* * * *
103801154 CATGTCCCAGACATGGTCTTACACTGAC-TATCATCTCGTAGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTA-CGTCTC-AAGCCGTTG
103801201 CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCAAGGCCGTTG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCAA-GCCGTTG
* * * * *
103801247 CATGTCCCAGACAT-GTCTTACACTAGCCCT-CGTCTCAATCCCAATTC
1 CATGTCCCAGACATGGTCTTACACT-GGCTTACGTCTCAA-GCC-GTTG
*
103801294 CATGTCCCAGACATGGTCTTACATTGGCT
1 CATGTCCCAGACATGGTCTTACACTGGCT
103801323 CTCATAATGT
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
45 1 0.01
46 57 0.55
47 37 0.36
48 9 0.09
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCAAGCCGTTG
Found at i:103807473 original size:21 final size:22
Alignment explanation
Indices: 103807433--103807473 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
103807423 CACTTGACAT
*
103807433 AGGGGCAACATGCCCATGTGAA
1 AGGGGCAACACGCCCATGTGAA
*
103807455 AGGGGC-ACACGCCCGTGTG
1 AGGGGCAACACGCCCATGTG
103807474 GCCAATTCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.24, C:0.27, G:0.37, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCATGTGAA
Found at i:103808735 original size:46 final size:46
Alignment explanation
Indices: 103808647--103808768 Score: 149
Period size: 46 Copynumber: 2.6 Consensus size: 46
103808637 ATCTCAAATT
*
103808647 GATGCCATGTCCCAAACATGGTCTTACACTGACTATCATCTTGTAG-CC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCTTG-AGACC
* * *
103808695 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACTTCTTGAGATC
1 GATGCATGTCCCAGACATGTCTTACACTGACTAT-CATCTTGAGACC
*
103808741 GTTGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
103808769 AGCCCTTGTC
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
45 3 0.04
46 47 0.70
47 13 0.19
48 4 0.06
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGACTATCATCTTGAGACC
Found at i:103812112 original size:26 final size:26
Alignment explanation
Indices: 103812076--103812144 Score: 120
Period size: 26 Copynumber: 2.7 Consensus size: 26
103812066 CATTCTGACC
*
103812076 CACAGCTCGTGTGAGCAGGCCCATTT
1 CACAGCTCGTGTGAGCAGACCCATTT
103812102 CACAGCTCGTGTGAGCAGACCCATTT
1 CACAGCTCGTGTGAGCAGACCCATTT
*
103812128 CATAGCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
103812145 ATGATATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGACCCATTT
Found at i:103815399 original size:25 final size:25
Alignment explanation
Indices: 103815371--103815418 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
103815361 TTATAATATG
* * * *
103815371 AAAATGACTATTTTGCCTCTAGGTA
1 AAAATAACCATTTTACCCCTAGGTA
103815396 AAAATAACCATTTTACCCCTAGG
1 AAAATAACCATTTTACCCCTAGG
103815419 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.31
Consensus pattern (25 bp):
AAAATAACCATTTTACCCCTAGGTA
Found at i:103815596 original size:26 final size:25
Alignment explanation
Indices: 103815551--103815621 Score: 97
Period size: 26 Copynumber: 2.8 Consensus size: 25
103815541 GAGGAAGTGC
* *
103815551 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
**
103815576 AAAAGGGCTTTGGCCCCAGTTTATTA
1 AAAAGGGCTTT-GCCCCAGTTTACCA
103815602 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
103815622 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 19 0.46
26 22 0.54
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:103815644 original size:25 final size:24
Alignment explanation
Indices: 103815551--103815648 Score: 81
Period size: 25 Copynumber: 3.9 Consensus size: 24
103815541 GAGGAAGTGC
* ***
103815551 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTAGGCCCCAG-TTATTA
*
103815576 AAAAGGGCTTTGGCCCCAGTTTATTA
1 AAAAGGGC-TAGGCCCCAG-TTATTA
**
103815602 AAAAGGGCTTTGCCCCAGTTATT-
1 AAAAGGGCTAGGCCCCAGTTATTA
103815625 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTAGGCC-CCAGTTAT
103815649 ATGTTAAAGC
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
23 5 0.08
24 12 0.19
25 25 0.40
26 20 0.32
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTAGGCCCCAGTTATTA
Found at i:103815879 original size:31 final size:31
Alignment explanation
Indices: 103815841--103815924 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
103815831 TTGTTACAGT
103815841 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
103815872 AAAGGCTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
103815903 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
103815925 CTGAGATTGA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:103818102 original size:43 final size:43
Alignment explanation
Indices: 103818030--103818177 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
103818020 CAATTCCATA
* **** * *
103818030 TCCCAGATATGGTCTTACATGTCATCATATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACAAAATCATATAACGATGCCAATG
* *
103818073 TCCTAGACATTGTCTTACACAAAATCATATAACGATGCCAATG
1 TCCCAGACATGGTCTTACACAAAATCATATAACGATGCCAATG
*** * * *
103818116 TCCCAGACATGGTCTTACATGTAATCACA-ATACAACGCCAATG
1 TCCCAGACATGGTCTTACACAAAATCATATA-ACGATGCCAATG
*
103818159 TCCCAGACATAGTCTTACA
1 TCCCAGACATGGTCTTACA
103818178 TGTAATCACC
Statistics
Matches: 86, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 1 0.01
43 85 0.99
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACAAAATCATATAACGATGCCAATG
Found at i:103819667 original size:27 final size:27
Alignment explanation
Indices: 103819632--103819687 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
103819622 AAATTAAAAC
*
103819632 AAAATAAAAATAAAAGT-AATGTTCTAA
1 AAAATAAAAATAAAA-TCAATGTCCTAA
103819659 AAAATAAAAATAAAATCAATGTCCTAA
1 AAAATAAAAATAAAATCAATGTCCTAA
103819686 AA
1 AA
103819688 TAAAGAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.23
Consensus pattern (27 bp):
AAAATAAAAATAAAATCAATGTCCTAA
Found at i:103820411 original size:6 final size:6
Alignment explanation
Indices: 103820381--103820536 Score: 115
Period size: 6 Copynumber: 25.3 Consensus size: 6
103820371 AAGAAACATT
* * *
103820381 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
103820430 ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
* * *
103820479 ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
103820529 ATCAGA AT
1 ATCAGA AT
103820537 GTGAATGCAA
Statistics
Matches: 118, Mismatches: 18, Indels: 28
0.72 0.11 0.17
Matches are distributed among these distances:
5 8 0.07
6 93 0.79
7 13 0.11
8 4 0.03
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:103820439 original size:31 final size:31
Alignment explanation
Indices: 103820404--103820536 Score: 239
Period size: 31 Copynumber: 4.3 Consensus size: 31
103820394 TCAAAATGAG
* * *
103820404 AATCAGAATCAGAATCAGGTGACAGAATCAG
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
103820435 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
103820466 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
103820497 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
103820528 AATCAGAAT
1 AATCAGAAT
103820537 GTGAATGCAA
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 99 1.00
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (31 bp):
AATCAGAATCAGTATCAGGTAACAGAATCAA
Found at i:103820723 original size:26 final size:26
Alignment explanation
Indices: 103820654--103820733 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
103820644 AGCATGGCTG
* *
103820654 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
* *
103820680 ACAGATACAGATATTGTGGTAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
103820707 CCAGAACAGATAATGTGGCAAAGCCA
1 CCAGAACAGATATTGTGGCAGAGCCA
103820733 C
1 C
103820734 TTAACAGAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
26 23 0.51
27 22 0.49
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:103821414 original size:27 final size:27
Alignment explanation
Indices: 103821384--103821904 Score: 515
Period size: 27 Copynumber: 19.3 Consensus size: 27
103821374 GGGGCAAAAT
* *
103821384 GGTAATTTTACCCTATAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
103821411 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
*
103821438 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
103821465 GGTAATTCTATCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
103821492 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
103821519 GAT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
103821546 GGT-ATTTCTATCCTAC-AGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
** * *
103821572 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
103821599 GGTATTTTTACCCTACAAGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
103821626 GGT-ATTTCTACCTTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
103821653 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
103821680 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
103821707 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
103821734 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
103821761 AGTAATTCTACCCTAC-AGGGTTATTTC
1 GGTAATTTTACCCTACAAGGG-TATTTC
103821788 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
** * *
103821815 -AAAATTTCAACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
103821842 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
103821869 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
**
103821896 AATAATTTT
1 GGTAATTTT
103821905 GTAAATCGAG
Statistics
Matches: 415, Mismatches: 64, Indels: 30
0.82 0.13 0.06
Matches are distributed among these distances:
26 36 0.09
27 363 0.87
28 16 0.04
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:103821450 original size:54 final size:54
Alignment explanation
Indices: 103821388--103821895 Score: 653
Period size: 54 Copynumber: 9.4 Consensus size: 54
103821378 CAAAATGGTA
* * * *
103821388 ATTT-TACCCTATAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCAGT
* * *
103821441 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTTAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCAGT
* * * * *
103821495 AATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCAGT
* ** * *
103821549 ATTTCTATCCTAC-AGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCAGT
* * *
103821602 ATTTTTACCCTACAAGGGTATTTTGGTATTTCTACCTTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCAGT
* * * * *
103821656 AATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCAGT
*
103821710 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCAGT
* * **
103821764 AATTCTACCCTAC-AGGGTTATTTCGGTATTTCTACCCTACAAGGGTATTTCAAA
1 ATTTCTACCCTACAAGGG-TATTTCGGTATTTCTACCCTACAGGGGTATTTCAGT
* * * *
103821818 ATTTCAACCCTACAAGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCAGT
* * *
103821872 AATTCTACCCTATAGGGGTATTTC
1 ATTTCTACCCTACAAGGGTATTTC
103821896 AATAATTTTG
Statistics
Matches: 396, Mismatches: 55, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
53 55 0.14
54 337 0.85
55 4 0.01
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCAGT
Found at i:103821918 original size:81 final size:81
Alignment explanation
Indices: 103821413--103821902 Score: 727
Period size: 81 Copynumber: 6.1 Consensus size: 81
103821403 GGTATCTCGG
* * *
103821413 TAATTCTACCCTACAGGGGTATTTTAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCC
1 TAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCC
* *
103821478 TACAGGGGTATTTTAG
66 TACAGGGGTATTTCAA
*
103821494 TAATTCTACCCTACAGGGGTATTTC-GATATTTCTACCCTACAAGGGTATTTCGGTATTTCTATC
1 TAATTCTACCCTACAGGGGTATTTCAG-TATTTCTACCCTACAAGGGTATTTCGGTATTTCTACC
103821558 CTACA-GGGTATTTCAA
65 CTACAGGGGTATTTCAA
* * * *
103821574 TAATTCTACCCTACAGGGGTATTTCGGTATTTTTACCCTACAAGGGTATTTTGGTATTTCTACCT
1 TAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCC
*
103821639 TACAGGGGTATTTCAG
66 TACAGGGGTATTTCAA
103821655 TAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCC
* **
103821720 TACAAGGGTATTTCGG
66 TACAGGGGTATTTCAA
*
103821736 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTAC-AGGGTTATTTCGGTATTTCTACC
1 TAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGG-TATTTCGGTATTTCTACC
*
103821800 CTACAAGGGTATTTCAA
65 CTACAGGGGTATTTCAA
* * ** *
103821817 -AATTTCAACCCTACAAGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
1 TAA-TTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACC
*
103821881 CTATAGGGGTATTTCAA
65 CTACAGGGGTATTTCAA
103821898 TAATT
1 TAATT
103821903 TTGTAAATCG
Statistics
Matches: 376, Mismatches: 26, Indels: 14
0.90 0.06 0.03
Matches are distributed among these distances:
80 79 0.21
81 291 0.77
82 6 0.02
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCC
TACAGGGGTATTTCAA
Found at i:103821994 original size:82 final size:81
Alignment explanation
Indices: 103821887--103822305 Score: 318
Period size: 81 Copynumber: 5.3 Consensus size: 81
103821877 TACCCTATAG
* ** * * *
103821887 GGGTATTTCAATAATTTTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATTGGGGGTACTTT-G
1 GGGTATTTCAGTAATTTTACAAATCGAGGGTAAAATAGTAATTTTGCAAATTGAGGGTA-TTTCG
*
103821951 ATAATTTTTACAAGTCGA
65 ATAA-TTTTACAAATCGA
* ***
103821969 GGGTATTTTAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGCAAATTGAGGGTATTTCGA
1 GGGTATTTCAGTAATTTTACAAATCGAGGGTAAAATAGTAATTTTGCAAATTGAGGGTATTTCGA
103822034 TAATTTTACAAATCGA
66 TAATTTTACAAATCGA
* ** * * *
103822050 GGGTATTTCAGTAATTTTAC-AAT-GAATGGT-ATTTCGATAATTTTACAAATCGAGGGTATTTC
1 GGGTATTTCAGTAATTTTACAAATCG-AGGGTAAAATAG-TAATTTTGCAAATTGAGGGTATTTC
*
103822112 -AGTAATTTTAC-AATCAA
64 GA-TAATTTTACAAATCGA
** * * * ** * * *
103822129 CAGTATTTCGGTAA-TTT-GATAT-TTGGGT--AAT--T--TTAT--AAATCGGGGGTACTTT-G
1 GGGTATTTCAGTAATTTTACAAATCGAGGGTAAAATAGTAATTTTGCAAATTGAGGGTA-TTTCG
* *
103822182 GTAATTTTACAAGTCGA
65 ATAATTTTACAAATCGA
*** * * * *
103822199 GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAACTGAAGGTATTTCGG
1 GGGTATTTCAGTAATTTTACAAATCGAGGGTAAAATAGTAATTTTGCAAATTGAGGGTATTTCGA
103822264 TAATTTTACAAATCGA
66 TAATTTTACAAATCGA
103822280 GGGTATTTCAGTAATTTTAC-AATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
103822306 TGCTATTTCG
Statistics
Matches: 269, Mismatches: 48, Indels: 42
0.75 0.13 0.12
Matches are distributed among these distances:
69 20 0.07
70 18 0.07
71 6 0.02
72 3 0.01
73 5 0.02
75 1 0.00
76 1 0.00
77 4 0.01
78 5 0.02
79 25 0.09
80 48 0.18
81 79 0.29
82 54 0.20
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAATCGAGGGTAAAATAGTAATTTTGCAAATTGAGGGTATTTCGA
TAATTTTACAAATCGA
Found at i:103822090 original size:26 final size:27
Alignment explanation
Indices: 103821887--103822401 Score: 284
Period size: 27 Copynumber: 19.6 Consensus size: 27
103821877 TACCCTATAG
* **
103821887 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCGATAATTTTACAAATCGA
** * ** * *
103821914 GGGTAAAAT-GGTAATTTTGTAAATTGG
1 GGGT-ATTTCGATAATTTTACAAATCGA
*
103821941 GGGTACTTT-GATAATTTTTACAAGTCGA
1 GGGTA-TTTCGATAA-TTTTACAAATCGA
*
103821969 GGGTATTT-TAGTAATTTTACAAATCGA
1 GGGTATTTCGA-TAATTTTACAAATCGA
* * *
103821996 GGGTATTT-TAGTAATTTTGCAAATTGA
1 GGGTATTTCGA-TAATTTTACAAATCGA
103822023 GGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTCGATAATTTTACAAATCGA
103822050 GGGTATTTC-AGTAATTTTAC-AAT-GAA
1 GGGTATTTCGA-TAATTTTACAAATCG-A
*
103822076 TGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTCGATAATTTTACAAATCGA
*
103822103 GGGTATTTC-AGTAATTTTAC-AATCAA
1 GGGTATTTCGA-TAATTTTACAAATCGA
** * * * **
103822129 CAGTATTTCGGTAA-TTT-GATAT-TT
1 GGGTATTTCGATAATTTTACAAATCGA
*
103822153 GGGTAATTT---T-A---T--AAATCGG
1 GGGT-ATTTCGATAATTTTACAAATCGA
* *
103822172 GGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCGATAATTTTACAAATCGA
103822199 GGGTATTTC-AGTAATTTTACAAATCGA
1 GGGTATTTCGA-TAATTTTACAAATCGA
*
103822226 GGGTATTT-TAGTAATTTTACAAA-CTGA
1 GGGTATTTCGA-TAATTTTACAAATC-GA
* *
103822253 AGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGATAATTTTACAAATCGA
103822280 GGGTATTTC-AGTAATTTTAC-AATCGA
1 GGGTATTTCGA-TAATTTTACAAATCGA
* * *
103822306 TGCTATTTCGGTAATTTTAC-AATCGA
1 GGGTATTTCGATAATTTTACAAATCGA
* * * * *
103822332 TGCTATTTCGGTAATTTTATAAA-CTGG
1 GGGTATTTCGATAATTTTACAAATC-GA
* * *
103822359 GGGTACTTTAG-TAATTTTACAACT-GG
1 GGGTA-TTTCGATAATTTTACAAATCGA
103822385 GGGTATTTC-AGTAATTT
1 GGGTATTTCGA-TAATTT
103822402 GGTAAACTAA
Statistics
Matches: 394, Mismatches: 56, Indels: 77
0.75 0.11 0.15
Matches are distributed among these distances:
18 4 0.01
19 8 0.02
21 2 0.01
22 2 0.01
24 2 0.01
25 14 0.04
26 104 0.26
27 233 0.59
28 25 0.06
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAATCGA
Found at i:103822121 original size:27 final size:27
Alignment explanation
Indices: 103821956--103822401 Score: 382
Period size: 27 Copynumber: 17.1 Consensus size: 27
103821946 CTTTGATAAT
* *
103821956 TTTTACAAGTCGAGGGTATTTTAGTAA
1 TTTTACAAATCGAGGGTATTTCAGTAA
*
103821983 TTTTACAAATCGAGGGTATTTTAGTAA
1 TTTTACAAATCGAGGGTATTTCAGTAA
* *
103822010 TTTTGCAAATTGAGGGTATTTC-GATAA
1 TTTTACAAATCGAGGGTATTTCAG-TAA
103822037 TTTTACAAATCGAGGGTATTTCAGTAA
1 TTTTACAAATCGAGGGTATTTCAGTAA
*
103822064 TTTTAC-AAT-GAATGGTATTTC-GATAA
1 TTTTACAAATCG-AGGGTATTTCAG-TAA
103822090 TTTTACAAATCGAGGGTATTTCAGTAA
1 TTTTACAAATCGAGGGTATTTCAGTAA
* ** *
103822117 TTTTAC-AATCAACAGTATTTCGGTAA
1 TTTTACAAATCGAGGGTATTTCAGTAA
* * **
103822143 -TTT-GATAT-TTGGGTAATTT---T-A
1 TTTTACAAATCGAGGGT-ATTTCAGTAA
* *
103822164 ---T--AAATCGGGGGTACTTT-GGTAA
1 TTTTACAAATCGAGGGTA-TTTCAGTAA
*
103822186 TTTTACAAGTCGAGGGTATTTCAGTAA
1 TTTTACAAATCGAGGGTATTTCAGTAA
*
103822213 TTTTACAAATCGAGGGTATTTTAGTAA
1 TTTTACAAATCGAGGGTATTTCAGTAA
* *
103822240 TTTTACAAA-CTGAAGGTATTTCGGTAA
1 TTTTACAAATC-GAGGGTATTTCAGTAA
103822267 TTTTACAAATCGAGGGTATTTCAGTAA
1 TTTTACAAATCGAGGGTATTTCAGTAA
* * *
103822294 TTTTAC-AATCGATGCTATTTCGGTAA
1 TTTTACAAATCGAGGGTATTTCAGTAA
* * *
103822320 TTTTAC-AATCGATGCTATTTCGGTAA
1 TTTTACAAATCGAGGGTATTTCAGTAA
* *
103822346 TTTTATAAA-CTGGGGGTACTTT-AGTAA
1 TTTTACAAATC-GAGGGTA-TTTCAGTAA
* *
103822373 TTTTACAACT-GGGGGTATTTCAGTAA
1 TTTTACAAATCGAGGGTATTTCAGTAA
103822399 TTT
1 TTT
103822402 GGTAAACTAA
Statistics
Matches: 351, Mismatches: 41, Indels: 55
0.79 0.09 0.12
Matches are distributed among these distances:
18 4 0.01
19 8 0.02
21 2 0.01
22 2 0.01
24 2 0.01
25 15 0.04
26 106 0.30
27 205 0.58
28 7 0.02
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
TTTTACAAATCGAGGGTATTTCAGTAA
Found at i:103822244 original size:123 final size:123
Alignment explanation
Indices: 103822034--103822269 Score: 329
Period size: 123 Copynumber: 1.9 Consensus size: 123
103822024 GGTATTTCGA
*
103822034 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATGAATGGTATTTCGATAATTTTACAAA
1 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATGAAGGGTATTTCGATAATTTTACAAA
103822099 TCGAGGGTATTTCAGTAATTTTAC-AA-TCAACAGTATTTCGGTAATTTGATATTTGGG
66 TCGAGGGTATTTCAGTAATTTTACAAACTCAA-AGTATTTCGGTAATTTGATATTTGGG
* * *
103822156 TAATTTTATAAATCGGGGGTACTTT-GGTAATTTTACAAGTCG-AGGGTATTTC-AGTAATTTTA
1 TAATTTTACAAATCGAGGGTA-TTTCAGTAATTTTACAA-T-GAAGGGTATTTCGA-TAATTTTA
* * *
103822218 CAAATCGAGGGTATTTTAGTAATTTTACAAACTGAAGGTATTTCGGTAATTT
62 CAAATCGAGGGTATTTCAGTAATTTTACAAACTCAAAGTATTTCGGTAATTT
103822270 TACAAATCGA
Statistics
Matches: 101, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
122 32 0.32
123 48 0.48
124 18 0.18
125 3 0.03
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (123 bp):
TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATGAAGGGTATTTCGATAATTTTACAAA
TCGAGGGTATTTCAGTAATTTTACAAACTCAAAGTATTTCGGTAATTTGATATTTGGG
Found at i:103822322 original size:203 final size:204
Alignment explanation
Indices: 103821952--103822348 Score: 531
Period size: 203 Copynumber: 2.0 Consensus size: 204
103821942 GGTACTTTGA
* * *
103821952 TAATTTTTACAAGTCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGCA
1 TAATTTTTACAAGTCGAGGGTACTTTAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACA
* * * *
103822017 AATTGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATGAATGGTAT
66 AATCGAGGGTATTTAGATAATTTTACAAATCGAAGGTATTTCAGTAATTTTACAATGAAGGGTAT
*
103822082 TTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCAACAG-TATTTCGGTAATTT
131 TTCGATAATTTTACAAATCGAGGCTATTTCAGTAATTTTACAATCAA-AGCTATTTCGGTAATTT
103822146 GATATTTGGG
195 GATATTTGGG
* * *
103822156 TAATTTTATA-AA-TCGGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTAC
1 TAATTTT-TACAAGTCGAGGGTACTTTAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAC
*
103822219 AAATCGAGGGTATTTTAG-TAATTTTACAAA-CTGAAGGTATTTCGGTAATTTTACAAATCG-AG
65 AAATCGAGGGTA-TTTAGATAATTTTACAAATC-GAAGGTATTTCAGTAATTTTAC-AAT-GAAG
* * * *
103822281 GGTATTTC-AGTAATTTTAC-AATCGATGCTATTTCGGTAATTTTACAATCGATGCTATTTCGGT
126 GGTATTTCGA-TAATTTTACAAATCGAGGCTATTTCAGTAATTTTACAATCAAAGCTATTTCGGT
103822344 AATTT
190 AATTT
103822349 TATAAACTGG
Statistics
Matches: 170, Mismatches: 16, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
202 2 0.01
203 131 0.77
204 34 0.20
205 3 0.02
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (204 bp):
TAATTTTTACAAGTCGAGGGTACTTTAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACA
AATCGAGGGTATTTAGATAATTTTACAAATCGAAGGTATTTCAGTAATTTTACAATGAAGGGTAT
TTCGATAATTTTACAAATCGAGGCTATTTCAGTAATTTTACAATCAAAGCTATTTCGGTAATTTG
ATATTTGGG
Found at i:103822327 original size:230 final size:230
Alignment explanation
Indices: 103821923--103822350 Score: 707
Period size: 230 Copynumber: 1.9 Consensus size: 230
103821913 AGGGTAAAAT
* * *
103821923 GGTAATTTTGTAAATTGGGGGTACTTTGATAATTTTTACAAGTCGAGGGTATTTTAGTAATTTTA
1 GGTAATTTTATAAATCGGGGGTACTTTGATAATTTTTACAAGTCGAGGGTATTTCAGTAATTTTA
* * *
103821988 CAAATCGAGGGTATTTTAGTAATTTTGCAAATTGAGGGTATTTCGATAATTTTACAAATCGAGGG
66 CAAATCGAGGGTATTTTAGTAATTTTACAAACTGAAGGTATTTCGATAATTTTACAAATCGAGGG
* *
103822053 TATTTCAGTAATTTTACAATGAATGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAAT
131 TATTTCAGTAATTTTACAATGAATGCTATTTCGATAATTTTAC-AATCGAGGCTATTTCAGTAAT
103822118 TTTACAATCAACAGTATTTCGGTAATTTGATATTTG
195 TTTACAATCAACAGTATTTCGGTAATTTGATATTTG
*
103822154 GGTAATTTTATAAATCGGGGGTACTTTGGTAA-TTTTACAAGTCGAGGGTATTTCAGTAATTTTA
1 GGTAATTTTATAAATCGGGGGTACTTTGATAATTTTTACAAGTCGAGGGTATTTCAGTAATTTTA
*
103822218 CAAATCGAGGGTATTTTAGTAATTTTACAAACTGAAGGTATTTCGGTAATTTTACAAATCGAGGG
66 CAAATCGAGGGTATTTTAGTAATTTTACAAACTGAAGGTATTTCGATAATTTTACAAATCGAGGG
* * *
103822283 TATTTCAGTAATTTTACAATCG-ATGCTATTTCGGTAATTTTACAATCGATGCTATTTCGGTAAT
131 TATTTCAGTAATTTTACAAT-GAATGCTATTTCGATAATTTTACAATCGAGGCTATTTCAGTAAT
103822347 TTTA
195 TTTA
103822351 TAAACTGGGG
Statistics
Matches: 183, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
229 22 0.12
230 131 0.72
231 30 0.16
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (230 bp):
GGTAATTTTATAAATCGGGGGTACTTTGATAATTTTTACAAGTCGAGGGTATTTCAGTAATTTTA
CAAATCGAGGGTATTTTAGTAATTTTACAAACTGAAGGTATTTCGATAATTTTACAAATCGAGGG
TATTTCAGTAATTTTACAATGAATGCTATTTCGATAATTTTACAATCGAGGCTATTTCAGTAATT
TTACAATCAACAGTATTTCGGTAATTTGATATTTG
Found at i:103824921 original size:40 final size:40
Alignment explanation
Indices: 103824866--103825132 Score: 331
Period size: 40 Copynumber: 6.5 Consensus size: 40
103824856 TATTCGGATG
*
103824866 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
103824906 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
103824949 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
103824989 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
103825032 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
103825072 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAG-TAGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CT
*
103825112 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
103825133 ATACTTGGGT
Statistics
Matches: 197, Mismatches: 23, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
39 14 0.07
40 110 0.56
41 1 0.01
43 72 0.37
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:103825009 original size:83 final size:83
Alignment explanation
Indices: 103824870--103825111 Score: 448
Period size: 83 Copynumber: 2.9 Consensus size: 83
103824860 CGGATGATAT
* * * *
103824870 CCGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTG
103824935 TGCGAGTAGTTGCTATAC
66 TGCGAGTAGTTGCTATAC
103824953 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTG
103825018 TGCGAGTAGTTGCTATAC
66 TGCGAGTAGTTGCTATAC
103825036 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTG
103825101 TGCGAGTAGTT
66 TGCGAGTAGTT
103825112 ATATCCGGCT
Statistics
Matches: 155, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 155 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (83 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTG
TGCGAGTAGTTGCTATAC
Found at i:103825115 original size:123 final size:121
Alignment explanation
Indices: 103824866--103825132 Score: 362
Period size: 123 Copynumber: 2.2 Consensus size: 121
103824856 TATTCGGATG
* *
103824866 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATACCCGGGCTAAGTCCCGAAGGCA
* *
103824931 TTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
66 TTTGTGC--GTAGTTGCTATACCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
103824989 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACTATACCCGGGCTAAGTCCCGAAG
* *
103825054 GCATTTGTGC-TAG-TGACTATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGT-AGTT
63 GCATTTGTGCGTAGTTG-CTATACCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTGA-CT
*
103825112 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
103825133 ATACTTGGGT
Statistics
Matches: 129, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
122 16 0.12
123 75 0.58
124 1 0.01
126 37 0.29
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (121 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATACCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGTAGTTGCTATACCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:103827950 original size:23 final size:22
Alignment explanation
Indices: 103827924--103827971 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
103827914 GATTTAGCCA
*
103827924 TTTTTTAATTTTTACTTTAATAT
1 TTTTTTAATTTTTAATTTAAT-T
**
103827947 TTTTTTTGTTTTTAATTTAATT
1 TTTTTTAATTTTTAATTTAATT
103827969 TTT
1 TTT
103827972 ACATTCTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTTTTAATTTTTAATTTAATT
Found at i:103827984 original size:13 final size:12
Alignment explanation
Indices: 103827927--103827985 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
103827917 TTAGCCATTT
*
103827927 TTTAATTTTTAC
1 TTTAATTTTTAA
103827939 TTTAATATTTT--
1 TTTAAT-TTTTAA
**
103827950 TTTTGTTTTTAA
1 TTTAATTTTTAA
103827962 TTTAATTTTTACA
1 TTTAATTTTTA-A
103827975 TTCTAATTTTT
1 TT-TAATTTTT
103827986 TTCATTTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 4 0.11
11 4 0.11
12 15 0.39
13 7 0.18
14 8 0.21
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTAATTTTTAA
Found at i:103835386 original size:13 final size:13
Alignment explanation
Indices: 103835368--103835395 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
103835358 CTAAGCCACC
103835368 TCACACGGGCATG
1 TCACACGGGCATG
103835381 TCACACGGGCATG
1 TCACACGGGCATG
103835394 TC
1 TC
103835396 CTTGTCGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.32, G:0.29, T:0.18
Consensus pattern (13 bp):
TCACACGGGCATG
Found at i:103837420 original size:40 final size:40
Alignment explanation
Indices: 103837337--103837599 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
103837327 TTGAATGCTG
* * * * * *
103837337 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
103837377 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
103837417 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
103837457 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
103837497 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
103837537 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
103837576 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
103837600 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:103837619 original size:79 final size:80
Alignment explanation
Indices: 103837376--103837634 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
103837366 AAGTGAATAT
* * * * * *
103837376 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
103837440 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
103837456 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
103837521 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
103837536 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
103837600 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
103837615 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
103837635 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:103845372 original size:40 final size:40
Alignment explanation
Indices: 103845289--103845551 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
103845279 TTGAATGCTG
* * * * * *
103845289 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
103845329 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
103845369 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
103845409 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
103845449 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
103845489 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
103845528 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
103845552 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:103845571 original size:79 final size:80
Alignment explanation
Indices: 103845328--103845586 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
103845318 AAGTGAATAT
* * * * * *
103845328 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
103845392 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
103845408 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
103845473 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
103845488 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
103845552 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
103845567 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
103845587 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:103848324 original size:25 final size:27
Alignment explanation
Indices: 103848296--103848347 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
103848286 TTAAAGAGAG
*
103848296 ACCACATAAAA-GA-AATATGGTAAAT
1 ACCACATAAAATAACAATATGGTAAAT
*
103848321 ACCATATAAAATAACAATATGGTAAAT
1 ACCACATAAAATAACAATATGGTAAAT
103848348 TTCTTAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 10 0.43
26 1 0.04
27 12 0.52
ACGTcount: A:0.56, C:0.12, G:0.10, T:0.23
Consensus pattern (27 bp):
ACCACATAAAATAACAATATGGTAAAT
Found at i:103850425 original size:11 final size:12
Alignment explanation
Indices: 103850409--103850437 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
103850399 TTGTTCTCCC
103850409 TTTATTTTA-TA
1 TTTATTTTATTA
103850420 TTTATTTTATTA
1 TTTATTTTATTA
103850432 TTTATT
1 TTTATT
103850438 ATTCTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTATTTTATTA
Found at i:103850457 original size:24 final size:26
Alignment explanation
Indices: 103850410--103850457 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
103850400 TGTTCTCCCT
* *
103850410 TTATTTTATATTTATTTTATTATTTA
1 TTATTCTATATTTATTTTAGTATTTA
103850436 TTATTCTA-ATTT-TTTTAGTATT
1 TTATTCTATATTTATTTTAGTATT
103850458 ATTTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 4 0.20
26 7 0.35
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (26 bp):
TTATTCTATATTTATTTTAGTATTTA
Found at i:103856706 original size:48 final size:48
Alignment explanation
Indices: 103856625--103856852 Score: 229
Period size: 48 Copynumber: 4.9 Consensus size: 48
103856615 GTCGATGCCA
* *
103856625 ATGCCAATGTCATGTCCTAGACATGGTCTTACATGGGATCGTAGATTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGATTG
* * *
103856673 ATGCGAATGCCATGTCCCAGACTTGGTCTTACATGGGTTTC-TAGATTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGG-ATCGTAGATTG
* * *
103856721 ATGCCAATGCCACGTCCCAAACATGGTCTTACATGGGATTGTAGATTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGATTG
* ** *** *
103856769 ATGCCAAT---A-G-CCTAG-CTATGGTCTTACATGAAATTACATATTG
1 ATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCGTAGATTG
*
103856812 ATGCCAAAGCCATGTCCC-GAACATGGTCTTACATGGGATCG
1 ATGCCAATGCCATGTCCCAG-ACATGGTCTTACATGGGATCG
103856853 CATATAACCT
Statistics
Matches: 146, Mismatches: 24, Indels: 20
0.77 0.13 0.11
Matches are distributed among these distances:
42 1 0.01
43 31 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 3 0.02
48 105 0.72
49 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGATTG
Found at i:103856835 original size:91 final size:94
Alignment explanation
Indices: 103856645--103856852 Score: 255
Period size: 91 Copynumber: 2.2 Consensus size: 94
103856635 CATGTCCTAG
* **
103856645 ACATGGTCTTACATGGGATCGTAGATTGATGCGAATGCCATGTCCCAGACTTGGTCTTACATGGG
1 ACATGGTCTTACATGGGATCGTAGATTGATGCCAAT--CATGTCCCAGACTTGGTCTTACATGAA
* *
103856710 TTTCTAGATTGATGCCAATGCCACGTCCCAA
64 TTACTAGATTGATGCCAAAGCCACGTCCCAA
* *
103856741 ACATGGTCTTACATGGGATTGTAGATTGATGCCAAT-A-G-CCTAG-CTATGGTCTTACATGAAA
1 ACATGGTCTTACATGGGATCGTAGATTGATGCCAATCATGTCCCAGACT-TGGTCTTACATG-AA
* * *
103856802 TTAC-ATATTGATGCCAAAGCCATGTCCCGA
64 TTACTAGATTGATGCCAAAGCCACGTCCCAA
103856832 ACATGGTCTTACATGGGATCG
1 ACATGGTCTTACATGGGATCG
103856853 CATATAACCT
Statistics
Matches: 99, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
90 2 0.02
91 58 0.59
92 4 0.04
93 1 0.01
96 34 0.34
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (94 bp):
ACATGGTCTTACATGGGATCGTAGATTGATGCCAATCATGTCCCAGACTTGGTCTTACATGAATT
ACTAGATTGATGCCAAAGCCACGTCCCAA
Found at i:103856857 original size:48 final size:47
Alignment explanation
Indices: 103856570--103856854 Score: 208
Period size: 48 Copynumber: 5.9 Consensus size: 47
103856560 CACATGGTAG
* * *
103856570 GATGCCAATGCCATATCCCGAATATGGTCTTACATGGGATCAC-G-TGT
1 GATGCCAATGCCATGTCCC-AACATGGTCTTACATGGGATCGCAGAT-T
*
103856617 CGATGCCAATGCCAATGTCATGTCCTAGACATGGTCTTACATGGGATCGTAGATT
1 -GATGCCAATGCC-ATGTC----CC-A-ACATGGTCTTACATGGGATCGCAGATT
* * * *
103856672 GATGCGAATGCCATGTCCCAGACTTGGTCTTACATGGGTTTC-TAGATT
1 GATGCCAATGCCATGTCCCA-ACATGGTCTTACATGGG-ATCGCAGATT
* * *
103856720 GATGCCAATGCCACGTCCCAAACATGGTCTTACATGGGATTGTAGATT
1 GATGCCAATGCCATGTCCC-AACATGGTCTTACATGGGATCGCAGATT
* * ** ** *
103856768 GATGCCAAT---A-G-CCTAGCTATGGTCTTACATGAAATTACATATT
1 GATGCCAATGCCATGTCCCAAC-ATGGTCTTACATGGGATCGCAGATT
*
103856811 GATGCCAAAGCCATGTCCCGAACATGGTCTTACATGGGATCGCA
1 GATGCCAATGCCATGTCCC-AACATGGTCTTACATGGGATCGCA
103856855 TATAACCTTA
Statistics
Matches: 192, Mismatches: 27, Indels: 36
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.01
43 30 0.16
44 1 0.01
45 1 0.01
46 1 0.01
47 2 0.01
48 103 0.54
49 11 0.06
53 8 0.04
54 30 0.16
55 2 0.01
56 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (47 bp):
GATGCCAATGCCATGTCCCAACATGGTCTTACATGGGATCGCAGATT
Found at i:103858558 original size:48 final size:48
Alignment explanation
Indices: 103858505--103858728 Score: 421
Period size: 48 Copynumber: 4.7 Consensus size: 48
103858495 GCCTACATAT
*
103858505 TTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACAGAC
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAGAC
103858553 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAGAC
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAGAC
103858601 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAGAC
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAGAC
* *
103858649 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAGAC
103858697 TTCACATTAGCCATTCGGCTTTACCACATATA
1 TTCACATTAGCCATTCGGCTTTACCACATATA
103858729 TNNNNNNNNN
Statistics
Matches: 173, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 173 1.00
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAGAC
Found at i:103866101 original size:24 final size:25
Alignment explanation
Indices: 103866068--103866132 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 25
103866058 TCTATTTTCA
* *
103866068 TTTTATTTGTTTTATTTA-TGTTAT
1 TTTTAGTTGTTTTATTTATTGTTAG
* ** *
103866092 TTTTGGTTGTACT-TTTATTTTTAG
1 TTTTAGTTGTTTTATTTATTGTTAG
103866116 TTTTAGTTGTTTTATTT
1 TTTTAGTTGTTTTATTT
103866133 TGATTTGTGA
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
23 4 0.13
24 23 0.77
25 3 0.10
ACGTcount: A:0.14, C:0.02, G:0.12, T:0.72
Consensus pattern (25 bp):
TTTTAGTTGTTTTATTTATTGTTAG
Found at i:103871982 original size:16 final size:16
Alignment explanation
Indices: 103871961--103871994 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
103871951 CAACATATGT
103871961 TAAAACAAACTATATA
1 TAAAACAAACTATATA
103871977 TAAAACAAACTATATA
1 TAAAACAAACTATATA
103871993 TA
1 TA
103871995 TACAGAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAACAAACTATATA
Found at i:103894620 original size:20 final size:20
Alignment explanation
Indices: 103894595--103894635 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
103894585 TTACTTCTCG
103894595 TAACCAAAACTCGCACTTAC
1 TAACCAAAACTCGCACTTAC
103894615 TAACCAAAACTCGCACTTAC
1 TAACCAAAACTCGCACTTAC
103894635 T
1 T
103894636 GAACTTGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.34, G:0.05, T:0.22
Consensus pattern (20 bp):
TAACCAAAACTCGCACTTAC
Found at i:103901412 original size:40 final size:39
Alignment explanation
Indices: 103901360--103901557 Score: 220
Period size: 40 Copynumber: 5.0 Consensus size: 39
103901350 GTAAAAGTGA
* *
103901360 ATTTAGGAGTATCATAGTACAAATAGGGGCACGTATGTGC
1 ATTTAGGGGTATCA-AGTACAAATAGGGGCACTTATGTGC
* *
103901400 ATTTAGGGGTATCAAAGTACAAATAGGAGCACTTAGGTGC
1 ATTTAGGGGTATC-AAGTACAAATAGGGGCACTTATGTGC
* * * *
103901440 ATTCA-GGGTACTGAAGTACAAACAAGGGCACTTATGTGC
1 ATTTAGGGGTA-TCAAGTACAAATAGGGGCACTTATGTGC
* *
103901479 ATTCAGGGGTATCGAAGTACAAACAGGGGCACTTATGTGC
1 ATTTAGGGGTATC-AAGTACAAATAGGGGCACTTATGTGC
* *
103901519 ATTTAGGGGTA-CAAAATTACAAATAAGGGCACTTATGTG
1 ATTTAGGGGTATC--AAGTACAAATAGGGGCACTTATGTG
103901558 TATTCATATA
Statistics
Matches: 136, Mismatches: 17, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
39 34 0.25
40 101 0.74
41 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (39 bp):
ATTTAGGGGTATCAAGTACAAATAGGGGCACTTATGTGC
Found at i:103901476 original size:79 final size:80
Alignment explanation
Indices: 103901375--103901563 Score: 254
Period size: 79 Copynumber: 2.4 Consensus size: 80
103901365 GGAGTATCAT
* * * *
103901375 AGTACAAATAGGGGCACGTATGTGCATTTAGGGGTATCAAAGTACAAATAGGAGCACTTAGGTGC
1 AGTACAAATAAGGGCACTTATGTGCATTCAGGGGTATCAAAGTACAAACAGGAGCACTTAGGTGC
**
103901440 ATTCA-GGGTACTGA
66 ATTCAGGGGTACAAA
* * * *
103901454 AGTACAAACAAGGGCACTTATGTGCATTCAGGGGTATCGAAGTACAAACAGGGGCACTTATGTGC
1 AGTACAAATAAGGGCACTTATGTGCATTCAGGGGTATCAAAGTACAAACAGGAGCACTTAGGTGC
*
103901519 ATTTAGGGGTACAAA
66 ATTCAGGGGTACAAA
* *
103901534 ATTACAAATAAGGGCACTTATGTGTATTCA
1 AGTACAAATAAGGGCACTTATGTGCATTCA
103901564 TATATATACG
Statistics
Matches: 95, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
79 61 0.64
80 34 0.36
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (80 bp):
AGTACAAATAAGGGCACTTATGTGCATTCAGGGGTATCAAAGTACAAACAGGAGCACTTAGGTGC
ATTCAGGGGTACAAA
Found at i:103906655 original size:34 final size:34
Alignment explanation
Indices: 103906617--103906716 Score: 132
Period size: 34 Copynumber: 2.9 Consensus size: 34
103906607 ATATTTTGCC
*
103906617 AAAATGAAAAAAAAATGATAA-AGCTTAAAACTAA
1 AAAATGAAAAAAAAATAATAAGA-CTTAAAACTAA
*
103906651 AAAAT-AAAACAAAAATAATAAGACTTAAAACTAC
1 AAAATGAAAA-AAAAATAATAAGACTTAAAACTAA
* *
103906685 AAAATGAAACAAAAATTATAAGACTTAAAACT
1 AAAATGAAAAAAAAATAATAAGACTTAAAACT
103906717 CTAACACCAA
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
33 4 0.07
34 51 0.86
35 4 0.07
ACGTcount: A:0.66, C:0.09, G:0.06, T:0.19
Consensus pattern (34 bp):
AAAATGAAAAAAAAATAATAAGACTTAAAACTAA
Found at i:103909026 original size:48 final size:48
Alignment explanation
Indices: 103908953--103909319 Score: 259
Period size: 48 Copynumber: 7.6 Consensus size: 48
103908943 CATGTGCGCT
* ** *
103908953 AGTGTAAGACCATGTCTGGGGCATGGCATCAGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCAGCCATGATATGAGAGCC
* * * * * *
103909001 ATTGTAAGACCATGTTTGGAACATGGCCTCGGCGATGTTGTGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCAGCCATGATATGAGAGCC
* * * *
103909049 AGTGTAAGACCATGTTTGGAACATGGCATC-GACGATGTTGTGAGAACC
1 AGTGTAAGACCATGTTTGGAACATGGCATCAG-CCATGATATGAGAGCC
* * * * * *
103909097 AATGTAAGACCATGTCT-CAGACATGGCATCAG-CATTAATATGTGCA-CT
1 AGTGTAAGACCATGTTTGGA-ACATGGCATCAGCCA-TGATATGAG-AGCC
* * * *
103909145 AGTGTAAGACCATGTCTGGGACATGGCATC-GACCA-CATTATGAGAGTC
1 AGTGTAAGACCATGTTTGGAACATGGCATCAG-CCATGA-TATGAGAGCC
* * * * * *
103909193 AATGTAAGACCATGTCTAGG-ACATGGCATC-GGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGT-TTGGAACATGGCATCAGCCA-TGATATGAGAGCC
* * *
103909241 AGTGTAAGACCATGTTTGGGACATGGCATCAGTCTCA--ACATGTGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCAG-C-CATGATATGAGAGCC
* *
103909289 AGTGTAAAACCATGTTTGGAACATGGTATCA
1 AGTGTAAGACCATGTTTGGAACATGGCATCA
103909320 ACAATTCACC
Statistics
Matches: 254, Mismatches: 48, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
47 11 0.04
48 233 0.92
49 8 0.03
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCAGCCATGATATGAGAGCC
Found at i:103909111 original size:25 final size:25
Alignment explanation
Indices: 103909035--103909111 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
103909025 GGCCTCGGCG
* *
103909035 ATGTTGTGAGAGCCAGTGTAAGACC
1 ATGTTGTGAGAACCAATGTAAGACC
* * *
103909060 ATGTT-TG-GAA-C-ATGGCATCGACG
1 ATGTTGTGAGAACCAAT-GTA-AGACC
103909083 ATGTTGTGAGAACCAATGTAAGACC
1 ATGTTGTGAGAACCAATGTAAGACC
103909108 ATGT
1 ATGT
103909112 CTCAGACATG
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
21 1 0.03
22 3 0.08
23 10 0.26
24 4 0.11
25 15 0.39
26 3 0.08
27 2 0.05
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (25 bp):
ATGTTGTGAGAACCAATGTAAGACC
Found at i:103909121 original size:96 final size:94
Alignment explanation
Indices: 103908950--103909270 Score: 344
Period size: 96 Copynumber: 3.4 Consensus size: 94
103908940 TGACATGTGC
* * *
103908950 GCTAGTGTAAGACCATGTCTGGGGCATGGCATC-AGCCACGATATGAGAGCCATTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CCACGTTATGAGAGCCAATGTAAGACCAT
* * *
103909014 GTTTGGAACATGGCCTCGGCGATGT-TGTGAGA
65 GTCTAG-ACATGGCATCGGC-AT-TATGTGAGA
* * * * * * *
103909046 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGACGATGTTGTGAGAACCAATGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGTTATGAGAGCCAATGTAAGACCATG
* * *
103909111 TCTCAGACATGGCATCAGCATTAATATGTGCA
66 TCT-AGACATGGCATCGGCATT-ATGTGAG-A
* *
103909143 -CTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGTCAATGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGTTATGAGAGCCAATGTAAGACCATG
*
103909207 TCTAGGACATGGCATCGGCATTGA-GACGAGA
66 TCTA-GACATGGCATCGGCATT-ATG-TGAGA
*
103909238 GCTAGTGTAAGACCATGTTTGGGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
103909271 AGTCTCAACA
Statistics
Matches: 186, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
94 1 0.01
95 4 0.02
96 178 0.96
97 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGTTATGAGAGCCAATGTAAGACCATG
TCTAGACATGGCATCGGCATTATGTGAGA
Found at i:103909284 original size:144 final size:143
Alignment explanation
Indices: 103908950--103909314 Score: 382
Period size: 144 Copynumber: 2.5 Consensus size: 143
103908940 TGACATGTGC
* * *
103908950 GCTAGTGTAAGACCATGTCTGGGGCATGGCATCAGC-CACGATATGAGAGCCATTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTCA--ATATGTGAGCCAGTGTAAGACCAT
* * * ** * * *
103909014 GTTTGGAACATGGCCTCGGCGATGTTGTGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC
64 GTTTGGAACATGGCATCGACCACATTATGAGAGCCAATGTAAGACCATGTTAGGAACATGGCATC
*
103909079 GACGATGTTGTGAGAA
129 GACGA-GTTGAGAGAA
* * ** * *
103909095 -CCAATGTAAGACCATGTCTCAGACATGGCATCAGCATTAATATGTGCA-CTAGTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC-TCAATATGTG-AGCCAGTGTAAGACCAT
* * *
103909158 GTCTGGGACATGGCATCGACCACATTATGAGAGTCAATGTAAGACCATGTCTAGG-ACATGGCAT
64 GTTTGGAACATGGCATCGACCACATTATGAGAGCCAATGTAAGACCATGT-TAGGAACATGGCAT
*
103909222 CGGC-A-TTGAGACGAGA
128 CGACGAGTTGAGA-GA-A
* * *
103909238 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGTCTCAACATGTGAGCCAGTGTAAAACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAG-CTCAATATGTGAGCCAGTGTAAGACCATG
103909303 TTTGGAACATGG
65 TTTGGAACATGG
103909315 TATCAACAAT
Statistics
Matches: 178, Mismatches: 33, Indels: 19
0.77 0.14 0.08
Matches are distributed among these distances:
141 5 0.03
142 2 0.01
143 3 0.02
144 162 0.91
145 5 0.03
146 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (143 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTCAATATGTGAGCCAGTGTAAGACCATGT
TTGGAACATGGCATCGACCACATTATGAGAGCCAATGTAAGACCATGTTAGGAACATGGCATCGA
CGAGTTGAGAGAA
Done.