Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 52 of 163
Found at i:16686391 original size:213 final size:214
Alignment explanation
Indices: 16686020--16686415 Score: 650
Period size: 213 Copynumber: 1.9 Consensus size: 214
16686010 TTGAAAATTT
* *
16686020 ATAAATAATATTAATAAAAAGTTAATTAGTAGCGACGTTTCCATGTAAAAACGCCACAAAATCTA
1 ATAAATAATATTAATAAAAAGTTAATCAGTAGCGACATTTCCATGTAAAAACGCCACAAAATCTA
* *
16686085 AATATTAGCAGCGTTTGTTCAGAAAACGCCGCAAAAAACATATAAAAAATTAAACAAAACGGCAC
66 AATACTAGCAGCGTTTGTTCAGAAAACGCCGAAAAAAACATATAAAAAATTAAACAAAACGGCAC
* * *
16686150 CGCTTCATTGACGAGTTAAATATTAGTGGTGTTTTTTGTCAAAACGCCGCAAATGTTAAAATAGA
131 CGCTTCATTGACGAGTTAAATATTAGTGGCGTTTCTTATCAAAACGCCGCAAATGTTAAAATAGA
16686215 AAATGACGCCGTTTTAAAC
196 AAATGACGCCGTTTTAAAC
*
16686234 ATAAATAATATTAATAAAAAGTTAATCAGTAGCGGCATTTCCATGT-AAAACGCCACAAAATCTA
1 ATAAATAATATTAATAAAAAGTTAATCAGTAGCGACATTTCCATGTAAAAACGCCACAAAATCTA
* * * * *
16686298 AATACTAGCGGTGTTTGTTTAGAAAACGCCGAAAAAAACATATTAAAAATTAAACAAAATGGCAC
66 AATACTAGCAGCGTTTGTTCAGAAAACGCCGAAAAAAACATATAAAAAATTAAACAAAACGGCAC
* *
16686363 CGCTTCATTGATGAGTTAAATGTTAGTGGCGTTTCTTATCAAAACGCCGCAAA
131 CGCTTCATTGACGAGTTAAATATTAGTGGCGTTTCTTATCAAAACGCCGCAAA
16686416 AGTTGTGAAA
Statistics
Matches: 167, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
213 124 0.74
214 43 0.26
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (214 bp):
ATAAATAATATTAATAAAAAGTTAATCAGTAGCGACATTTCCATGTAAAAACGCCACAAAATCTA
AATACTAGCAGCGTTTGTTCAGAAAACGCCGAAAAAAACATATAAAAAATTAAACAAAACGGCAC
CGCTTCATTGACGAGTTAAATATTAGTGGCGTTTCTTATCAAAACGCCGCAAATGTTAAAATAGA
AAATGACGCCGTTTTAAAC
Found at i:16686515 original size:253 final size:253
Alignment explanation
Indices: 16686194--16686745 Score: 883
Period size: 253 Copynumber: 2.2 Consensus size: 253
16686184 TTTGTCAAAA
* *
16686194 CGCCGCAAATGTTAAAATAGAAAATGACGCCGTTTTAAACATAAATAATATTAATAAAAAGTTAA
1 CGCCGCAAATGTTAAAATAGAAAACGACGCCGTTTTTAACATAAATAATATTAATAAAAAGTTAA
*
16686259 TCAGTAGCGGC-ATTTCCATGTAAAACGCCACAAAATCTAAATACTAGCGGTGTTTGTT-TAGAA
66 TCAGTAGCAGCGA-TTCCATGTAAAACGCCACAAAATCTAAATACTAGCGGTGTTTGTTCT-GAA
* *
16686322 AACGCCGAAAAAAACATATTAAAAATTAAACAAAATGGCACCGCTTCATTGATGAGTTAAATGTT
129 AACGCCGAAAAAAACATATTAAAAATTAAACAAAACGGCACCGCTTCATTGACGAGTTAAATGTT
*
16686387 AGTGGCGTTTCTTATCAAAACGCCGCAAAAGTTGTGAAACTAGTGGCGTTTTTTCGTAAG
194 AGTGGCGTTTCTTATCAAAACGCCGCAAAAGTTGTGAAACTAGTGGCATTTTTTCGTAAG
* * * * * *
16686447 TGCCGCAAATGTTGAAATAGAAAACAATGCCGTTTTTAGCATAAATAATATTAATAGAAAGTTAA
1 CGCCGCAAATGTTAAAATAGAAAACGACGCCGTTTTTAACATAAATAATATTAATAAAAAGTTAA
* *
16686512 TCAGTAGCAGCGATTCGATGTAAAACGCCACAAAATCTAAATACTAGCGGTGTTTGTTCTTAAAA
66 TCAGTAGCAGCGATTCCATGTAAAACGCCACAAAATCTAAATACTAGCGGTGTTTGTTCTGAAAA
* * *
16686577 CGCCGCAAATAACATATTAAAAATTAAACAAAACGGCACCGCTTCGTTGACGAGTTAAATGTTAG
131 CGCCGAAAAAAACATATTAAAAATTAAACAAAACGGCACCGCTTCATTGACGAGTTAAATGTTAG
* * *
16686642 TGGCGTTTTTTATCAAAACGCCGTAAAAGTTGTGAAACTAGTGGCATTTTTTTGTAAG
196 TGGCGTTTCTTATCAAAACGCCGCAAAAGTTGTGAAACTAGTGGCATTTTTTCGTAAG
*
16686700 CGCCGCAAATGTTAAAATAGAAAACGACGTCGTTTTTAACATAAAT
1 CGCCGCAAATGTTAAAATAGAAAACGACGCCGTTTTTAACATAAAT
16686746 CAGGTTCTTT
Statistics
Matches: 271, Mismatches: 26, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
253 269 0.99
254 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (253 bp):
CGCCGCAAATGTTAAAATAGAAAACGACGCCGTTTTTAACATAAATAATATTAATAAAAAGTTAA
TCAGTAGCAGCGATTCCATGTAAAACGCCACAAAATCTAAATACTAGCGGTGTTTGTTCTGAAAA
CGCCGAAAAAAACATATTAAAAATTAAACAAAACGGCACCGCTTCATTGACGAGTTAAATGTTAG
TGGCGTTTCTTATCAAAACGCCGCAAAAGTTGTGAAACTAGTGGCATTTTTTCGTAAG
Found at i:16687650 original size:122 final size:122
Alignment explanation
Indices: 16687433--16687676 Score: 373
Period size: 122 Copynumber: 2.0 Consensus size: 122
16687423 CAACTGCTTT
* * **
16687433 CCCTGACATACAACATTAGGATTCTATTTTATATACACTTTGAACCTTTCTACATTCAGTATTGA
1 CCCTGACATACAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTACATTCAACATTGA
* * *
16687498 CTTGAAAACTGGGAATTTAAGCTCAGAAATTGTGA-ATGGATCAAGTGGCACCTCATA
66 CTAGAAAACTGGGAATCTAAGCTCAGAAATTATGACA-GGATCAAGTGGCACCTCATA
* * *
16687555 CCCTGACATGCAACATTAGGATTCAATGTTGTATACACTTTGAACCTTTCTGCATTCAACATTGA
1 CCCTGACATACAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTACATTCAACATTGA
*
16687620 CTAGAAAACTGGGAATCTAAGCTCAGAAATTATGACAGTATCAAGTGGCACCTCATA
66 CTAGAAAACTGGGAATCTAAGCTCAGAAATTATGACAGGATCAAGTGGCACCTCATA
16687677 TAGCATGCAT
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
122 109 0.99
123 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (122 bp):
CCCTGACATACAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTACATTCAACATTGA
CTAGAAAACTGGGAATCTAAGCTCAGAAATTATGACAGGATCAAGTGGCACCTCATA
Found at i:16689638 original size:43 final size:43
Alignment explanation
Indices: 16689586--16689868 Score: 342
Period size: 42 Copynumber: 6.7 Consensus size: 43
16689576 TGAAAAGTGA
* ** *
16689586 CTAAAAGTCATGATCTATAGCGATGTTTGTGGGGAAAA-CGCCA
1 CTAAAGGTCATGATCTATAGCGGCGTTTGT-GGGAAAAGCGCCG
* * *
16689629 CTAAAAGTCATGATCTATAGTGGCGTTTGTGGGATAAGCGCCG
1 CTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCG
* * **
16689672 CTAAAGGTCTTGATCTATAGCGGCGTTTGT-GTAAAAAAGCCG
1 CTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCG
* * *
16689714 CTAAAGGTTC-TAATCTATAGCGGCGTTTGT-GTAAAAGCGCTG
1 CTAAAGG-TCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCG
* * *
16689756 CTAAAGGTCCTGATCTATAGCGACGTTTGT-GTAAAAGCGCCG
1 CTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCG
*
16689798 CTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCG
1 CTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCG
*
16689841 TTAAAGGTCATGATCTATAGCGGCGTTT
1 CTAAAGGTCATGATCTATAGCGGCGTTT
16689869 ATTTCTAAAA
Statistics
Matches: 213, Mismatches: 23, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
41 2 0.01
42 114 0.54
43 97 0.46
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (43 bp):
CTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCG
Found at i:16693108 original size:32 final size:32
Alignment explanation
Indices: 16693072--16693229 Score: 113
Period size: 37 Copynumber: 4.7 Consensus size: 32
16693062 TAACCACTTT
*
16693072 AATATTAAATTAATATAATATTTATTAAGATA
1 AATATTAAATTAATTTAATATTTATTAAGATA
* * *
16693104 AATATTAGATTAAATTTAATATTAAATCTTGTAGATA
1 AATATTAAATT-AATTTAATATT---TATT-AAGATA
* * * * *
16693141 AACATTAAATTAAATTTAATATTAAGATAATCACTTT
1 AATATTAAATT-AATTTAATATTTA-TTAA-GA--TA
*
16693178 AATATTAAATT-ATTAAATA-TTATTAAGATA
1 AATATTAAATTAATTTAATATTTATTAAGATA
*
16693208 AGTATTAAATTAATTTAATATT
1 AATATTAAATTAATTTAATATT
16693230 AAACTATTAA
Statistics
Matches: 95, Mismatches: 20, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
30 11 0.12
31 7 0.07
32 12 0.13
33 13 0.14
34 3 0.03
35 9 0.09
36 3 0.03
37 37 0.39
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (32 bp):
AATATTAAATTAATTTAATATTTATTAAGATA
Found at i:16693198 original size:15 final size:16
Alignment explanation
Indices: 16693178--16693232 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 16
16693168 TAATCACTTT
16693178 AATATTAAATT-ATTA
1 AATATTAAATTAATTA
*
16693193 AATATT--ATTAAGATA
1 AATATTAAATTAA-TTA
* *
16693208 AGTATTAAATTAATTT
1 AATATTAAATTAATTA
16693224 AATATTAAA
1 AATATTAAA
16693233 CTATTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
13 3 0.10
14 1 0.03
15 13 0.42
16 9 0.29
17 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (16 bp):
AATATTAAATTAATTA
Found at i:16693239 original size:24 final size:23
Alignment explanation
Indices: 16693175--16693245 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 23
16693165 AGATAATCAC
* *
16693175 TTTAATATTAAATTATTAAATAT
1 TTTAATATTAAACTATTAAATAA
* *
16693198 TATTAAGA-T-AAGTATTAAATTAA
1 T-TTAATATTAAACTATTAAA-TAA
16693221 TTTAATATTAAACTATTAAAATAA
1 TTTAATATTAAACTATT-AAATAA
16693245 T
1 T
16693246 ATTATTTTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
22 14 0.37
23 6 0.16
24 15 0.39
25 3 0.08
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (23 bp):
TTTAATATTAAACTATTAAATAA
Found at i:16695834 original size:17 final size:17
Alignment explanation
Indices: 16695812--16695863 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 17
16695802 GAAATAAAAC
16695812 AAAAACTAAATTGAATG
1 AAAAACTAAATTGAATG
16695829 AAAAAC----TT-AATG
1 AAAAACTAAATTGAATG
*
16695841 AAAAGCTAAATTGAAT-
1 AAAAACTAAATTGAATG
16695857 AAAAACT
1 AAAAACT
16695864 GAATAGATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 11
0.68 0.05 0.27
Matches are distributed among these distances:
12 9 0.32
13 2 0.07
16 8 0.29
17 9 0.32
ACGTcount: A:0.60, C:0.08, G:0.10, T:0.23
Consensus pattern (17 bp):
AAAAACTAAATTGAATG
Found at i:16704305 original size:29 final size:29
Alignment explanation
Indices: 16704247--16704335 Score: 72
Period size: 31 Copynumber: 3.0 Consensus size: 29
16704237 ATTAAATCTT
* * *
16704247 AATTTTTAAATTTAAAAA-ATAAAGGAACTA
1 AATTCTTAAAATTAAAAATATGAA-G-ACTA
16704277 AATTCTTAAAATTAAAAATATGAAGACTA
1 AATTCTTAAAATTAAAAATATGAAGACTA
* * * *
16704306 ACTTCTAAACACATGAAAAGTATGAAGACT
1 AATTCTTAA-A-ATTAAAAATATGAAGACT
16704336 TAAAATATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
29 11 0.22
30 18 0.37
31 20 0.41
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (29 bp):
AATTCTTAAAATTAAAAATATGAAGACTA
Found at i:16705062 original size:19 final size:19
Alignment explanation
Indices: 16705040--16705079 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
16705030 TTTTAAAATT
16705040 TTTTATATATTCTTTAGAC
1 TTTTATATATTCTTTAGAC
* * *
16705059 TTTTTTATATTTTTTTGAC
1 TTTTATATATTCTTTAGAC
16705078 TT
1 TT
16705080 GTAAAGTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTTATATATTCTTTAGAC
Found at i:16705062 original size:21 final size:20
Alignment explanation
Indices: 16705021--16705073 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
16705011 GATTTAGGGG
16705021 TTTT-TATATTTTTAAAATT
1 TTTTATATATTTTTAAAATT
* *
16705040 TTTTATATATTCTTTAGACTT
1 TTTTATATATT-TTTAAAATT
16705061 TTTTATAT-TTTTT
1 TTTTATATATTTTT
16705074 TGACTTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 7 0.23
20 8 0.27
21 15 0.50
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTATATATTTTTAAAATT
Found at i:16712957 original size:16 final size:16
Alignment explanation
Indices: 16712936--16712966 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16712926 TAATAAAAAA
*
16712936 ATTAATTATATATACT
1 ATTAATTAGATATACT
16712952 ATTAATTAGATATAC
1 ATTAATTAGATATAC
16712967 GTTAATATTA
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:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTAATTAGATATACT
Found at i:16722944 original size:48 final size:48
Alignment explanation
Indices: 16722883--16722976 Score: 170
Period size: 48 Copynumber: 2.0 Consensus size: 48
16722873 CACAATAATT
* *
16722883 TATAAGATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTACA
1 TATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACA
16722931 TATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 TATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
16722977 TAAAAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.52, C:0.10, G:0.01, T:0.37
Consensus pattern (48 bp):
TATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACA
Found at i:16733658 original size:31 final size:31
Alignment explanation
Indices: 16733623--16733683 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
16733613 TGGTTTATCA
16733623 ATTTAATTAAT-TTGTTTATTT-TTCTTTATTT
1 ATTT-ATTAATGTTGTTTATTTATT-TTTATTT
**
16733654 ATTTATTTTTGTTGTTTATTTATTTTTATT
1 ATTTATTAATGTTGTTTATTTATTTTTATT
16733684 GTTCTTAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
30 4 0.15
31 20 0.77
32 2 0.08
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.74
Consensus pattern (31 bp):
ATTTATTAATGTTGTTTATTTATTTTTATTT
Found at i:16733662 original size:17 final size:17
Alignment explanation
Indices: 16733632--16733680 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
16733622 AATTTAATTA
* *
16733632 ATTTGTTTATTTTTCTTT
1 ATTTATTTATTTTT-GTT
16733650 ATTTATTTATTTTTGTT
1 ATTTATTTATTTTTGTT
*
16733667 GTTTATTTATTTTT
1 ATTTATTTATTTTT
16733681 ATTGTTCTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.14, C:0.02, G:0.06, T:0.78
Consensus pattern (17 bp):
ATTTATTTATTTTTGTT
Found at i:16733685 original size:17 final size:17
Alignment explanation
Indices: 16733637--16733686 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
16733627 AATTAATTTG
* *
16733637 TTTATTTTTCTTTATTTA
1 TTTATTTTT-ATTGTTTA
*
16733655 TTTATTTTTGTTGTTTA
1 TTTATTTTTATTGTTTA
16733672 TTTATTTTTATTGTT
1 TTTATTTTTATTGTT
16733687 CTTAATCTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 20 0.69
18 9 0.31
ACGTcount: A:0.14, C:0.02, G:0.06, T:0.78
Consensus pattern (17 bp):
TTTATTTTTATTGTTTA
Found at i:16733697 original size:20 final size:20
Alignment explanation
Indices: 16733637--16733702 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
16733627 AATTAATTTG
*
16733637 TTTATTTTTCTTTATTTATT
1 TTTATTGTTCTTTATTTATT
* *
16733657 TATTTTTGTTGTTTATTTATT
1 T-TTATTGTTCTTTATTTATT
* *
16733678 TTTATTGTTCTTAATCTATT
1 TTTATTGTTCTTTATTTATT
16733698 TTTAT
1 TTTAT
16733703 GGTTAATAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 21 0.55
21 17 0.45
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTATTGTTCTTTATTTATT
Found at i:16736157 original size:3 final size:3
Alignment explanation
Indices: 16736149--16736174 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16736139 TGAAAATTTG
16736149 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
16736175 TTGTTAAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:16738166 original size:146 final size:146
Alignment explanation
Indices: 16737902--16738196 Score: 581
Period size: 146 Copynumber: 2.0 Consensus size: 146
16737892 TAATACTAGT
16737902 TCTACAACAATGAAGCAGTGCTGCTTTCTTTTACTTTTAGTAATTATTGGAACTCGGCTAGGGTA
1 TCTACAACAATGAAGCAGTGCTGCTTTCTTTTACTTTTAGTAATTATTGGAACTCGGCTAGGGTA
16737967 GTTTTGACCACATAATCAGCCAAAATGGCATTTGTTTTCTCTGTCGGGTGGAAGGCATCCCAGAA
66 GTTTTGACCACATAATCAGCCAAAATGGCATTTGTTTTCTCTGTCGGGTGGAAGGCATCCCAGAA
16738032 TACATACTTATTGGCA
131 TACATACTTATTGGCA
16738048 TCTACAACAATGAAGCAGTGCTGCTTTCTTTTACTTTTAGTAATTATTGGAACTCGGCTAGGGTA
1 TCTACAACAATGAAGCAGTGCTGCTTTCTTTTACTTTTAGTAATTATTGGAACTCGGCTAGGGTA
*
16738113 GTTTTGACCACATAATCAGCCAAAATGGCATTTGTTTTCTCTGTCGGGTGGAAGGCGTCCCAGAA
66 GTTTTGACCACATAATCAGCCAAAATGGCATTTGTTTTCTCTGTCGGGTGGAAGGCATCCCAGAA
16738178 TACATACTTATTGGCA
131 TACATACTTATTGGCA
16738194 TCT
1 TCT
16738197 GAACATGTAA
Statistics
Matches: 148, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 148 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (146 bp):
TCTACAACAATGAAGCAGTGCTGCTTTCTTTTACTTTTAGTAATTATTGGAACTCGGCTAGGGTA
GTTTTGACCACATAATCAGCCAAAATGGCATTTGTTTTCTCTGTCGGGTGGAAGGCATCCCAGAA
TACATACTTATTGGCA
Found at i:16741525 original size:26 final size:23
Alignment explanation
Indices: 16741475--16741528 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 23
16741465 ATCTTTTTGT
*
16741475 AATTTTTTTATTTTTATTTTTAA
1 AATTTTTTTATTTTTATTTTCAA
16741498 AATTTTATTTATTTATTTATTTTCAA
1 AATTTT-TTTA-TT-TTTATTTTCAA
16741524 AATTT
1 AATTT
16741529 AGATCTACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 6 0.22
24 4 0.15
25 2 0.07
26 15 0.56
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (23 bp):
AATTTTTTTATTTTTATTTTCAA
Found at i:16741588 original size:7 final size:7
Alignment explanation
Indices: 16741576--16741609 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
16741566 AATTCAAGTT
16741576 TATTAAA
1 TATTAAA
16741583 TATTAAA
1 TATTAAA
16741590 TATTAAA
1 TATTAAA
16741597 TATTAAA
1 TATTAAA
16741604 TATTAA
1 TATTAA
16741610 TTATATTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TATTAAA
Found at i:16743014 original size:40 final size:40
Alignment explanation
Indices: 16742970--16743085 Score: 90
Period size: 40 Copynumber: 3.1 Consensus size: 40
16742960 GCAAGTTGAC
16742970 ATTGTGACCTTTCACTAATTCAAGGTCGATTAATGACTAA
1 ATTGTGACCTTTCACTAATTCAAGGTCGATTAATGACTAA
* ** * * * *
16743010 ATTGTAAAGTTTTCA-AAATT---TG-CAAGT--TGAC--A
1 ATTGT-GACCTTTCACTAATTCAAGGTCGATTAATGACTAA
16743042 -TTGTGACCTTTCACTAATTCAAGGTCGATTAATGACTAA
1 ATTGTGACCTTTCACTAATTCAAGGTCGATTAATGACTAA
16743081 ATTGT
1 ATTGT
16743086 AAAGTTTTCA
Statistics
Matches: 51, Mismatches: 14, Indels: 22
0.59 0.16 0.25
Matches are distributed among these distances:
30 6 0.12
31 8 0.16
32 1 0.02
34 5 0.10
35 3 0.06
36 3 0.06
37 5 0.10
39 1 0.02
40 13 0.25
41 6 0.12
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.37
Consensus pattern (40 bp):
ATTGTGACCTTTCACTAATTCAAGGTCGATTAATGACTAA
Found at i:16743030 original size:71 final size:71
Alignment explanation
Indices: 16742914--16743115 Score: 404
Period size: 71 Copynumber: 2.8 Consensus size: 71
16742904 GGTCTTTTAA
16742914 TAATTCAAGGTCGATTAATGACTAAATTGTAAAGTTTTCAAAATTTGCAAGTTGACATTGTGACC
1 TAATTCAAGGTCGATTAATGACTAAATTGTAAAGTTTTCAAAATTTGCAAGTTGACATTGTGACC
16742979 TTTCAC
66 TTTCAC
16742985 TAATTCAAGGTCGATTAATGACTAAATTGTAAAGTTTTCAAAATTTGCAAGTTGACATTGTGACC
1 TAATTCAAGGTCGATTAATGACTAAATTGTAAAGTTTTCAAAATTTGCAAGTTGACATTGTGACC
16743050 TTTCAC
66 TTTCAC
16743056 TAATTCAAGGTCGATTAATGACTAAATTGTAAAGTTTTCAAAATTTGCAAGTTGACATTG
1 TAATTCAAGGTCGATTAATGACTAAATTGTAAAGTTTTCAAAATTTGCAAGTTGACATTG
16743116 CGACATCATT
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 131 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (71 bp):
TAATTCAAGGTCGATTAATGACTAAATTGTAAAGTTTTCAAAATTTGCAAGTTGACATTGTGACC
TTTCAC
Found at i:16752758 original size:20 final size:22
Alignment explanation
Indices: 16752735--16752778 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
16752725 ATTTTTTTTT
16752735 CAATAACT-A-GATTTTTTAAG
1 CAATAACTAATGATTTTTTAAG
* *
16752755 CAATCACTAATGCTTTTTTAAG
1 CAATAACTAATGATTTTTTAAG
16752777 CA
1 CA
16752779 TACAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 1 0.05
22 12 0.60
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (22 bp):
CAATAACTAATGATTTTTTAAG
Found at i:16759440 original size:8 final size:9
Alignment explanation
Indices: 16759425--16759454 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
16759415 TTTAGCTAAG
16759425 TAAAAAAAA
1 TAAAAAAAA
16759434 TAAAAAAAA
1 TAAAAAAAA
16759443 TAAAAGAAAA
1 TAAAA-AAAA
16759453 TA
1 TA
16759455 TAGAATAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 14 0.70
10 6 0.30
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:16760367 original size:45 final size:45
Alignment explanation
Indices: 16760304--16760599 Score: 215
Period size: 45 Copynumber: 6.7 Consensus size: 45
16760294 TATAGGCTTA
*
16760304 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATTTTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTTTG
** * * * **
16760349 GGTCTGCCCCACTGCAACTTCAGGGGGATAAGA-CCTG-C-TTATCC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-GCCATT-TTG
* * * * *
16760393 AGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTAG--A---TG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTTTG
* * **
16760433 AGATCTGCT-CTCTGCAACTTCAGAGAGATAAGA-TCTGTGATTTT-
1 A-ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-GCCATTTTG
**
16760477 AATCCACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTTTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTTTG
** * *
16760522 GGTCTGC-CCTACTGCAACTTCAAGGG-GATAAGATTCGCCATCTTC
1 AATCTGCTCC-ACTGCAACTTC-AGGGAGATAAGATTCGCCATTTTG
*
16760567 AATCTGCTCCACTGCAACTTTA-GGAGGATAAGA
1 AATCTGCTCCACTGCAACTTCAGGGA-GATAAGA
16760600 CTTGTATCTT
Statistics
Matches: 194, Mismatches: 38, Indels: 38
0.72 0.14 0.14
Matches are distributed among these distances:
39 1 0.01
40 22 0.11
41 6 0.03
42 1 0.01
43 9 0.05
44 64 0.33
45 85 0.44
46 6 0.03
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTTTG
Found at i:16760403 original size:89 final size:89
Alignment explanation
Indices: 16760304--16760599 Score: 268
Period size: 89 Copynumber: 3.4 Consensus size: 89
16760294 TATAGGCTTA
16760304 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATTTTGGGTCTGCCCCACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATTTTGGGTCTGCCCCACTGCAACTT
*
16760369 CAGGGGGATAAGACCTGCTTA-TCC
66 CAGGGGGATAAGACCTG-TGATTCC
* * * * * * * *
16760393 AGTCTGCTCCACTGTAACTTTAGGGAGATAAGACT-A-GA---TGAGATCTG-CTCTCTGCAACT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATTTTG-GGTCTGCCCCACTGCAACT
* * * **
16760452 TCAGAGAGATAAGATCTGTGATTTT
65 TCAGGGGGATAAGACCTGTGATTCC
** * *
16760477 AATCCACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTTTGGGTCTGCCCTACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATTTTGGGTCTGCCCCACTGCAACTT
* * ** *
16760542 CAAGGGGATAAGA-TTCGCCATCTTC
66 CAGGGGGATAAGACCT-GTGAT-TCC
*
16760567 AATCTGCTCCACTGCAACTTTA-GGAGGATAAGA
1 AATCTGCTCCACTGCAACTTCAGGGA-GATAAGA
16760600 CTTGTATCTT
Statistics
Matches: 160, Mismatches: 36, Indels: 21
0.74 0.17 0.10
Matches are distributed among these distances:
83 2 0.01
84 57 0.36
85 5 0.03
86 1 0.01
87 1 0.01
88 7 0.04
89 59 0.37
90 28 0.17
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (89 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATTTTGGGTCTGCCCCACTGCAACTT
CAGGGGGATAAGACCTGTGATTCC
Found at i:16760689 original size:44 final size:44
Alignment explanation
Indices: 16760634--16761310 Score: 674
Period size: 44 Copynumber: 15.4 Consensus size: 44
16760624 ACCAGTATGG
* * *
16760634 GAAGACAAGATCTGCTATCTTTGATTTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
16760678 GAAGACAAGATCTG-TCATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCT-ATCTTCGATCTACTTCACGCCAATACAT
* * *
16760722 GAAGACAAGATCTGCTA-CCTCTGATCTACTTCATGCCGATACAT
1 GAAGACAAGATCTGCTATCTTC-GATCTACTTCACGCCAATACAT
* * * * *
16760766 GAAGAGAAGATCTACTTTTTTCGATCTAC-TC-CGCCACCAGTATGA-
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCA--A-TA-CAT
* * * *
16760811 GAAGACAAGATCTGCTACCTTTGATCTACTTCATGCCGATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * ***
16760855 GAAGACAAGATCTGCTTTCTTCGACCTA-TTC-CGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCA--A-TACAT
* * * *
16760900 GAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATACAT
* * *
16760943 GAAGACAGGATCTGCTATCTTCGATCTACTTCATGCTAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* *
16760987 GAAGACAAGATCTGCTTTCTTCGATCTTCTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * * * ***
16761031 GAAGACAAGAT-TACTTTCTTAGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACAT
*
16761075 GAAGACAAGATTTGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* *
16761119 GAAGACAAGATCTACTATCTTCGATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* *
16761163 GAAGACAAGATCTGCTTTCTTCGATCTTCTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * * * ***
16761207 GAAGACAAGAT-TACTTTCTTAGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACAT
* *
16761251 GAAGACGAGATCTACTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
*
16761295 GAAGACAATATCTGCT
1 GAAGACAAGATCTGCT
16761311 GCTTTTTAAC
Statistics
Matches: 516, Mismatches: 95, Indels: 44
0.79 0.15 0.07
Matches are distributed among these distances:
42 6 0.01
43 62 0.12
44 354 0.69
45 85 0.16
46 6 0.01
47 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
Found at i:16761125 original size:176 final size:176
Alignment explanation
Indices: 16760634--16761307 Score: 821
Period size: 176 Copynumber: 3.8 Consensus size: 176
16760624 ACCAGTATGG
* *
16760634 GAAGACAAGATCTGCTATCTTTGAT-TTACTTCATGCCAATACATGAAGACAAGA-T-CTGTCAT
1 GAAGACAAGATCTGCTATCTTCGATCTT-CTTCACGCCAATACATGAAGACAAGATTACT-T--T
* * * * *** * *
16760696 CTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTA-CCTCTGATCTACTTCATGCC
62 CTTAGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTC-GATCTACTTCACGCC
* * * * * *
16760759 GATACATGAAGAGAAGATCTACTTTTTTCGATCTAC-TC-CGCCACCAGTATGA-
126 AATACATGAAGACAAGATCTACTATCTTCGATCTACTTCATGCCA--A-TA-CAT
* * * * * *
16760811 GAAGACAAGATCTGCTACCTTTGATCTACTTCATGCCGATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTCGATCTTCTTCACGCCAATACATGAAGACAAGAT-TACTTTCTT
* * * *
16760876 CGACCTA-TTCCGCCACCAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAA
65 AGATCTACTT-CGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAA
* * * * *
16760938 TATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCATGCTAATACAT
128 TACATGAAGACAAGATCTACTATCTTCGATCTACTTCATGCCAATACAT
*
16760987 GAAGACAAGATCTGCTTTCTTCGATCTTCTTCACGCCAATACATGAAGACAAGATTACTTTCTTA
1 GAAGACAAGATCTGCTATCTTCGATCTTCTTCACGCCAATACATGAAGACAAGATTACTTTCTTA
*
16761052 GATCTACTTCGCCACCAGTATGGGAAGACAAGATTTGCTATCTTCGATCTACTTCACGCCAATAC
66 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATAC
16761117 ATGAAGACAAGATCTACTATCTTCGATCTACTTCATGCCAATACAT
131 ATGAAGACAAGATCTACTATCTTCGATCTACTTCATGCCAATACAT
*
16761163 GAAGACAAGATCTGCTTTCTTCGATCTTCTTCACGCCAATACATGAAGACAAGATTACTTTCTTA
1 GAAGACAAGATCTGCTATCTTCGATCTTCTTCACGCCAATACATGAAGACAAGATTACTTTCTTA
* *
16761228 GATCTACTTCGCCACCAGTATGGGAAGACGAGATCTACTATCTTCGATCTACTTCACGCCAATAC
66 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATAC
*
16761293 ATGAAGACAATATCT
131 ATGAAGACAAGATCT
16761308 GCTGCTTTTT
Statistics
Matches: 437, Mismatches: 46, Indels: 29
0.85 0.09 0.06
Matches are distributed among these distances:
175 42 0.10
176 259 0.59
177 102 0.23
178 27 0.06
179 5 0.01
180 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (176 bp):
GAAGACAAGATCTGCTATCTTCGATCTTCTTCACGCCAATACATGAAGACAAGATTACTTTCTTA
GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATAC
ATGAAGACAAGATCTACTATCTTCGATCTACTTCATGCCAATACAT
Found at i:16762215 original size:25 final size:26
Alignment explanation
Indices: 16762177--16762225 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
16762167 GTGTCTTGAA
16762177 AAGAAAAAGATATT-CAAGAACAATG
1 AAGAAAAAGATATTACAAGAACAATG
16762202 AAGAATAAAG-TATTACAAGAACAA
1 AAGAA-AAAGATATTACAAGAACAA
16762226 ACAAATTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.16
Consensus pattern (26 bp):
AAGAAAAAGATATTACAAGAACAATG
Found at i:16763666 original size:18 final size:18
Alignment explanation
Indices: 16763633--16763667 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16763623 AATTTCTTTA
*
16763633 GCCTCCACAGCCTCCACG
1 GCCTCCACAGCATCCACG
*
16763651 GCCTCCACAGTATCCAC
1 GCCTCCACAGCATCCAC
16763668 ACATCTCAAC
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:0.20, C:0.51, G:0.14, T:0.14
Consensus pattern (18 bp):
GCCTCCACAGCATCCACG
Found at i:16776383 original size:30 final size:29
Alignment explanation
Indices: 16776347--16776407 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
16776337 TAGTTGATGG
16776347 AAAAAAAA-TTCAAATATCAATTTAAGATAA
1 AAAAAAAACTTCAAATATCAA-TTAAGA-AA
* *
16776377 AAAAAAAACTTTAAGTATCAATTAAGAAA
1 AAAAAAAACTTCAAATATCAATTAAGAAA
16776406 AA
1 AA
16776408 GTGGATAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 4 0.14
30 14 0.50
31 10 0.36
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (29 bp):
AAAAAAAACTTCAAATATCAATTAAGAAA
Found at i:16777430 original size:18 final size:18
Alignment explanation
Indices: 16777399--16777433 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16777389 AATAATTTCT
* *
16777399 AAAAACATGTATATGTAA
1 AAAAAAATGCATATGTAA
16777417 AAAAAAATGCATATGTA
1 AAAAAAATGCATATGTA
16777434 TTATAAAATG
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:0.57, C:0.06, G:0.11, T:0.26
Consensus pattern (18 bp):
AAAAAAATGCATATGTAA
Found at i:16784477 original size:24 final size:25
Alignment explanation
Indices: 16784435--16784487 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
16784425 TCTTTTTGCA
*
16784435 TTCATTCCATGCATCTGCATTACAT
1 TTCATTCCATGCATCTGCATTAAAT
* *
16784460 TTCATTGCAT-CATTTGCATTAAAT
1 TTCATTCCATGCATCTGCATTAAAT
16784484 TTCA
1 TTCA
16784488 CGAAAGAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.43
Consensus pattern (25 bp):
TTCATTCCATGCATCTGCATTAAAT
Found at i:16786551 original size:3 final size:3
Alignment explanation
Indices: 16786543--16786567 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16786533 AGCTCACAAA
16786543 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
16786568 GTTCGCCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:16786807 original size:16 final size:16
Alignment explanation
Indices: 16786775--16786815 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
16786765 AACATTCTGA
*
16786775 AAAAGAAGAAGAAAAGG
1 AAAAGAA-AAAAAAAGG
16786792 AAAAGAAAAAAAAAGG
1 AAAAGAAAAAAAAAGG
*
16786808 AAAGGAAA
1 AAAAGAAA
16786816 GGCCAAGGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAAAAGG
Found at i:16788246 original size:89 final size:89
Alignment explanation
Indices: 16788070--16788390 Score: 399
Period size: 89 Copynumber: 3.6 Consensus size: 89
16788060 CAGATTAGTG
* ** * * *
16788070 AAGATAGCAGATCTTGTTTTCCTGTACTGACAGCGAAACAAATCGAAAACACCAGCCTCGCCTCC
1 AAGATAACAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAAACACCAGCCTCGCCTCC
* * * *
16788135 CTGTGTTTACAGCGGAACAGACTG
66 CTGAGTTTGCAGCGGAGCAGACTA
* * * * *
16788159 AATATAACAGATCTTGCCTTCTTGTACTGACAATGAAGCAGATCGAAAAGACCAGCCTCGTCTCC
1 AAGATAACAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAAACACCAGCCTCGCCTCC
* *
16788224 CTGAGTTTGCAGCAGAGTAGACTA
66 CTGAGTTTGCAGCGGAGCAGACTA
* *
16788248 AAGATAACAGATCTTGCCTTCCTGAACTGACAACAAAGCAGATCGAAAACACCAGCCTCGCCTCC
1 AAGATAACAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAAACACCAGCCTCGCCTCC
* *
16788313 TTGAGTTTGCAGTGGAGCAGACTA
66 CTGAGTTTGCAGCGGAGCAGACTA
* * * * * *
16788337 AAGATAACAGATCTCGCCTTCCCGTATTAACAGCGAAGCAGATCGAAGACACCA
1 AAGATAACAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAAACACCA
16788391 TAGTTGACAG
Statistics
Matches: 196, Mismatches: 36, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
89 196 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (89 bp):
AAGATAACAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAAACACCAGCCTCGCCTCC
CTGAGTTTGCAGCGGAGCAGACTA
Found at i:16788591 original size:45 final size:45
Alignment explanation
Indices: 16788529--16788631 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
16788519 TATCTCTCTG
* *
16788529 AAGTTGCAGTAGAGCAAG-TTGAA-ATCATAAGCCTTATTCCCCCTA
1 AAGTTGCAGTGGAGCAAGTTTGAAGAT-ATAAGCCATA-TCCCCCTA
* * *
16788574 AAGTTGCAGTGGGGCAAGTTTGAAGATATAAGTCATATCTCCCTA
1 AAGTTGCAGTGGAGCAAGTTTGAAGATATAAGCCATATCCCCCTA
16788619 AAGTTGCAGTGGA
1 AAGTTGCAGTGGA
16788632 ACGGGTCAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
45 35 0.70
46 13 0.26
47 2 0.04
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (45 bp):
AAGTTGCAGTGGAGCAAGTTTGAAGATATAAGCCATATCCCCCTA
Found at i:16791655 original size:6 final size:6
Alignment explanation
Indices: 16791644--16791669 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
16791634 TGGCGACTCC
16791644 CATTTT CATTTT CATTTT CATTTT CA
1 CATTTT CATTTT CATTTT CATTTT CA
16791670 AAATCCAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (6 bp):
CATTTT
Found at i:16793999 original size:12 final size:12
Alignment explanation
Indices: 16793984--16794032 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
16793974 TAAGCAGGAT
*
16793984 AATAGTAATAAC
1 AATAATAATAAC
* *
16793996 AATATTAAAAAC
1 AATAATAATAAC
*
16794008 AATAATAATAAA
1 AATAATAATAAC
*
16794020 AATAATGATAAC
1 AATAATAATAAC
16794032 A
1 A
16794033 TTATTGAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.24
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:16794922 original size:19 final size:19
Alignment explanation
Indices: 16794880--16794927 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
16794870 TATTGGGCTA
16794880 GGTTTGGA--TTGTATTTG
1 GGTTTGGATTTTGTATTTG
*
16794897 GGTTTGGGTTTTGT-TTTG
1 GGTTTGGATTTTGTATTTG
16794915 GGTATTGGATTTT
1 GGT-TTGGATTTT
16794928 TTGTGCCCGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 7 0.27
18 7 0.27
19 12 0.46
ACGTcount: A:0.08, C:0.00, G:0.35, T:0.56
Consensus pattern (19 bp):
GGTTTGGATTTTGTATTTG
Found at i:16796355 original size:23 final size:24
Alignment explanation
Indices: 16796328--16796379 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 24
16796318 TCGTTTTTCA
16796328 ATTTTCT-AAAAT-AATAAAAAAT
1 ATTTTCTCAAAATAAATAAAAAAT
16796350 CATTTTCTCAAAATAAAATAAAAAAT
1 -ATTTTCTCAAAAT-AAATAAAAAAT
16796376 ATTT
1 ATTT
16796380 CAGAAATAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.27
24 5 0.19
25 4 0.15
26 10 0.38
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.37
Consensus pattern (24 bp):
ATTTTCTCAAAATAAATAAAAAAT
Found at i:16800827 original size:17 final size:18
Alignment explanation
Indices: 16800805--16800838 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
16800795 ATCATTAACA
16800805 TAAAAGAAT-AAAGAAAC
1 TAAAAGAATAAAAGAAAC
16800822 TAAAAGAATAAAAGAAA
1 TAAAAGAATAAAAGAAA
16800839 GAAATGAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.74, C:0.03, G:0.12, T:0.12
Consensus pattern (18 bp):
TAAAAGAATAAAAGAAAC
Found at i:16802043 original size:11 final size:11
Alignment explanation
Indices: 16802027--16802052 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
16802017 ATTTTTTAAA
16802027 TTTTAAAATAC
1 TTTTAAAATAC
16802038 TTTTAAAATAC
1 TTTTAAAATAC
16802049 TTTT
1 TTTT
16802053 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:16805230 original size:68 final size:68
Alignment explanation
Indices: 16805132--16805360 Score: 397
Period size: 68 Copynumber: 3.4 Consensus size: 68
16805122 TGGAGCCCGT
16805132 CAGGACATTAAACATGGGTTCATAATGTGTAAGACCATAGTTAGGCTGTGACAACATATGGAGTC
1 CAGGACATTAAACATGGGTTCATAATGTGTAAGACCATAGTTAGGCTGTGACAACATATGGAGTC
16805197 CAC
66 CAC
16805200 CAGGACATTAAACATGGGTTCATAATGTGTAAGACCATAGTTAGGCTGTGACAACATATGGAGTC
1 CAGGACATTAAACATGGGTTCATAATGTGTAAGACCATAGTTAGGCTGTGACAACATATGGAGTC
16805265 CAC
66 CAC
* *
16805268 CAGGACATTAAACATGGGTTCATAATGTGTAAGACCATAGTTAGACTATGGA-AACATATGGAGT
1 CAGGACATTAAACATGGGTTCATAATGTGTAAGACCATAGTTAGGCTGT-GACAACATATGGAGT
***
16805332 TTGC
65 CCAC
16805336 CAGGACATTAAACATGGGTTCATAA
1 CAGGACATTAAACATGGGTTCATAA
16805361 AATGTATGAC
Statistics
Matches: 155, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
68 153 0.99
69 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (68 bp):
CAGGACATTAAACATGGGTTCATAATGTGTAAGACCATAGTTAGGCTGTGACAACATATGGAGTC
CAC
Found at i:16810557 original size:29 final size:29
Alignment explanation
Indices: 16810521--16810697 Score: 264
Period size: 29 Copynumber: 6.1 Consensus size: 29
16810511 TATCACAAAA
*
16810521 ACTTGGTGGACTCATACATGTGGATACAT
1 ACTTGGTGGACTCATACATGTGGATTCAT
* * *
16810550 ACCTGGTGAACTTATACATGTGGATTCAT
1 ACTTGGTGGACTCATACATGTGGATTCAT
16810579 ACTTGGTGGACTCATACATGTGGATTCAT
1 ACTTGGTGGACTCATACATGTGGATTCAT
*
16810608 ACCTGGTGGACTCATACATGTGGATTCAT
1 ACTTGGTGGACTCATACATGTGGATTCAT
* *
16810637 ACTTGGTGGACTAATACATGTAGATTCAT
1 ACTTGGTGGACTCATACATGTGGATTCAT
* * *
16810666 AATTAGTGGACTCATACATGAGGATTCAT
1 ACTTGGTGGACTCATACATGTGGATTCAT
16810695 ACT
1 ACT
16810698 CATACATGAG
Statistics
Matches: 131, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 131 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (29 bp):
ACTTGGTGGACTCATACATGTGGATTCAT
Found at i:16810700 original size:20 final size:20
Alignment explanation
Indices: 16810675--16810717 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
16810665 TAATTAGTGG
16810675 ACTCATACATGAGGATTCAT
1 ACTCATACATGAGGATTCAT
16810695 ACTCATACATGAGGATTCAT
1 ACTCATACATGAGGATTCAT
16810715 ACT
1 ACT
16810718 TACAATTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ACTCATACATGAGGATTCAT
Found at i:16810764 original size:28 final size:28
Alignment explanation
Indices: 16810724--16811009 Score: 263
Period size: 28 Copynumber: 10.2 Consensus size: 28
16810714 TACTTACAAT
* *
16810724 TAGTTCCTGCGGACTCTTACTTGAAAGA
1 TAGTCCCTGCGGACTCTTGCTTGAAAGA
*
16810752 TAGTCCCTACGGACTCTTG-TGTGAAAGA
1 TAGTCCCTGCGGACTCTTGCT-TGAAAGA
* *
16810780 TAGTCCCTGCGAACTCTTACTTGAAAGA
1 TAGTCCCTGCGGACTCTTGCTTGAAAGA
* *
16810808 TAGTCCTTGCGGACTCTTGCATGAAAGA
1 TAGTCCCTGCGGACTCTTGCTTGAAAGA
*** **
16810836 TAGTTATTGTAGACTCTTGCTTGAAAGA
1 TAGTCCCTGCGGACTCTTGCTTGAAAGA
* * * *
16810864 TAATCCATGTGGACTTTTGCATT-AAAGA
1 TAGTCCCTGCGGACTCTTGC-TTGAAAGA
* ** *
16810892 TAGTCTCTATGGGCTCTTGCTTGAAAGA
1 TAGTCCCTGCGGACTCTTGCTTGAAAGA
** * *
16810920 TAGTCCCTGCAAAATCTTGCATGAAAGA
1 TAGTCCCTGCGGACTCTTGCTTGAAAGA
16810948 TAGTCCCTGCGGACTCTTG-TATGAAAGA
1 TAGTCCCTGCGGACTCTTGCT-TGAAAGA
* ** * *
16810976 TAGTCCCTACAAAATTTTGCTTGAAAGA
1 TAGTCCCTGCGGACTCTTGCTTGAAAGA
16811004 TAGTCC
1 TAGTCC
16811010 ATACAGGCTG
Statistics
Matches: 208, Mismatches: 44, Indels: 12
0.79 0.17 0.05
Matches are distributed among these distances:
27 3 0.01
28 201 0.97
29 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (28 bp):
TAGTCCCTGCGGACTCTTGCTTGAAAGA
Found at i:16814181 original size:20 final size:20
Alignment explanation
Indices: 16814158--16814206 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
16814148 ATCAATATAA
16814158 ATAAATTATTATAAAT-AATT
1 ATAAATTA-TATAAATAAATT
*
16814178 ATAAATCATATAAATAAATT
1 ATAAATTATATAAATAAATT
16814198 ATATAATTA
1 ATA-AATTA
16814207 GATTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.28
20 14 0.56
21 4 0.16
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAAATTATATAAATAAATT
Found at i:16814203 original size:9 final size:10
Alignment explanation
Indices: 16814158--16814200 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
16814148 ATCAATATAA
*
16814158 ATAAATTATT
1 ATAAATAATT
16814168 ATAAATAATT
1 ATAAATAATT
*
16814178 ATAAATCA-T
1 ATAAATAATT
16814187 ATAAATAAATT
1 ATAAAT-AATT
16814198 ATA
1 ATA
16814201 TAATTAGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 7 0.25
10 17 0.61
11 4 0.14
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
ATAAATAATT
Found at i:16815187 original size:27 final size:27
Alignment explanation
Indices: 16815150--16815205 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
16815140 GTATGTTTTA
*
16815150 TTATGTATGAACTTGACTGTGGGAAAT
1 TTATGTATGAACTTGACTATGGGAAAT
16815177 TTATGTATGAACTTGACTATGGGAAAT
1 TTATGTATGAACTTGACTATGGGAAAT
16815204 TT
1 TT
16815206 CTTTTTTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.39
Consensus pattern (27 bp):
TTATGTATGAACTTGACTATGGGAAAT
Found at i:16817299 original size:84 final size:84
Alignment explanation
Indices: 16817148--16817311 Score: 256
Period size: 84 Copynumber: 2.0 Consensus size: 84
16817138 AACACTGGTG
* * * *
16817148 CCAAGGCAGATGTATTTCACATGCTATCTGGTATGTGGAAAACACCTATAGATATGTGCTTTATG
1 CCAAGGCAGATGTATTTCACATGCTATATGGTATGTGGAAAACACCTACAGAGAGGTGCTTTATG
16817213 TGGTTGGGAGGATTTTGTT
66 TGGTTGGGAGGATTTTGTT
* * * *
16817232 CCAAGGCATATGTATTTCACATGCTATATGGTATGTGGAAAACACCTGCAGAGAGGTGTTTTTTG
1 CCAAGGCAGATGTATTTCACATGCTATATGGTATGTGGAAAACACCTACAGAGAGGTGCTTTATG
16817297 TGGTTGGGAGGATTT
66 TGGTTGGGAGGATTT
16817312 CATTCATCTG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 72 1.00
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (84 bp):
CCAAGGCAGATGTATTTCACATGCTATATGGTATGTGGAAAACACCTACAGAGAGGTGCTTTATG
TGGTTGGGAGGATTTTGTT
Found at i:16820587 original size:16 final size:16
Alignment explanation
Indices: 16820566--16820602 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
16820556 TGAATTACTG
16820566 ATTACAACTCTATTCA
1 ATTACAACTCTATTCA
* *
16820582 ATTACAGCTCTATTCC
1 ATTACAACTCTATTCA
16820598 ATTAC
1 ATTAC
16820603 CGTGAACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.32, C:0.27, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTACAACTCTATTCA
Found at i:16831281 original size:3 final size:3
Alignment explanation
Indices: 16831268--16831330 Score: 53
Period size: 3 Copynumber: 22.0 Consensus size: 3
16831258 TTCCATTTTC
* * *
16831268 TCT TAT TCT TCT TC- TCC TCT TCT TCT AT-T TCT TC- TCT TAT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT -TCT TCT TCT TCT TCT TCT
*
16831311 TCT TTT TC- TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT
16831331 ACTGCTCAGG
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
2 7 0.15
3 40 0.83
4 1 0.02
ACGTcount: A:0.05, C:0.30, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:16831293 original size:17 final size:17
Alignment explanation
Indices: 16831265--16831330 Score: 80
Period size: 17 Copynumber: 3.9 Consensus size: 17
16831255 TCCTTCCATT
16831265 TTCTCTTATTCTTCTTC
1 TTCTCTTATTCTTCTTC
* *
16831282 TCCTCTTCTTCTAT-TTC
1 TTCTCTTATTCT-TCTTC
*
16831299 TTCTCTTATTCTTCTTT
1 TTCTCTTATTCTTCTTC
*
16831316 TTCTCTTCTTCTTCT
1 TTCTCTTATTCTTCT
16831331 ACTGCTCAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
16 1 0.02
17 39 0.95
18 1 0.02
ACGTcount: A:0.05, C:0.30, G:0.00, T:0.65
Consensus pattern (17 bp):
TTCTCTTATTCTTCTTC
Found at i:16831299 original size:20 final size:20
Alignment explanation
Indices: 16831276--16831331 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
16831266 TCTCTTATTC
*
16831276 TTCTTCTCCTCTTCTTCTAT
1 TTCTTCTCTTCTTCTTCTAT
*
16831296 TTCTTCTCTTATTCTTC--T
1 TTCTTCTCTTCTTCTTCTAT
16831314 TT-TTCTCTTCTTCTTCTA
1 TTCTTCTCTTCTTCTTCTA
16831332 CTGCTCAGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 13 0.42
18 3 0.10
20 15 0.48
ACGTcount: A:0.05, C:0.30, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCTTCTCTTCTTCTTCTAT
Found at i:16831330 original size:11 final size:11
Alignment explanation
Indices: 16831274--16831330 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
16831264 TTTCTCTTAT
*
16831274 TCTTCTTCTCC
1 TCTTCTTCTTC
*
16831285 TCTTCTTCTATT
1 TCTTCTTCT-TC
*
16831297 TCTTC-TCTTAT
1 TCTTCTTCTT-C
*
16831308 TCTTCTTTTTC
1 TCTTCTTCTTC
16831319 TCTTCTTCTTC
1 TCTTCTTCTTC
16831330 T
1 T
16831331 ACTGCTCAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 1 0.03
11 29 0.76
12 8 0.21
ACGTcount: A:0.04, C:0.32, G:0.00, T:0.65
Consensus pattern (11 bp):
TCTTCTTCTTC
Found at i:16840243 original size:22 final size:22
Alignment explanation
Indices: 16840212--16840253 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
16840202 TTCTTAATGG
16840212 ATTAAATTTTATAAA-TATTTAT
1 ATTAAATTTT-TAAATTATTTAT
*
16840234 ATTAATTTTTTAAATTATTT
1 ATTAAATTTTTAAATTATTT
16840254 TAATATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTAAATTTTTAAATTATTTAT
Found at i:16844080 original size:20 final size:19
Alignment explanation
Indices: 16844055--16844093 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
16844045 CATTTCAATA
16844055 TTCATA-TCCTATTTCGTCAT
1 TTCATATTCC-ATTTC-TCAT
16844075 TTCATATTCCATTTCTCAT
1 TTCATATTCCATTTCTCAT
16844094 CCTTGTCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 11 0.61
21 3 0.17
ACGTcount: A:0.21, C:0.26, G:0.03, T:0.51
Consensus pattern (19 bp):
TTCATATTCCATTTCTCAT
Found at i:16847941 original size:43 final size:43
Alignment explanation
Indices: 16847851--16847942 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 43
16847841 GACAATGCCG
* * * *
16847851 CTAAAGAACATGACCTTTAGCGACACTTTTCCCACAAACGCCG
1 CTAAAGAACATGACATTTAGCGACACTTTTCCCAAAAACACCA
* * *
16847894 CTAAAGAACATGACATTTAGCGGCGC-TTTCATCAAAAACACCA
1 CTAAAGAACATGACATTTAGCGACACTTTTC-CCAAAAACACCA
16847937 CTAAAG
1 CTAAAG
16847943 GTCATAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 4 0.10
43 37 0.90
ACGTcount: A:0.37, C:0.28, G:0.14, T:0.21
Consensus pattern (43 bp):
CTAAAGAACATGACATTTAGCGACACTTTTCCCAAAAACACCA
Found at i:16849252 original size:12 final size:12
Alignment explanation
Indices: 16849235--16849262 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
16849225 GTGATTAAGG
16849235 ACATTAATAGTA
1 ACATTAATAGTA
16849247 ACATTAATAGTA
1 ACATTAATAGTA
16849259 ACAT
1 ACAT
16849263 CATGGCTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.32
Consensus pattern (12 bp):
ACATTAATAGTA
Found at i:16852960 original size:22 final size:21
Alignment explanation
Indices: 16852919--16852958 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16852909 GACAAACGTC
16852919 ACAAAAAATATTTTATTTTGA
1 ACAAAAAATATTTTATTTTGA
* *
16852940 ACAAAAATTGTTTTATTTT
1 ACAAAAAATATTTTATTTT
16852959 TGTATTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (21 bp):
ACAAAAAATATTTTATTTTGA
Found at i:16853458 original size:7 final size:7
Alignment explanation
Indices: 16853446--16853498 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
16853436 CCTTAAACCA
16853446 TAATCCC
1 TAATCCC
*
16853453 TAATCCA
1 TAATCCC
*
16853460 TAATTCC
1 TAATCCC
*
16853467 TAATCCA
1 TAATCCC
16853474 TAATCCC
1 TAATCCC
*
16853481 TAAATCCA
1 T-AATCCC
*
16853489 TACTCCC
1 TAATCCC
16853496 TAA
1 TAA
16853499 ACCTTAAAAT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
7 29 0.83
8 6 0.17
ACGTcount: A:0.36, C:0.34, G:0.00, T:0.30
Consensus pattern (7 bp):
TAATCCC
Found at i:16853460 original size:14 final size:14
Alignment explanation
Indices: 16853443--16853498 Score: 85
Period size: 14 Copynumber: 3.9 Consensus size: 14
16853433 AACCCTTAAA
16853443 CCATAATCCCTAAT
1 CCATAATCCCTAAT
*
16853457 CCATAATTCCTAAT
1 CCATAATCCCTAAT
16853471 CCATAATCCCTAAAT
1 CCATAATCCCT-AAT
*
16853486 CCATACTCCCTAA
1 CCATAATCCCTAA
16853499 ACCTTAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
14 25 0.66
15 13 0.34
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:16853707 original size:7 final size:7
Alignment explanation
Indices: 16853697--16853742 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
16853687 CCATAACTAT
16853697 TAACCCC
1 TAACCCC
**
16853704 TAACGTC
1 TAACCCC
16853711 TAACCCC
1 TAACCCC
16853718 TAAACCCC
1 T-AACCCC
*
16853726 TAACCCT
1 TAACCCC
16853733 TAACCCC
1 TAACCCC
16853740 TAA
1 TAA
16853743 ACCTTAAATC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
7 25 0.78
8 7 0.22
ACGTcount: A:0.33, C:0.46, G:0.02, T:0.20
Consensus pattern (7 bp):
TAACCCC
Found at i:16853723 original size:22 final size:22
Alignment explanation
Indices: 16853698--16853745 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
16853688 CATAACTATT
*
16853698 AACCCCTAA-CGTCTAACCCCTA
1 AACCCCTAACCCT-TAACCCCTA
16853720 AACCCCTAACCCTTAACCCCTA
1 AACCCCTAACCCTTAACCCCTA
16853742 AACC
1 AACC
16853746 TTAAATCCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.33, C:0.48, G:0.02, T:0.17
Consensus pattern (22 bp):
AACCCCTAACCCTTAACCCCTA
Found at i:16853732 original size:14 final size:14
Alignment explanation
Indices: 16853710--16853766 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
16853700 CCCCTAACGT
16853710 CTAACCCCTAAACCC
1 CTAA-CCCTAAACCC
*
16853725 CTAACCCTTAACCC
1 CTAACCCTAAACCC
* *
16853739 CTAAACCTTAAATCC
1 CT-AACCCTAAACCC
16853754 C-AACCCTTAAACC
1 CTAACCC-TAAACC
16853767 ATAATCCCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
13 4 0.12
14 16 0.47
15 14 0.41
ACGTcount: A:0.35, C:0.46, G:0.00, T:0.19
Consensus pattern (14 bp):
CTAACCCTAAACCC
Found at i:16853759 original size:28 final size:29
Alignment explanation
Indices: 16853715--16853781 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
16853705 AACGTCTAAC
* * *
16853715 CCCTAAACCCCTAACCCTTAACCCCTAAA
1 CCCTAAATCCCTAACCCTTAAACCATAAA
* *
16853744 CCTTAAATCCC-AACCCTTAAACCATAAT
1 CCCTAAATCCCTAACCCTTAAACCATAAA
16853772 CCCTAAATCC
1 CCCTAAATCC
16853782 ATACTCCCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 23 0.72
29 9 0.28
ACGTcount: A:0.36, C:0.43, G:0.00, T:0.21
Consensus pattern (29 bp):
CCCTAAATCCCTAACCCTTAAACCATAAA
Found at i:16853764 original size:21 final size:20
Alignment explanation
Indices: 16853712--16853774 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
16853702 CCTAACGTCT
*
16853712 AACCCCTAAACCCCTAA-CCC
1 AACCCCTAAA-CCATAATCCC
*
16853732 TTAACCCCTAAACCTTAAATCCC
1 --AACCCCTAAACCAT-AATCCC
*
16853755 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
16853775 TAAATCCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.17
21 15 0.42
22 12 0.33
23 3 0.08
ACGTcount: A:0.37, C:0.44, G:0.00, T:0.19
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:16853783 original size:15 final size:14
Alignment explanation
Indices: 16853761--16853795 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
16853751 TCCCAACCCT
16853761 TAAACCATAATCCC
1 TAAACCATAATCCC
*
16853775 TAAATCCATACTCCC
1 TAAA-CCATAATCCC
16853790 TAAACC
1 TAAACC
16853796 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:16854001 original size:7 final size:7
Alignment explanation
Indices: 16853991--16854036 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
16853981 CCATAACTAT
16853991 TAACCCC
1 TAACCCC
**
16853998 TAACGTC
1 TAACCCC
16854005 TAACCCC
1 TAACCCC
16854012 TAAACCCC
1 T-AACCCC
*
16854020 TAACCCT
1 TAACCCC
16854027 TAACCCC
1 TAACCCC
16854034 TAA
1 TAA
16854037 ACCTTAAATC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
7 25 0.78
8 7 0.22
ACGTcount: A:0.33, C:0.46, G:0.02, T:0.20
Consensus pattern (7 bp):
TAACCCC
Found at i:16854017 original size:22 final size:22
Alignment explanation
Indices: 16853992--16854039 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
16853982 CATAACTATT
*
16853992 AACCCCTAA-CGTCTAACCCCTA
1 AACCCCTAACCCT-TAACCCCTA
16854014 AACCCCTAACCCTTAACCCCTA
1 AACCCCTAACCCTTAACCCCTA
16854036 AACC
1 AACC
16854040 TTAAATCCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.33, C:0.48, G:0.02, T:0.17
Consensus pattern (22 bp):
AACCCCTAACCCTTAACCCCTA
Found at i:16854026 original size:14 final size:14
Alignment explanation
Indices: 16854004--16854060 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
16853994 CCCCTAACGT
16854004 CTAACCCCTAAACCC
1 CTAA-CCCTAAACCC
*
16854019 CTAACCCTTAACCC
1 CTAACCCTAAACCC
* *
16854033 CTAAACCTTAAATCC
1 CT-AACCCTAAACCC
16854048 C-AACCCTTAAACC
1 CTAACCC-TAAACC
16854061 ATAATCCCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
13 4 0.12
14 16 0.47
15 14 0.41
ACGTcount: A:0.35, C:0.46, G:0.00, T:0.19
Consensus pattern (14 bp):
CTAACCCTAAACCC
Found at i:16854053 original size:28 final size:29
Alignment explanation
Indices: 16854009--16854075 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
16853999 AACGTCTAAC
* * *
16854009 CCCTAAACCCCTAACCCTTAACCCCTAAA
1 CCCTAAATCCCTAACCCTTAAACCATAAA
* *
16854038 CCTTAAATCCC-AACCCTTAAACCATAAT
1 CCCTAAATCCCTAACCCTTAAACCATAAA
16854066 CCCTAAATCC
1 CCCTAAATCC
16854076 ATACTCCCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 23 0.72
29 9 0.28
ACGTcount: A:0.36, C:0.43, G:0.00, T:0.21
Consensus pattern (29 bp):
CCCTAAATCCCTAACCCTTAAACCATAAA
Found at i:16854058 original size:21 final size:20
Alignment explanation
Indices: 16854006--16854068 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
16853996 CCTAACGTCT
*
16854006 AACCCCTAAACCCCTAA-CCC
1 AACCCCTAAA-CCATAATCCC
*
16854026 TTAACCCCTAAACCTTAAATCCC
1 --AACCCCTAAACCAT-AATCCC
*
16854049 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
16854069 TAAATCCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.17
21 15 0.42
22 12 0.33
23 3 0.08
ACGTcount: A:0.37, C:0.44, G:0.00, T:0.19
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:16854077 original size:15 final size:14
Alignment explanation
Indices: 16854055--16854089 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
16854045 TCCCAACCCT
16854055 TAAACCATAATCCC
1 TAAACCATAATCCC
*
16854069 TAAATCCATACTCCC
1 TAAA-CCATAATCCC
16854084 TAAACC
1 TAAACC
16854090 TTAAAATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:16854086 original size:309 final size:305
Alignment explanation
Indices: 16853262--16854087 Score: 1270
Period size: 294 Copynumber: 2.7 Consensus size: 305
16853252 TCAATATATT
*
16853262 AAATTTATTATTATCTCTTTTAAAATTATATAAGAACATATTTAAAATATAAATTAAAAAACTAA
1 AAATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAA-TAA
* * * ** * *
16853327 TTAATCTAAACCCAAAACCCTAAC-CTGACCTCTG-AGGCCTAAACCCTAAATCCCTAACTCTTA
65 TTAATCTAAAACTAAAACCCTAACTC-GACCCCTGAATCCCTAAACCCTAAATCCATAACTATTA
* * ** * ** * *
16853390 ACCCCAAAATGTCTAACCCCTAAACTTCTAAACCTTAA-ATCTCAACCCTTAAA-CCATAATCCC
129 ACCCC-TAACGTCTAACCCCTAAACCCCTAACCCTTAACCCCT-AAACCTTAAATCC-CAA-CCC
16853453 -TAATCCATAATTCCTAATCCATAATCCCTAAATCCATACTCCCTAAACCTTAAAATAGTAACTC
190 TTAA-CCATAA-TCCTAATCCAT-ATCCCTAAATCCATACTCCCTAAACCTTAAAATAGTAACTC
16853517 CTAAACTGGCCTTAAATCTTAAATTAATCATATACCCTAAACTAAACCCTAAAC
252 CTAAACTGGCCTTAAATCTTAAATTAATCATATACCCTAAACTAAACCCTAAAC
16853571 AAATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAAT
1 AAATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAAT
16853636 TAATCTAAAACTAAAACCCTAACTCGACCCCTGAATCCCTAAACCCTAAATCCATAACTATTAAC
66 TAATCTAAAACTAAAACCCTAACTCGACCCCTGAATCCCTAAACCCTAAATCCATAACTATTAAC
16853701 CCCTAACGTCTAACCCCTAAACCCCTAACCCTTAACCCCTAAACCTTAAATCCCAACCCTT----
131 CCCTAACGTCTAACCCCTAAACCCCTAACCCTTAACCCCTAAACCTTAAATCCCAACCCTTAACC
16853762 A-AA-CC--AT--A-ATCCCTAAATCCATACTCCCTAAACCTTAAAATAGTAACTCCTAAACTGG
196 ATAATCCTAATCCATATCCCTAAATCCATACTCCCTAAACCTTAAAATAGTAACTCCTAAACTGG
16853820 CCTTAAATCTTAAATTAATCATATACCCTAAACTAAACCCTAAAC
261 CCTTAAATCTTAAATTAATCATATACCCTAAACTAAACCCTAAAC
16853865 AAATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAAT
1 AAATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAAT
16853930 TAATCTAAAACTAAAACCCTAACTCGACCCCTGAATCCCTAAACCCTAAATCCATAACTATTAAC
66 TAATCTAAAACTAAAACCCTAACTCGACCCCTGAATCCCTAAACCCTAAATCCATAACTATTAAC
16853995 CCCTAACGTCTAACCCCTAAACCCCTAACCCTTAACCCCTAAACCTTAAATCCCAACCCTTAAAC
131 CCCTAACGTCTAACCCCTAAACCCCTAACCCTTAACCCCTAAACCTTAAATCCCAACCCTT-AAC
16854060 CATAATCCCTAAATCCATACTCCCTAAA
195 CATAAT-CCT-AATCCATA-TCCCTAAA
16854088 CCTTAAAATA
Statistics
Matches: 480, Mismatches: 17, Indels: 40
0.89 0.03 0.07
Matches are distributed among these distances:
294 286 0.60
296 1 0.00
298 2 0.00
299 1 0.00
300 4 0.01
302 4 0.01
303 1 0.00
305 2 0.00
307 4 0.01
308 72 0.15
309 103 0.21
ACGTcount: A:0.42, C:0.28, G:0.02, T:0.28
Consensus pattern (305 bp):
AAATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAAT
TAATCTAAAACTAAAACCCTAACTCGACCCCTGAATCCCTAAACCCTAAATCCATAACTATTAAC
CCCTAACGTCTAACCCCTAAACCCCTAACCCTTAACCCCTAAACCTTAAATCCCAACCCTTAACC
ATAATCCTAATCCATATCCCTAAATCCATACTCCCTAAACCTTAAAATAGTAACTCCTAAACTGG
CCTTAAATCTTAAATTAATCATATACCCTAAACTAAACCCTAAAC
Found at i:16864068 original size:3 final size:3
Alignment explanation
Indices: 16864060--16864091 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
16864050 AGATAAATTA
16864060 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
16864092 GCTTGAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16869451 original size:30 final size:31
Alignment explanation
Indices: 16869409--16869469 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
16869399 GGGTTGGGAG
* *
16869409 GGGAAGAGAGTAAAAGTTTTGGGGGGAAAGT
1 GGGAAGAGAGTAAAAGTTTTGAGGGAAAAGT
*
16869440 GGGAAG-GAGTAAAATTTTTGAGGGAAAAGT
1 GGGAAGAGAGTAAAAGTTTTGAGGGAAAAGT
16869470 AAAAAAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.38, C:0.00, G:0.41, T:0.21
Consensus pattern (31 bp):
GGGAAGAGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:16869535 original size:9 final size:9
Alignment explanation
Indices: 16869518--16869554 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
16869508 TATGGTTTGA
*
16869518 TATTTGAAT
1 TATTCGAAT
16869527 TATTCGAAT
1 TATTCGAAT
*
16869536 TATTCGAGT
1 TATTCGAAT
16869545 TATTCGAAT
1 TATTCGAAT
16869554 T
1 T
16869555 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:16870068 original size:17 final size:18
Alignment explanation
Indices: 16870046--16870082 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
16870036 TTATCGTACA
16870046 ATCATAA-ATATTAA-AAC
1 ATCATAACAT-TTAATAAC
16870063 ATCATAACATTTAATAAC
1 ATCATAACATTTAATAAC
16870081 AT
1 AT
16870083 AAATATATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (18 bp):
ATCATAACATTTAATAAC
Found at i:16872699 original size:26 final size:24
Alignment explanation
Indices: 16872646--16872750 Score: 86
Period size: 26 Copynumber: 4.1 Consensus size: 24
16872636 TAATTTGAGG
* * *
16872646 TAAATAATATAAAAC-AATTCAAAG
1 TAAATAACATGAAACAAATT-AAAA
*
16872670 TAAATAATATGCAACACAAATTAAAA
1 TAAATAACATG-AA-ACAAATTAAAA
*
16872696 TAAATAACATACAAAGCAAATTAAAA
1 TAAATAACAT-GAAA-CAAATTAAAA
*
16872722 TAAATAACATAGAAGACAATTTAAAA
1 TAAATAACAT-GAA-ACAAATTAAAA
16872748 TAA
1 TAA
16872751 TTTATAAAAG
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
24 10 0.14
25 3 0.04
26 51 0.74
27 5 0.07
ACGTcount: A:0.63, C:0.10, G:0.05, T:0.23
Consensus pattern (24 bp):
TAAATAACATGAAACAAATTAAAA
Found at i:16873715 original size:14 final size:13
Alignment explanation
Indices: 16873686--16873712 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16873676 ATTTTTGTGT
16873686 ATAAAAAAATGAA
1 ATAAAAAAATGAA
16873699 ATAAAAAAATGAA
1 ATAAAAAAATGAA
16873712 A
1 A
16873713 ATAGAATCAA
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:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (13 bp):
ATAAAAAAATGAA
Found at i:16874182 original size:21 final size:19
Alignment explanation
Indices: 16874145--16874184 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
16874135 CTATGGATTG
16874145 TTTATTTTTTATTTTGGGT
1 TTTATTTTTTATTTTGGGT
16874164 TTTATTTATTTAGTTTTGGGT
1 TTTATTT-TTTA-TTTTGGGT
16874185 CCGGGCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.12, C:0.00, G:0.17, T:0.70
Consensus pattern (19 bp):
TTTATTTTTTATTTTGGGT
Found at i:16875247 original size:25 final size:25
Alignment explanation
Indices: 16875219--16875305 Score: 81
Period size: 25 Copynumber: 3.5 Consensus size: 25
16875209 TGGCTTGTAT
*
16875219 GAGCTTCCCGATAATTGGCTCGCAA
1 GAGCTTCCCGATAATTGGCTCGAAA
* *
16875244 GAGCTTCCTGTTACA-TGGCTC-AAA
1 GAGCTTCCCGATA-ATTGGCTCGAAA
* *
16875268 TGAACTTCCCG-TTATATGGCTCGAAA
1 -GAGCTTCCCGATAAT-TGGCTCGAAA
16875294 GAGCTTCCCGAT
1 GAGCTTCCCGAT
16875306 TACATGATTG
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
23 1 0.02
24 3 0.06
25 40 0.82
26 5 0.10
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (25 bp):
GAGCTTCCCGATAATTGGCTCGAAA
Found at i:16878703 original size:14 final size:14
Alignment explanation
Indices: 16878684--16878726 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
16878674 TAACAATTTA
16878684 TTTTAAAAATAATT
1 TTTTAAAAATAATT
*
16878698 TTTTAAAAA-AAGTA
1 TTTTAAAAATAA-TT
16878712 TTTTAAAAAT-ATT
1 TTTTAAAAATAATT
16878725 TT
1 TT
16878727 AAAATTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
TTTTAAAAATAATT
Found at i:16884060 original size:24 final size:24
Alignment explanation
Indices: 16884033--16884089 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
16884023 GATCTATGAT
16884033 TGCATTTGTTTCCGAATCTGAATA
1 TGCATTTGTTTCCGAATCTGAATA
*
16884057 TGCATTTGTTTCCGAATCTGAGTA
1 TGCATTTGTTTCCGAATCTGAATA
16884081 TGCATTTGT
1 TGCATTTGT
16884090 ATTCTATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (24 bp):
TGCATTTGTTTCCGAATCTGAATA
Found at i:16890085 original size:61 final size:61
Alignment explanation
Indices: 16889984--16890124 Score: 194
Period size: 61 Copynumber: 2.3 Consensus size: 61
16889974 AAAGGACAGT
* *
16889984 CTTTATGGCAAAACTCTAGACAAGAAAGCCTTTGCAGTGAGTACTGAATGTTAAAGAACGC
1 CTTTGTGGCAAAACTCTAGACAAGAAAGCCTTTGCAGTGAGTACTGAATATTAAAGAACGC
* * * * * *
16890045 TTTTGTGGCAAAGCTCTAGACAGGAAAGCCTTTGCGGTGAGTACTGAATATTAAGGAATGC
1 CTTTGTGGCAAAACTCTAGACAAGAAAGCCTTTGCAGTGAGTACTGAATATTAAAGAACGC
*
16890106 CTTTGTGGAAAAACT-TAGA
1 CTTTGTGGCAAAACTCTAGA
16890125 AAATGTAAGC
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 4 0.06
61 65 0.94
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (61 bp):
CTTTGTGGCAAAACTCTAGACAAGAAAGCCTTTGCAGTGAGTACTGAATATTAAAGAACGC
Found at i:16890841 original size:43 final size:43
Alignment explanation
Indices: 16890793--16890999 Score: 303
Period size: 43 Copynumber: 4.8 Consensus size: 43
16890783 GCACTGGAAA
*
16890793 AAACGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCCAC
* * *
16890836 AAACGCCGCTAAAGACCAAGACCTTTAGCGGTGCTTTTACTAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCCAC
*
16890879 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGC-TTTTCCTAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCC-AC
*
16890922 AAACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTAT-CAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTT-TCCAC
**
16890965 AAACGCCGCTAAAGAATAA-ACCTTTAGCGGCGCTT
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTT
16891000 CTCACAAAAA
Statistics
Matches: 148, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
42 19 0.13
43 124 0.84
44 4 0.03
45 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCCAC
Found at i:16891417 original size:43 final size:43
Alignment explanation
Indices: 16891369--16891532 Score: 235
Period size: 43 Copynumber: 3.8 Consensus size: 43
16891359 GCACTGGAAA
16891369 AAACGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTTCCAC
* * * *
16891412 AAACGCCGCTAAAGACCAAGACCTTTAGCGGTGCTTTTACTAC
1 AAACGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTTCCAC
* *
16891455 AAACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTAT-CAC
1 AAACGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTT-TCCAC
16891498 AAACGCCGCTAAAGA--ATAAACCTTTAGCGGCGCTT
1 AAACGCCGCTAAAGACCA-AAACCTTTAGCGGCGCTT
16891533 CTCACAAAAA
Statistics
Matches: 109, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.01
42 16 0.15
43 92 0.84
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTTCCAC
Found at i:16891544 original size:42 final size:42
Alignment explanation
Indices: 16891369--16891564 Score: 211
Period size: 43 Copynumber: 4.6 Consensus size: 42
16891359 GCACTGGAAA
* *
16891369 AAACGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTTC-CAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGC--TTTCACAC
* * *
16891412 AAACGCCGCTAAAGACCAAGACCTTTAGCGGTGCTTTTACTAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTCAC-AC
* * *
16891455 AAACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTCA-CAC
* *
16891498 AAACGCCGCTAAAGAATAA-ACCTTTAGCGGCGCTTCTCACAA
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTT-TCACAC
*
16891540 AAACGCTGCTAAA-AACATA-ACCTTT
1 AAACGCCGCTAAAGAACA-AGACCTTT
16891565 TAAAAAAATA
Statistics
Matches: 136, Mismatches: 12, Indels: 11
0.86 0.08 0.07
Matches are distributed among these distances:
41 6 0.04
42 37 0.27
43 92 0.68
44 1 0.01
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTCACAC
Found at i:16894177 original size:29 final size:30
Alignment explanation
Indices: 16894134--16894201 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
16894124 TTAAAATTTT
* * *
16894134 CAAAAAAGTATTTAACTTTT-AAAAAATTG
1 CAAAAAAGAAATTAACTTTTCAAAAAATTA
* *
16894163 CAAAAAAGAAATTAATTTTTCTAAAAATTA
1 CAAAAAAGAAATTAACTTTTCAAAAAATTA
*
16894193 CAAGAAAGA
1 CAAAAAAGA
16894202 TGCCACATAG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 17 0.53
30 15 0.47
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.29
Consensus pattern (30 bp):
CAAAAAAGAAATTAACTTTTCAAAAAATTA
Found at i:16896862 original size:14 final size:15
Alignment explanation
Indices: 16896843--16896890 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
16896833 CCCTTAAATC
16896843 CCTAAATCC-TAACT
1 CCTAAATCCTTAACT
16896857 CCTAAATCCTTAACT
1 CCTAAATCCTTAACT
* * *
16896872 -CTTAACCCTTAACC
1 CCTAAATCCTTAACT
16896886 CCTAA
1 CCTAA
16896891 CTACTAACCC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 20 0.71
15 8 0.29
ACGTcount: A:0.33, C:0.38, G:0.00, T:0.29
Consensus pattern (15 bp):
CCTAAATCCTTAACT
Found at i:16896907 original size:22 final size:21
Alignment explanation
Indices: 16896832--16896907 Score: 55
Period size: 22 Copynumber: 3.5 Consensus size: 21
16896822 CCCTAACCCG
* * *
16896832 ACCCTTAAATCCCTAAATCCTA
1 ACCCCTAAACCCCTAACT-CTA
* * *
16896854 ACTCCTAAATCCTTAACTCTTA
1 ACCCCTAAACCCCTAACTC-TA
*
16896876 A-CCCTTAACCCCTAACTACTA
1 ACCCCTAAACCCCTAACT-CTA
16896897 ACCCCTAAACC
1 ACCCCTAAACC
16896908 TTTAAATCCC
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
21 16 0.38
22 26 0.62
ACGTcount: A:0.34, C:0.39, G:0.00, T:0.26
Consensus pattern (21 bp):
ACCCCTAAACCCCTAACTCTA
Found at i:16897172 original size:16 final size:16
Alignment explanation
Indices: 16897144--16897176 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16897134 TCTCTTTTAC
16897144 AATTATATAATAAATT
1 AATTATATAATAAATT
16897160 AATTA-ATATATAAATT
1 AATTATATA-ATAAATT
16897176 A
1 A
16897177 GAAAACACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTATATAATAAATT
Found at i:16897205 original size:7 final size:7
Alignment explanation
Indices: 16897193--16897236 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
16897183 ACTAGTTAAT
16897193 CTAAACC
1 CTAAACC
16897200 CTAAACC
1 CTAAACC
*
16897207 ATAAA-C
1 CTAAACC
16897213 CTAAACC
1 CTAAACC
16897220 CTAAAACC
1 CT-AAACC
*
16897228 ATAAACC
1 CTAAACC
16897235 CT
1 CT
16897237 TAACATGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
6 5 0.16
7 20 0.65
8 6 0.19
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (7 bp):
CTAAACC
Found at i:16897213 original size:14 final size:13
Alignment explanation
Indices: 16897193--16897236 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
16897183 ACTAGTTAAT
16897193 CTAAACCCTAAACC
1 CTAAA-CCTAAACC
*
16897207 ATAAACCTAAACC
1 CTAAACCTAAACC
16897220 CTAAAACCATAAACC
1 CT-AAACC-TAAACC
16897235 CT
1 CT
16897237 TAACATGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 9 0.35
14 9 0.35
15 8 0.31
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (13 bp):
CTAAACCTAAACC
Found at i:16897228 original size:21 final size:20
Alignment explanation
Indices: 16897193--16897234 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 20
16897183 ACTAGTTAAT
16897193 CTAAACCCTAAACCATAAAC
1 CTAAACCCTAAACCATAAAC
16897213 CTAAACCCTAAAACCATAAAC
1 CTAAACCCT-AAACCATAAAC
16897234 C
1 C
16897235 CTTAACATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.50, C:0.36, G:0.00, T:0.14
Consensus pattern (20 bp):
CTAAACCCTAAACCATAAAC
Found at i:16897726 original size:114 final size:114
Alignment explanation
Indices: 16897526--16898120 Score: 528
Period size: 114 Copynumber: 4.9 Consensus size: 114
16897516 AATCCCTAAT
* * *
16897526 CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTG
*
16897591 GCTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCCAAAGCCCTGAG
66 GCTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAG
* * * *
16897640 CATTAGCGGTGCTTTCTTAAAAACACCGCTAAATCCCCTAAAGCTCACAAAACGGCGTCGTTTTG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTG
* * * *
16897705 GCTTAGGCTCTTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAAG
66 GCTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTG---AG
** * * **** * * *
16897757 CTCACAAAACGGCATTGTTTTGGCTTAGGTTTTTTGCGGTGCTTC-CTAAAAAACGCCGCTAAAT
1 --CA-TTAGCGGC---GCTTT--CTTA-----AAAAC---GC--CGCT--AAATC-CC-CCAAAG
* * * *
16897821 CCCCCAAAGCTCACAAAACGATGTCGTTTAGGCTTAGGGTT-TTTGCGGCGCTTTCTTGAAAACG
44 CTCAC-AA--------AACGACGTCGTTTTGGCTTA-GGTTCTTTGCGGCGCTTTCTTGAAAACG
16897885 CCGCTAAAGCCCTGAG
99 CCGCTAAAGCCCTGAG
* * *
16897901 CATTAGCGGCGCTTCCTCAAAAACGTCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTG
16897966 GCTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAG
66 GCTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAG
* * *
16898015 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTTGTTTTG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTG
* * **
16898080 GCTTAGGTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAA
66 GCTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAA
16898121 TCCCCCAAAG
Statistics
Matches: 383, Mismatches: 61, Indels: 74
0.74 0.12 0.14
Matches are distributed among these distances:
113 4 0.01
114 253 0.66
117 2 0.01
119 2 0.01
120 4 0.01
122 2 0.01
123 11 0.03
124 2 0.01
125 8 0.02
126 1 0.00
127 2 0.01
128 1 0.00
130 1 0.00
131 1 0.00
133 1 0.00
134 2 0.01
135 1 0.00
136 7 0.02
137 2 0.01
138 11 0.03
139 2 0.01
141 5 0.01
142 2 0.01
144 2 0.01
147 51 0.13
148 3 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (114 bp):
CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTG
GCTTAGGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAG
Found at i:16897742 original size:73 final size:73
Alignment explanation
Indices: 16897645--16897892 Score: 343
Period size: 73 Copynumber: 3.4 Consensus size: 73
16897635 CTGAGCATTA
* * *
16897645 GCGGTGCTTTCTTAAAAACACCGCTAAATCCCCTAAAGCTCACAAAACGGCGTCGTTTTGGCTTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTTTGGCTTA
*
16897710 GGCTCTTT
66 GGCTTTTT
* *
16897718 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAAGCTCACAAAACGGCATTGTTTTGGCTT
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCC-AAAAGCTCACAAAACGGCGTCGTTTTGGCTT
*
16897783 AGGTTTTTT
65 AGGCTTTTT
* * * * ** *
16897792 GCGGTGCTTCCTAAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGATGTCGTTTAGGCTTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTTTGGCTTA
*
16897857 GGGTTTTT
66 GGCTTTTT
*
16897865 GCGGCGCTTTCTTGAAAACGCCGCTAAA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAA
16897893 GCCCTGAGCA
Statistics
Matches: 153, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
73 88 0.58
74 65 0.42
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (73 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTTTGGCTTA
GGCTTTTT
Found at i:16897999 original size:187 final size:187
Alignment explanation
Indices: 16897718--16898455 Score: 670
Period size: 187 Copynumber: 3.9 Consensus size: 187
16897708 TAGGCTCTTT
* * * * * *
16897718 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAAGCTCACAAAACGGCATTGTTTTGGCTT
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCC-CAAAGCTCACAAAACGACGTCGTTTTGGCTT
* * * *
16897783 AGGTTTTTTGCGGTGCTTCCTAAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGATGTCGT
65 AGGTTCTTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGATGTCGT
*
16897848 TTAGGCTTAGGGTTTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTA
130 TTAGGCTTAGGGTTTTTGCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTA
*
16897906 GCGGCGCTTCCTCAAAAACGTCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
* * ** * ** * *
16897971 GGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAA--GCCCTGAGCATTAGC--GGCGCTTTC-
66 GGTTCTTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGC-TCA-CAAAACGATGTCG
* ** *** * *** ** **** * * * *** * * ** *
16898031 TTAAAAAC-GCCGCTAAAT-CCCCGAAAGCTCACAAAACGGCGTTGTTTTG-GCTTAGGTTTTTT
129 TT-TAGGCTTAGGGTTTTTGCGGCGCTTTCTTA-AAAACGCCG--CTAAAGCCCTGA-G-CATTA
16898093 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
1 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
* * * ** *
16898158 GGTTCTTTGCGGCGCTTTCTTAAAAATGCCGCTAAATCTCCGAAAGCTCACAAAACGGCGTTGTT
66 GGTTCTTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGATGTCGTT
* * * * *
16898223 TTGGCTTAGGTTTTTTGCGACGCTTTCTCAAAAACGCCGCTAAAGGCCTGAGCATTA
131 TAGGCTTAGGGTTTTTGCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * * * *
16898280 GCGGCGCTTTCCT-TAAAGCGCCGCTAAATCCCCGAAAGCTCATAAAACGGCGTCCTTTTTGCTT
1 GCGGCGC-TTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTT
* *
16898344 AGGTTTTTTGCGGCGCTTT-TTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAATGATGTCG
65 AGGTTCTTTGCGGCGCTTTCTT-AAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGATGTCG
*
16898408 TTTTGGCTTA-GGTTCTTTGCGGCGCTTTCTTAAAAACGCCGCTAAAGC
129 TTTAGGCTTAGGGTT-TTTGCGGCGCTTTCTTAAAAACGCCGCTAAAGC
16898456 TTATTTTTCG
Statistics
Matches: 423, Mismatches: 108, Indels: 39
0.74 0.19 0.07
Matches are distributed among these distances:
183 5 0.01
184 13 0.03
185 16 0.04
186 10 0.02
187 307 0.73
188 40 0.09
189 12 0.03
190 13 0.03
191 7 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (187 bp):
GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
GGTTCTTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGATGTCGTT
TAGGCTTAGGGTTTTTGCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:16898000 original size:261 final size:261
Alignment explanation
Indices: 16897531--16898006 Score: 801
Period size: 261 Copynumber: 1.8 Consensus size: 261
16897521 CTAATCATTA
* *
16897531 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTGGCTTA
1 GCGGCGCTTCCTAAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTAGGCTTA
* * *
16897596 GGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCCAAAGCCCTGAGCATTAGCGGTGCTTTCTTAAA
66 GGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCCAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAA
* *
16897661 AACACCGCTAAATCCCCTAAAGCTCACAAAACGGCGTCGTTTTGGCTTAGGCTCTTTGCGGCGCT
131 AACACCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTAGGCTCTTTGCGGCGCT
16897726 TTCTTAAAAACGCCGCTAAATCCCCGAAAAGCTCACAAAACGGCATTGTTTTGGCTTAGGTTTTT
196 TTCTTAAAAACGCCGCTAAATCCCCGAAAAGCTCACAAAACGGCATTGTTTTGGCTTAGGTTTTT
16897791 T
261 T
* * *
16897792 GCGGTGCTTCCTAAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGATGTCGTTTAGGCTTA
1 GCGGCGCTTCCTAAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTAGGCTTA
*
16897857 GGGTT-TTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTCAA
66 -GGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCCAAAGCCCTGAGCATTAGCGGCGCTTCCTCAA
** *
16897921 AAACGTCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTAGGTTCTTTGCGGCGC
130 AAACACCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTAGGCTCTTTGCGGCGC
*
16897986 TTTCTTGAAAACGCCGCTAAA
195 TTTCTTAAAAACGCCGCTAAA
16898007 GCCCTGAGCA
Statistics
Matches: 199, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
261 195 0.98
262 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (261 bp):
GCGGCGCTTCCTAAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTAGGCTTA
GGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCCAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAA
AACACCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTAGGCTCTTTGCGGCGCT
TTCTTAAAAACGCCGCTAAATCCCCGAAAAGCTCACAAAACGGCATTGTTTTGGCTTAGGTTTTT
T
Found at i:16898115 original size:73 final size:73
Alignment explanation
Indices: 16898020--16898266 Score: 404
Period size: 73 Copynumber: 3.4 Consensus size: 73
16898010 CTGAGCATTA
*
16898020 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTTGTTTTGGCTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTTGTTTTGGCTTA
16898085 GGTTTTTT
66 GGTTTTTT
* * * *
16898093 GCGGCGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTTGTTTTGGCTTA
*
16898158 GGTTCTTT
66 GGTTTTTT
* * *
16898166 GCGGCGCTTTCTTAAAAATGCCGCTAAATCTCCGAAAGCTCACAAAACGGCGTTGTTTTGGCTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTTGTTTTGGCTTA
16898231 GGTTTTTT
66 GGTTTTTT
*
16898239 GCGACGCTTTCTCAAAAACGCCGCTAAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAA
16898267 GGCCTGAGCA
Statistics
Matches: 157, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 157 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (73 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTTGTTTTGGCTTA
GGTTTTTT
Found at i:16898249 original size:260 final size:260
Alignment explanation
Indices: 16897906--16898453 Score: 882
Period size: 260 Copynumber: 2.1 Consensus size: 260
16897896 CTGAGCATTA
* * *
16897906 GCGGCGCTTCCTCAAAAACGTCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
* **
16897971 GGTTCTTTGCGGCGCTTTCTTGAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTT-CTTAA
66 GGTTCTTTGCGACGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCTT-A
**
16898035 AAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTTGTTTTGGCTTAGGTTTTTTGCGGCGC
130 AAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCCTTTTGGCTTAGGTTTTTTGCGGCGC
16898100 TTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTAGGTTCTT
195 TTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTAGGTTCTT
16898165 T
260 T
* * * * *
16898166 GCGGCGCTTTCTTAAAAATGCCGCTAAATCTCCGAAAGCTCACAAAACGGCGTTGTTTTGGCTTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
* *
16898231 GGTTTTTTGCGACGCTTTCTCAAAAACGCCGCTAAAGGCCTGAGCATTAGCGGCGCTTTCCTTAA
66 GGTTCTTTGCGACGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCTTAA
* * *
16898296 AGCGCCGCTAAATCCCCGAAAGCTCATAAAACGGCGTCCTTTTTGCTTAGGTTTTTTGCGGCGCT
131 AACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCCTTTTGGCTTAGGTTTTTTGCGGCGCT
** * *
16898361 TTTTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAATGATGTCGTTTTGGCTTAGGTTCTTT
196 TCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTAGGTTCTTT
16898426 GCGGCGCTTTCTTAAAAACGCCGCTAAA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAA
16898454 GCTTATTTTT
Statistics
Matches: 264, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
260 261 0.99
261 3 0.01
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (260 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
GGTTCTTTGCGACGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCTTAA
AACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCCTTTTGGCTTAGGTTTTTTGCGGCGCT
TCCTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTAGGTTCTTT
Found at i:16898368 original size:114 final size:114
Alignment explanation
Indices: 16898166--16898380 Score: 333
Period size: 114 Copynumber: 1.9 Consensus size: 114
16898156 TAGGTTCTTT
* * **
16898166 GCGGCGCTTTCTTAAAAATGCCGCTAAATCTCCGAAAGCTCACAAAACGGCGTTGTTTTGGCTTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCCTTTTGGCTTA
16898231 GGTTTTTTGCGACGCTTTCTCAAAAACGCCGCTAAAGGCCTGAGCATTA
66 GGTTTTTTGCGACGCTTTCTCAAAAACGCCGCTAAAGGCCTGAGCATTA
* * *
16898280 GCGGCGCTTTCCTT-AAAGCGCCGCTAAATCCCCGAAAGCTCATAAAACGGCGTCCTTTTTGCTT
1 GCGGCGCTTT-CTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCCTTTTGGCTT
* *
16898344 AGGTTTTTTGCGGCGCTTTTTCAAAAACGCCGCTAAA
65 AGGTTTTTTGCGACGCTTTCTCAAAAACGCCGCTAAA
16898381 TCCCCCAAAG
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
114 88 0.97
115 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.28
Consensus pattern (114 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCCTTTTGGCTTA
GGTTTTTTGCGACGCTTTCTCAAAAACGCCGCTAAAGGCCTGAGCATTA
Found at i:16898379 original size:73 final size:73
Alignment explanation
Indices: 16898280--16898453 Score: 235
Period size: 73 Copynumber: 2.4 Consensus size: 73
16898270 CTGAGCATTA
* * * * *
16898280 GCGGCGCTTTCCTT-AAAGCGCCGCTAAATCCCCGAAAGCTCATAAAACGGCGTCCTTTTTGCTT
1 GCGGCGCTTT-CTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCCTTTTGGCTT
*
16898344 AGGTTTTTT
65 AGGTTCTTT
* * *
16898353 GCGGCGCTTT-TTCAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAATGATGTCGTTTTGGCTT
1 GCGGCGCTTTCTT-AAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCCTTTTGGCTT
16898417 AGGTTCTTT
65 AGGTTCTTT
16898426 GCGGCGCTTTCTTAAAAACGCCGCTAAA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAA
16898454 GCTTATTTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
71 2 0.02
73 85 0.96
74 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (73 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGACGTCCTTTTGGCTTA
GGTTCTTT
Found at i:16904707 original size:28 final size:28
Alignment explanation
Indices: 16904656--16904727 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
16904646 GAACTTACCC
**
16904656 TGTGTTTACTATCCCAGTGGACTATATT
1 TGTGTTTACTATCCCAGTAAACTATATT
* * *
16904684 TGTGTTTACTGTCCTAGTAAACTATCTT
1 TGTGTTTACTATCCCAGTAAACTATATT
*
16904712 TGTGTTTATTATCCCA
1 TGTGTTTACTATCCCA
16904728 ACAGACTATC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.46
Consensus pattern (28 bp):
TGTGTTTACTATCCCAGTAAACTATATT
Found at i:16904958 original size:51 final size:51
Alignment explanation
Indices: 16904903--16905098 Score: 115
Period size: 51 Copynumber: 3.7 Consensus size: 51
16904893 TTATATCTTG
* * *
16904903 TACCATACTATCATAGCGCCTTTCA-CACATGGTCTTACACTACATACCTCA
1 TACCAGACTACCATAGCGCCTTTCATC-CATGGTCTTACACCACATACCTCA
* * * * * *
16904954 TACCAGACTGCCTTAGCGTCTTTCATCTATGGTCTTACACCATATACCTTA
1 TACCAGACTACCATAGCGCCTTTCATCCATGGTCTTACACCACATACCTCA
* * ** * ** * * * *
16905005 TACCTTGTTCGATGTTGTCATGGCATCTTTCATCAATGGTCTTACGCTACAAACCTCA
1 TACC-----AGA--CTACCATAGCGCCTTTCATCCATGGTCTTACACCACATACCTCA
* *
16905063 TACCAGACTACCATAGCGTCTTTCATCTATGGTCTT
1 TACCAGACTACCATAGCGCCTTTCATCCATGGTCTT
16905099 CCGCCATCTA
Statistics
Matches: 109, Mismatches: 28, Indels: 16
0.71 0.18 0.10
Matches are distributed among these distances:
51 67 0.61
52 1 0.01
53 2 0.02
56 2 0.02
58 37 0.34
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.34
Consensus pattern (51 bp):
TACCAGACTACCATAGCGCCTTTCATCCATGGTCTTACACCACATACCTCA
Found at i:16905000 original size:109 final size:109
Alignment explanation
Indices: 16904853--16905219 Score: 425
Period size: 109 Copynumber: 3.4 Consensus size: 109
16904843 TATACTTGGT
* * * *** ** *
16904853 TGCCATAACATCTTTCATCTATAGTCTTACATTGTATACCTTATATCTTGTACCATACTATCATA
1 TGCCATAGCGTCTTTCATCTATGGTCTTACACCATATACCTTATATCTTGTACCATGTTGTCAT-
*
16904918 GCGCCTTTCA-CACATGGTCTTACACTACATACCTCATACCAGAC
65 GCGTCTTTCATCACATGGTCTTACACTACATACCTCATACCAGAC
* * * *
16904962 TGCCTTAGCGTCTTTCATCTATGGTCTTACACCATATACCTTATACCTTGTTCGATGTTGTCATG
1 TGCCATAGCGTCTTTCATCTATGGTCTTACACCATATACCTTATATCTTGTACCATGTTGTCAT-
* * *
16905027 GCATCTTTCATCA-ATGGTCTTACGCTACAAACCTCATACCAGAC
65 GCGTCTTTCATCACATGGTCTTACACTACATACCTCATACCAGAC
* * * * *
16905071 TACCATAGCGTCTTTCATCTATGGTCTTCCGCCATCTACCTTATATCTTATACCATGTTGTCATG
1 TGCCATAGCGTCTTTCATCTATGGTCTTACACCATATACCTTATATCTTGTACCATGTTGTCATG
* * *
16905136 ACGTCTTTCATC-CATAGTCTTACACTACATACATCATACCAAAC
66 -CGTCTTTCATCACATGGTCTTACACTACATACCTCATACCAGAC
* * * *
16905180 TGCCATAGCATCTTTTATCTATGGTTTTACGCCATATACC
1 TGCCATAGCGTCTTTCATCTATGGTCTTACACCATATACC
16905220 ATCATCACGG
Statistics
Matches: 216, Mismatches: 39, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
108 1 0.00
109 213 0.99
110 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.36
Consensus pattern (109 bp):
TGCCATAGCGTCTTTCATCTATGGTCTTACACCATATACCTTATATCTTGTACCATGTTGTCATG
CGTCTTTCATCACATGGTCTTACACTACATACCTCATACCAGAC
Found at i:16905707 original size:27 final size:27
Alignment explanation
Indices: 16905613--16905716 Score: 102
Period size: 27 Copynumber: 3.9 Consensus size: 27
16905603 CCCAGGTAAG
* * *
16905613 TTGCGAACTAGGAGTTTTCTAGTTGAA
1 TTGCGAACTAGGGGTTTGCCAGTTGAA
* * *
16905640 TTGCAAATTTA-GGGTTTTCCAGTTGAA
1 TTGCGAA-CTAGGGGTTTGCCAGTTGAA
* *
16905667 TTGTGAACTGGGGGTTTGCCAGTTGAA
1 TTGCGAACTAGGGGTTTGCCAGTTGAA
* *
16905694 TTACGAACTAGGGGTTCGCCAGT
1 TTGCGAACTAGGGGTTTGCCAGT
16905717 CGAAGATTGA
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
26 1 0.02
27 59 0.95
28 2 0.03
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.35
Consensus pattern (27 bp):
TTGCGAACTAGGGGTTTGCCAGTTGAA
Found at i:16914190 original size:15 final size:16
Alignment explanation
Indices: 16914170--16914200 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
16914160 TTTATGAGGG
16914170 ATTTTGACT-TATTAT
1 ATTTTGACTCTATTAT
16914185 ATTTTGACTCTATTAT
1 ATTTTGACTCTATTAT
16914201 CTAAATAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.26, C:0.10, G:0.06, T:0.58
Consensus pattern (16 bp):
ATTTTGACTCTATTAT
Found at i:16920401 original size:57 final size:57
Alignment explanation
Indices: 16920335--16920465 Score: 154
Period size: 57 Copynumber: 2.3 Consensus size: 57
16920325 GTAAGCATTG
* * * * * * *
16920335 GTGGCGAACCTGTTAAAGGATAACCTTTGTGGCAAAACTCTCGAAACGCAAGCCTTT
1 GTGGTGAACCTATTAAAAGATAACATTTGTGGAAAAACTCTAGAAACGCAAGCCTTC
* * * *
16920392 GTGGTGAACCTATTAAAAGATAGCATTTTTGGAAAAACTCTAGAAAGGTAAGCCTTC
1 GTGGTGAACCTATTAAAAGATAACATTTGTGGAAAAACTCTAGAAACGCAAGCCTTC
*
16920449 GTGGTGAACCTCTTAAA
1 GTGGTGAACCTATTAAA
16920466 TAACGCACTT
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 62 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (57 bp):
GTGGTGAACCTATTAAAAGATAACATTTGTGGAAAAACTCTAGAAACGCAAGCCTTC
Found at i:16920529 original size:28 final size:28
Alignment explanation
Indices: 16920474--16920530 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
16920464 AATAACGCAC
* *
16920474 TTGTGGCAATCTCTAGATACGGAAGCCT
1 TTGTGGCAATCTCTAGAAAAGGAAGCCT
*
16920502 TTGTGGCTATCTCTA-AAAAGGAATGCCT
1 TTGTGGCAATCTCTAGAAAAGGAA-GCCT
16920530 T
1 T
16920531 CGTGACGCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (28 bp):
TTGTGGCAATCTCTAGAAAAGGAAGCCT
Found at i:16930092 original size:118 final size:119
Alignment explanation
Indices: 16929885--16930126 Score: 330
Period size: 118 Copynumber: 2.0 Consensus size: 119
16929875 GTTGTCAACA
* *
16929885 ATGGCCTTTACAAAACTAAATACACTTCGTTTAGCCTAGCATGAGGGTTCCTACGTTTCTATATT
1 ATGGCCTTTACAAAACTAAATACACTTCGTTTAACCTAGCATGAGGGTTCCTACGTTTCTACATT
* *
16929950 TTAGCAGATTACTCTCA-CCCC-CTCTC-GAAAATTTATCTACATGGTATCTTTG
66 TTAGCAGATTACTCTCACCCCCTCTCTCTG-AAATTTAGCAACATGGTATCTTTG
* * * * *
16930002 ATGGCCTTTTCAAAATTAAGTACACTTTCGTTTAACCTAGTATGAGGGTTCCTACGTTTCTGCAT
1 ATGGCCTTTACAAAACTAAATACAC-TTCGTTTAACCTAGCATGAGGGTTCCTACGTTTCTACAT
* *
16930067 TTTAGCTGCTTACTCT-ACCACCCTCTCTCTGAAATTTAGCAACATGGTATCTTTG
65 TTTAGCAGATTACTCTCACC-CCCTCTCTCTGAAATTTAGCAACATGGTATCTTTG
16930122 ATGGC
1 ATGGC
16930127 AGGGTAAATG
Statistics
Matches: 109, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
117 23 0.21
118 50 0.46
119 3 0.03
120 32 0.29
121 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.37
Consensus pattern (119 bp):
ATGGCCTTTACAAAACTAAATACACTTCGTTTAACCTAGCATGAGGGTTCCTACGTTTCTACATT
TTAGCAGATTACTCTCACCCCCTCTCTCTGAAATTTAGCAACATGGTATCTTTG
Found at i:16952384 original size:25 final size:25
Alignment explanation
Indices: 16952350--16952397 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
16952340 AATTGAGTTG
16952350 GTTTATTTTAAGTTTTAGTTGTATA
1 GTTTATTTTAAGTTTTAGTTGTATA
16952375 GTTTATTTTAAGTTTTAGTTGTA
1 GTTTATTTTAAGTTTTAGTTGTA
16952398 GTATTCATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (25 bp):
GTTTATTTTAAGTTTTAGTTGTATA
Found at i:16953213 original size:16 final size:16
Alignment explanation
Indices: 16953194--16953225 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16953184 TTTTGTGTAT
16953194 TGTCGATGCAATATTC
1 TGTCGATGCAATATTC
16953210 TGTCGATGCAATATTC
1 TGTCGATGCAATATTC
16953226 AAGTTGCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (16 bp):
TGTCGATGCAATATTC
Found at i:16958596 original size:22 final size:22
Alignment explanation
Indices: 16958572--16958614 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
16958562 ATTTTTATTT
*
16958572 TTTTAAA-AATTTATAAAAAAA
1 TTTTAAATAATATATAAAAAAA
16958593 TTTTAAATAATATATAAAAAAA
1 TTTTAAATAATATATAAAAAAA
16958615 GTTAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTTAAATAATATATAAAAAAA
Found at i:16972660 original size:580 final size:576
Alignment explanation
Indices: 16971557--16975593 Score: 6426
Period size: 580 Copynumber: 7.0 Consensus size: 576
16971547 TTTGCAGTGA
*
16971557 GCTTAGTAAGTTAATTTATGCACTCTCCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTG
1 GCTTAGTAAGTCAATTTATGCACTCTCCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTG
* * * *
16971622 AGATACTTGAAGAGTTCACTTAGCAATGGCTTATTCCTTAAAAAATTTGAACAAAGAGGAATTGA
66 AGATACTTGAAGAGTTCACTTAGCAAGGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTA
* * ** *
16971687 AGCTTATACAGATGCAGATTGGGCAGGCTCAATAACAGATAGAAGATATCCATTAGGATACTGTA
131 AGCTTATACAGATGCAAATTGGGCAGGCTCAATAACAGATAGAAGATCTATATCAGGATACTGTA
* *
16971752 CATTTGTTTGAGGAAACCTTGTGACTTGGCAAAG-AAAAAACTAAGGTGTTGTAGCAAGAAGTAG
196 CATTTGTTTGGGGAAACCTTGTGACTTGGCAAAGCAAAAAA-TAAAGTGTTGTAGCAAGAAGTAG
* *
16971816 TGTAGAGGCTAAGTTTAGATCAATGGCTCAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTA
260 TGTAGAGGCTGAGTTTAGATCAATGGCTTAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTA
*
16971881 TAGAAGAGCTGAGGAAACCAATAACTTCACCAATGAAGTTGTATCGTGACAGCAAAGCTGCCATG
325 TAGAAGAGCTGAGGAAACCAATAACTTCACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATG
* * *
16971946 ACGTTGATGACGCCAGTCATGCTCACGACGTTGTTCATACGCCTTCCCTAAGTTACATAAACACT
390 ACGTTGATGAAGCCGGTCATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACT
* * * *
16972011 TTCCACACTCGTAACAAATTAAAGGTTCACGATAATTATCAAATTCATTCCACCAAACCATTT-A
455 TTCCACACTTGCAACAAATTAAAGGTTCACGATAATTATCTAATTCATCCCACCAAACC-TTTAA
*
16972075 TATACTAAAATAAACAGCAACACTCATAGTCTTGGTTTGCTCACAATGATTAATATTT
519 TATACTAAAATAAACAGCAACACTCATAGTCTTGGTTTGCTCACAACGATTAATATTT
* *
16972133 GCTTAGTAAGTCAATTTATGCACTCTCCAATAGAGGAACATGAAGAAGCAGTGTTTCAGATTCTG
1 GCTTAGTAAGTCAATTTATGCACTCTCCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTG
*
16972198 AGATACTTGAAGAGTTCATTTAGCAAGGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTA
66 AGATACTTGAAGAGTTCACTTAGCAAGGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTA
*
16972263 AGCTTATACAGATGCAAATTGGGCAGGCAGGCTCAATAACAGATAAAAGATCTATATCAGGATAC
131 AGCTTATACAGATGCAAATT--G--GGCAGGCTCAATAACAGATAGAAGATCTATATCAGGATAC
* * *
16972328 TGTACATTTGTTTAGGGAAACCTTATGACTTGGCAAACCAAAAAATAAAGTGTTGTAGCAAGAAG
192 TGTACATTTGTTTGGGGAAACCTTGTGACTTGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAG
*
16972393 TAGTGTAGAGGCCGAGTTTAGATCAATGGCTTAAGGAATTTGTGAAATGATGTGGTTAAAAAGAA
257 TAGTGTAGAGGCTGAGTTTAGATCAATGGCTTAAGGAATTTGTGAAATGATGTGGTTAAAAAGAA
* *
16972458 TTATAGAAGAGTTGAGGAAACCAATAACTTCACCAATAAAGTTGTATCGTGATAGCAAAGCTGCC
322 TTATAGAAGAGCTGAGGAAACCAATAACTTCACCAATGAAGTTGTATCGTGATAGCAAAGCTGCC
16972523 ATGACGTTGATGAAGCCGGTCATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAAC
387 ATGACGTTGATGAAGCCGGTCATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAAC
* *
16972588 ACTTTCCACACTTGCAACAAATTAAAGGTTCACGATAATTACCTAATTCATCCCACTAAACCTTT
452 ACTTTCCACACTTGCAACAAATTAAAGGTTCACGATAATTATCTAATTCATCCCACCAAACCTTT
16972653 AATATACTAAAATAAACAGCAACACTCATAGTCTTGGTTTGCTCACAACGATTAATATTT
517 AATATACTAAAATAAACAGCAACACTCATAGTCTTGGTTTGCTCACAACGATTAATATTT
* * * * *
16972713 GCTTAGTAAATTAATTTATGCACTCTCCAATGGAAGAACATGAAGAAGCAATGTTTTGGATTCTG
1 GCTTAGTAAGTCAATTTATGCACTCTCCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTG
* *
16972778 AGATACTTAAAGAGTTCACTTAGCAAGGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTGA
66 AGATACTTGAAGAGTTCACTTAGCAAGGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTA
* * * * * * *
16972843 A-CTTATATAGATGCAAATTTGGTAGGCTTAATAACATATAAAAGATCTAAATCAGGATACTGTA
131 AGCTTATACAGATGCAAATTGGGCAGGCTCAATAACAGATAGAAGATCTATATCAGGATACTGTA
* * *
16972907 CATTTGTTTGGGGAAACCTTGTGACTTGGAAAAGCAAAAAAAAAAGTGTTGTAGTAAGAAGTAGT
196 CATTTGTTTGGGGAAACCTTGTGACTTGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGT
* * *
16972972 GTAGAGGCTAAGTTTAGATCAATGGCTCAAGGAATTTGTGAAATGATGTGGTTAAGAAGAATTAT
261 GTAGAGGCTGAGTTTAGATCAATGGCTTAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTAT
16973037 AGAAGAGCTGAGGAAACCAATAACTTCACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATGA
326 AGAAGAGCTGAGGAAACCAATAACTTCACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATGA
* * * * *
16973102 CGTTGGTGAAGCCGGTCATGCTCACAACGCTGTTCATGCGCCTTCCTTAAGTTACACAAACACTT
391 CGTTGATGAAGCCGGTCATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTT
* *
16973167 TCCACACTTACAACAAATTAAAGGTTCACG---ATTAGCTAATTCATCCCACCAAACCTTTAATA
456 TCCACACTTGCAACAAATTAAAGGTTCACGATAATTATCTAATTCATCCCACCAAACCTTTAATA
* * * *
16973229 TACTAAAATAAACAACAACACTCATATTCTTGGTGTGCTCAAAACGATTAATATTT
521 TACTAAAATAAACAGCAACACTCATAGTCTTGGTTTGCTCACAACGATTAATATTT
* * * * *
16973285 GCTAAGTAAGTCAATTTATGTACTCTCTAATGGAGGAACATGAAGAAGCAGTGTTTTGGATTCTA
1 GCTTAGTAAGTCAATTTATGCACTCTCCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTG
* *
16973350 AGATACTTGAAGAGTTCACTTAGCAAGGTCTTATTCTTTAAAAAATTTGAACAAAGAGGAATTTA
66 AGATACTTGAAGAGTTCACTTAGCAAGGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTA
* ** * * * *
16973415 AGCTTATACAGATGTAGTTTGGGCAGGCTCAATAACGGATAGGAGATCTACATCAAGATACTGTA
131 AGCTTATACAGATGCAAATTGGGCAGGCTCAATAACAGATAGAAGATCTATATCAGGATACTGTA
16973480 CATTTGTTT-GGGAAACCTTGTGACTTGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGT
196 CATTTGTTTGGGGAAACCTTGTGACTTGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGT
* * * *
16973544 GTAGAGGCTGAGTTTAGATCAAT-GTTTCAAGAAATTTGTGAAATGATATGGTTAAAAAGAGTTA
261 GTAGAGGCTGAGTTTAGATCAATGGCTT-AAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTA
* * * * *
16973608 TAGAAGAGTTTAGGAAACCGATAACTGCACCAATGAAGTTGTATTGTGATAGCAAAGCTGCCATG
325 TAGAAGAGCTGAGGAAACCAATAACTTCACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATG
*
16973673 ACGTTGATGAAGCCGGTCATGCTCACGACGTTGTTTATGCGCCTTCCCTAAGTTACATAAACACT
390 ACGTTGATGAAGCCGGTCATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACT
* * * *
16973738 TTTCACACTTGCAACAAATTAAAGGTTCACGATTATTATCAAATTCATCCCACCAAAACTTTAAT
455 TTCCACACTTGCAACAAATTAAAGGTTCACGATAATTATCTAATTCATCCCACCAAACCTTTAAT
* * * * *
16973803 AAACTAAAATAAATAGCAACACTCATATTCTAGGTTTGCTCACAATGATTAATATTT
520 ATACTAAAATAAACAGCAACACTCATAGTCTTGGTTTGCTCACAACGATTAATATTT
*
16973860 GCTTAGTAAGTCAATTTATGCACTCTCCAATAGAGGAACATGAAGAAGCAGTGTTTCGGATTCTG
1 GCTTAGTAAGTCAATTTATGCACTCTCCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTG
* ** * * *
16973925 AGATACTTGAAGAGTTCACTTAGCAAGGTCTTATTCTTCGAAAAAGTCTAACAAATAGGAATTTA
66 AGATACTTGAAGAGTTCACTTAGCAAGGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTA
* * * *
16973990 AGCTTATACAGATACAGATTGGGCAGGCTCAATAACAGATAGAGGATCTATATCAGGATACTATA
131 AGCTTATACAGATGCAAATTGGGCAGGCTCAATAACAGATAGAAGATCTATATCAGGATACTGTA
16974055 CATTTGTTTGGGGAAACCTTGTGACTTGGCAAAGCAAAAAATAAAGTGTTGTA-CTAAGAAGTAG
196 CATTTGTTTGGGGAAACCTTGTGACTTGGCAAAGCAAAAAATAAAGTGTTGTAGC-AAGAAGTAG
* * *
16974119 TGTAAAGGCTGAGTTTAGATCAATAGCTCAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTA
260 TGTAGAGGCTGAGTTTAGATCAATGGCTTAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTA
*
16974184 TAGAAGAGCTGAGGAAACCAATAACTTCACCAATGAAGTTGTATCATGATAGCAAAGCTGCCATG
325 TAGAAGAGCTGAGGAAACCAATAACTTCACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATG
* *
16974249 ACATTGATGAAGCCAGTCATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACT
390 ACGTTGATGAAGCCGGTCATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACT
* * *
16974314 TTCCACAGTTGTAACAAATTAAAGTTTCACGATAATTATCTAATTCATCCCACCAAACCTTTAAT
455 TTCCACACTTGCAACAAATTAAAGGTTCACGATAATTATCTAATTCATCCCACCAAACCTTTAAT
*
16974379 ATACTAAAATAAACAGCAACACTCATAGTCTTGGTTTGCTCACAATGATTAATATTT
520 ATACTAAAATAAACAGCAACACTCATAGTCTTGGTTTGCTCACAACGATTAATATTT
* * * * *
16974436 GCTTAGTAAGTCAATTTATGTACTCTCCAATGGAGGAACATGAAGAAGTAGTGCTTCAGATTTTG
1 GCTTAGTAAGTCAATTTATGCACTCTCCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTG
*
16974501 AGATACTTGAAGAGTTCACTTAGCAAGGGCTTATTCTTTAAAAAATTCAAACAAAGAGGAATTTA
66 AGATACTTGAAGAGTTCACTTAGCAAGGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTA
16974566 AGCTTATACAGATGCAAATTGGGCAGGCAGGCTCAATAACAGATAGAAGATCTATATCAGGATAC
131 AGCTTATACAGATGCAAATT--G--GGCAGGCTCAATAACAGATAGAAGATCTATATCAGGATAC
* *
16974631 TGTACATTTGTTTGGGGAAACCTTATGACTTGGCAAAGCAAAAAATAAAGTGTTGTAGCAAAAAG
192 TGTACATTTGTTTGGGGAAACCTTGTGACTTGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAG
16974696 TAGTGTAGAGGCTGAGTTTAGATCAATGGCTTAAGGAATTTGTGAAATGATGTGGTTAAAAAGAA
257 TAGTGTAGAGGCTGAGTTTAGATCAATGGCTTAAGGAATTTGTGAAATGATGTGGTTAAAAAGAA
*
16974761 TTATAGAACAGCTGAGGAAACCAATAACTTCACCAATGAAGTTGTATCGTGATAGCAAAGCTGCC
322 TTATAGAAGAGCTGAGGAAACCAATAACTTCACCAATGAAGTTGTATCGTGATAGCAAAGCTGCC
*
16974826 ATGACGTTGATGAAGCCGGTCATGCTCACGACATTGTTCATGCGCCTTCCCTAAGTTACATAAAC
387 ATGACGTTGATGAAGCCGGTCATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAAC
* *
16974891 ACTTTCCACACTTGCAACAAATTAAAGGTTCACGATAATTAGCTAATTCATCCCACTAAACCTTT
452 ACTTTCCACACTTGCAACAAATTAAAGGTTCACGATAATTATCTAATTCATCCCACCAAACCTTT
16974956 AATATACTAAAATAAACAGCAACACTCATAGTCTTGGTTTGCTCACAACGATTAATATTT
517 AATATACTAAAATAAACAGCAACACTCATAGTCTTGGTTTGCTCACAACGATTAATATTT
* * ** *
16975016 GCTTCGTAAGTCAATTTATGCACTCTTCAATGGAGGAACATGAAGAAATAGTGTTTTGGATTCTG
1 GCTTAGTAAGTCAATTTATGCACTCTCCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTG
* * *
16975081 AGATACTTGAAGAGTTCACTTAGCAAGGTCTTATTCTTTAAAAAATTTGAACAAAGAGGAATTGA
66 AGATACTTGAAGAGTTCACTTAGCAAGGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTA
*
16975146 AGCTTATACAGATGCAGATTGGGTAGGCAGGCTCAATAACAGATAGAAGATCTATATCAGGATAC
131 AGCTTATACAGATGCAAATT--G--GGCAGGCTCAATAACAGATAGAAGATCTATATCAGGATAC
* * *
16975211 TGTACATTTGTTTGGGGAAACCTTGTAACTTGGCAAAAGCAAAAAATGAAGTGTTGTTGCAAGAA
192 TGTACATTTGTTTGGGGAAACCTTGTGACTTGGC-AAAGCAAAAAATAAAGTGTTGTAGCAAGAA
*
16975276 GTAGTGTAGAGGCTGGGTTTAGATCAATGGCTTAAGGAATTTGTGAAATGATGTGGTTAAAAAGA
256 GTAGTGTAGAGGCTGAGTTTAGATCAATGGCTTAAGGAATTTGTGAAATGATGTGGTTAAAAAGA
* *
16975341 ATTATAGAAGAGCTGAGGAAACCAATAACTTCACCAATGAAGTTGTATCTTGATAGCAAAAG-TT
321 ATTATAGAAGAGCTGAGGAAACCAATAACTTCACCAATGAAGTTGTATCGTGATAGC-AAAGCTG
* *
16975405 CCATGACGTTGATGAAGCCAGTCATGCTCACGACGTTGTTCATGTGCCTTCCCTAAGTTACATAA
385 CCATGACGTTGATGAAGCCGGTCATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAA
* *
16975470 ACACTTTCCACACTTGCAACAACTTAAAGGTTCACG---ATTATCTAATCCATCCCACCAAACCT
450 ACACTTTCCACACTTGCAACAAATTAAAGGTTCACGATAATTATCTAATTCATCCCACCAAACCT
* * * *
16975532 TTAATAGACTAAAATAAACAGCAACACTCATAGTCTTGGTGTGCGCACAACGATTAGTATTT
515 TTAATATACTAAAATAAACAGCAACACTCATAGTCTTGGTTTGCTCACAACGATTAATATTT
16975594 TCTTTTAATT
Statistics
Matches: 3194, Mismatches: 246, Indels: 40
0.92 0.07 0.01
Matches are distributed among these distances:
571 2 0.00
572 455 0.14
573 59 0.02
575 574 0.18
576 617 0.19
577 2 0.00
578 83 0.03
579 20 0.01
580 1127 0.35
581 251 0.08
582 4 0.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (576 bp):
GCTTAGTAAGTCAATTTATGCACTCTCCAATGGAGGAACATGAAGAAGCAGTGTTTCGGATTCTG
AGATACTTGAAGAGTTCACTTAGCAAGGGCTTATTCTTTAAAAAATTCGAACAAAGAGGAATTTA
AGCTTATACAGATGCAAATTGGGCAGGCTCAATAACAGATAGAAGATCTATATCAGGATACTGTA
CATTTGTTTGGGGAAACCTTGTGACTTGGCAAAGCAAAAAATAAAGTGTTGTAGCAAGAAGTAGT
GTAGAGGCTGAGTTTAGATCAATGGCTTAAGGAATTTGTGAAATGATGTGGTTAAAAAGAATTAT
AGAAGAGCTGAGGAAACCAATAACTTCACCAATGAAGTTGTATCGTGATAGCAAAGCTGCCATGA
CGTTGATGAAGCCGGTCATGCTCACGACGTTGTTCATGCGCCTTCCCTAAGTTACATAAACACTT
TCCACACTTGCAACAAATTAAAGGTTCACGATAATTATCTAATTCATCCCACCAAACCTTTAATA
TACTAAAATAAACAGCAACACTCATAGTCTTGGTTTGCTCACAACGATTAATATTT
Found at i:16976830 original size:23 final size:25
Alignment explanation
Indices: 16976796--16976843 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
16976786 GATTTTCAAC
16976796 ATTTCAATC-TTT-TACACTAACAT
1 ATTTCAATCTTTTATACACTAACAT
16976819 ATTT-AATACTTTTATACACTAACAT
1 ATTTCAAT-CTTTTATACACTAACAT
16976844 TTTGATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 3 0.14
23 5 0.23
24 3 0.14
25 11 0.50
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (25 bp):
ATTTCAATCTTTTATACACTAACAT
Found at i:16981131 original size:25 final size:25
Alignment explanation
Indices: 16981103--16981154 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
16981093 TAGGGGCAAA
*
16981103 GTGGCAACACAAGTGTGGCAAGGAG
1 GTGGCAACACAAGTGTGGCAAGAAG
* *
16981128 GTGGCATCACAAGTGTGGTAAGAAG
1 GTGGCAACACAAGTGTGGCAAGAAG
16981153 GT
1 GT
16981155 CAGATGTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.13, G:0.38, T:0.17
Consensus pattern (25 bp):
GTGGCAACACAAGTGTGGCAAGAAG
Done.