Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008773.1 Hibiscus syriacus cultivar Beakdansim tig00111881_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1239499
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:1287 original size:21 final size:21
Alignment explanation
Indices: 1248--1288 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1238 AAATCGTTTG
* *
1248 ATTTCGGTTTGGTTTAATTTT
1 ATTTCGGTTTGGGTCAATTTT
*
1269 ATTTGGGTTTGGGTCAATTT
1 ATTTCGGTTTGGGTCAATTT
1289 GGGTCATCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.24, T:0.56
Consensus pattern (21 bp):
ATTTCGGTTTGGGTCAATTTT
Found at i:2395 original size:21 final size:20
Alignment explanation
Indices: 2344--2396 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 20
2334 TTTGTTATGG
* **
2344 AGTATCGATACTCAAGGGTT
1 AGTATCGATACTAAAGGCCT
* *
2364 AGTACCAATACTGAAAGGCCT
1 AGTATCGATACT-AAAGGCCT
2385 AGTATCGATACT
1 AGTATCGATACT
2397 CGCATACATT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (20 bp):
AGTATCGATACTAAAGGCCT
Found at i:6765 original size:31 final size:30
Alignment explanation
Indices: 6686--6771 Score: 84
Period size: 31 Copynumber: 2.8 Consensus size: 30
6676 ATATAATATT
*
6686 ATAA-TGATAAATTTAATGATCATTTTGTA
1 ATAATTGATAAATATAATGATCATTTTGTA
* *
6715 ATAATTAATAAAATATAATGATTATTTTGTA
1 ATAATTGAT-AAATATAATGATCATTTTGTA
* * * *
6746 GTAGTTCGATAAATCTAATGACCATT
1 ATAATT-GATAAATATAATGATCATT
6772 GCATATTCGT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
29 4 0.09
30 3 0.07
31 36 0.80
32 2 0.04
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (30 bp):
ATAATTGATAAATATAATGATCATTTTGTA
Found at i:9481 original size:45 final size:46
Alignment explanation
Indices: 9431--9517 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
9421 GGACCCTTAG
*
9431 TGCATTCGATG-TTTCA-AACAAGCCCGAGTGCATCGATGCATCAAA
1 TGCATTCGACGTTTTCATAA-AAGCCCGAGTGCATCGATGCATCAAA
* * *
9476 TGCATTCGACGTTTTTATAAAATCCTGAGTGCATCGATGCAT
1 TGCATTCGACGTTTTCATAAAAGCCCGAGTGCATCGATGCAT
9518 GGTATGTGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 10 0.28
46 24 0.67
47 2 0.06
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (46 bp):
TGCATTCGACGTTTTCATAAAAGCCCGAGTGCATCGATGCATCAAA
Found at i:17803 original size:64 final size:65
Alignment explanation
Indices: 17710--17852 Score: 175
Period size: 65 Copynumber: 2.2 Consensus size: 65
17700 TGCACTAAGA
* * * *
17710 GTGCATCGATGCATGAAGTGTATTCGATG-TTTCA-AACAAGCCCGAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAA-AAACCCGAGTGCATCGATGCATGG-T
17773 -T
64 AT
* **
17774 GTGCATCGATGCATCAAATGCATTTGATGTTTTCATAAAAACTTGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAACCCGAGTGCATCGATGCATGGTAT
*
17839 ATGCATCGATGCAT
1 GTGCATCGATGCAT
17853 GGTATGTGAA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
64 26 0.38
65 40 0.59
66 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAACCCGAGTGCATCGATGCATGGTAT
Found at i:17845 original size:19 final size:19
Alignment explanation
Indices: 17820--17890 Score: 124
Period size: 19 Copynumber: 3.7 Consensus size: 19
17810 AAAAACTTGA
17820 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
*
17839 ATGCATCGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
*
17858 GTGAATCGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
17877 GTGCATCGATGCAT
1 GTGCATCGATGCAT
17891 ATAATGCATT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (19 bp):
GTGCATCGATGCATGGTAT
Found at i:17943 original size:20 final size:20
Alignment explanation
Indices: 17918--17955 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
17908 CAATTTATTC
17918 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
17938 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
17956 TCCTATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:20667 original size:34 final size:33
Alignment explanation
Indices: 20629--20712 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 33
20619 GTAATAAACA
*
20629 AAATTAACCAAAATACATTAACAA-AAATTCCAA-C
1 AAATTAA-CAAAATAAATTAA-AATAAA-TCCAACC
20663 AAATTTAACAAAATAAATTAAAATAAATCCAACC
1 AAA-TTAACAAAATAAATTAAAATAAATCCAACC
**
20697 AAATTAATGAAATAAA
1 AAATTAACAAAATAAA
20713 GTAAGTATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
33 18 0.41
34 22 0.50
35 4 0.09
ACGTcount: A:0.62, C:0.14, G:0.01, T:0.23
Consensus pattern (33 bp):
AAATTAACAAAATAAATTAAAATAAATCCAACC
Found at i:20712 original size:33 final size:34
Alignment explanation
Indices: 20625--20701 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 34
20615 AATGGTAATA
* *
20625 AACAAAATTAACCAAAATACATTAACAAAAATTCC
1 AACAAATTTAA-CAAAATAAATTAACAAAAATTCC
20660 AACAAATTTAACAAAATAAATTAA-AATAAA-TCC
1 AACAAATTTAACAAAATAAATTAACAA-AAATTCC
20693 AACCAAATT
1 AA-CAAATT
20702 AATGAAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
33 7 0.18
34 21 0.55
35 10 0.26
ACGTcount: A:0.61, C:0.17, G:0.00, T:0.22
Consensus pattern (34 bp):
AACAAATTTAACAAAATAAATTAACAAAAATTCC
Found at i:22264 original size:17 final size:18
Alignment explanation
Indices: 22235--22282 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
22225 TGCAAAAAAA
*
22235 TTAATTAAA-TAAAATA-
1 TTAAATAAATTAAAATAC
*
22251 TTAAA-AAATTTAAATAC
1 TTAAATAAATTAAAATAC
22268 TTAAATAAATTAAAA
1 TTAAATAAATTAAAA
22283 ACAAAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 3 0.12
16 10 0.38
17 5 0.19
18 8 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAATAAATTAAAATAC
Found at i:35337 original size:21 final size:21
Alignment explanation
Indices: 35313--35356 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
35303 GGGCAGATTA
*
35313 CCCAGAGGGAACTGATTCCCC
1 CCCAGAGGGAACCGATTCCCC
* * *
35334 CCCAGGGGGTACCGATTCTCC
1 CCCAGAGGGAACCGATTCCCC
35355 CC
1 CC
35357 TGAATGGTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.18, C:0.41, G:0.25, T:0.16
Consensus pattern (21 bp):
CCCAGAGGGAACCGATTCCCC
Found at i:39174 original size:45 final size:45
Alignment explanation
Indices: 39117--39214 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
39107 TCGATATTTC
39117 AAAATAGC-CTGAGTGCATCGATGCATGGCT-TGTGCATCAAAGCAT
1 AAAAT-GCACTGAGTGCATCGATGCATGG-TATGTGCATCAAAGCAT
* * *
39162 CAAATGCACTGAGTGCATCGATGCATGGTATGTGCATCGATGCAT
1 AAAATGCACTGAGTGCATCGATGCATGGTATGTGCATCAAAGCAT
39207 AAAATGCA
1 AAAATGCA
39215 TTCGATGTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
44 3 0.06
45 44 0.94
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (45 bp):
AAAATGCACTGAGTGCATCGATGCATGGTATGTGCATCAAAGCAT
Found at i:42117 original size:10 final size:10
Alignment explanation
Indices: 42086--42120 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
42076 GAAGCCATTG
42086 ATCAACAACA
1 ATCAACAACA
**
42096 AGAAACAACA
1 ATCAACAACA
42106 ATCAACAACA
1 ATCAACAACA
42116 ATCAA
1 ATCAA
42121 GAGAGAATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.63, C:0.26, G:0.03, T:0.09
Consensus pattern (10 bp):
ATCAACAACA
Found at i:42338 original size:19 final size:19
Alignment explanation
Indices: 42314--42358 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
42304 AAATTTGTAT
42314 TGTTCTCTTTGGGAGAGAG
1 TGTTCTCTTTGGGAGAGAG
*
42333 TGTTCTCTTTTGGAGAGAG
1 TGTTCTCTTTGGGAGAGAG
42352 TGTTCTC
1 TGTTCTC
42359 AAGAATTTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.13, C:0.13, G:0.31, T:0.42
Consensus pattern (19 bp):
TGTTCTCTTTGGGAGAGAG
Found at i:43222 original size:18 final size:18
Alignment explanation
Indices: 43199--43251 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
43189 AGGGTTTTAC
*
43199 GTGGTCCTTTGGGACATA
1 GTGGTCCTTCGGGACATA
*
43217 GTGGTCCTTCAGGACATA
1 GTGGTCCTTCGGGACATA
43235 GTGGTCCTTCGGGACAT
1 GTGGTCCTTCGGGACAT
43252 TTCATAGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.17, C:0.21, G:0.32, T:0.30
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:47385 original size:20 final size:20
Alignment explanation
Indices: 47341--47385 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
47331 AAATTATTAT
47341 TTTATTATTTTGATGTTTTA
1 TTTATTATTTTGATGTTTTA
* *
47361 ATTATTATCTTTTATG-TTTA
1 TTTATTAT-TTTGATGTTTTA
47381 TTTAT
1 TTTAT
47386 CCTTTCGTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (20 bp):
TTTATTATTTTGATGTTTTA
Found at i:59162 original size:977 final size:973
Alignment explanation
Indices: 57240--59195 Score: 3473
Period size: 977 Copynumber: 2.0 Consensus size: 973
57230 ATACTACGTC
57240 TACGAGTGCAAGACGTGTAACCGGCGTTCCCCTCGTTCCAAGCCCTCGGCGGTCATCGTGCTAGT
1 TACGAGTGCAAGACGTGTAACCGGCGTTCCCCTCGTTCCAAGCCCTCGGCGGTCATCGTGCTAGT
57305 CATAAGAAGCCCAAGGCGGTGGCGGTGGTTGAGGAGAAGATACGACAATCCACGGCCACGACGAC
66 CATAAGAAGCCCAAGGCGGTGGCGGTGGTTGAGGAGAAGATACGACAATCCACGGCCACGACGAC
57370 GAATATAGGTTTATCGGATGAAGAAGGCAACAATTCATGAAGACCAACAACATCTCTCTCTCTCT
131 GAATATAGGTTTATCGGATGAAGAAGGCAACAATTCATGAAGACCAACAACATCTCTCTCTCTCT
57435 CAATTGAGCAACACCAACAACTATAACAACAACATAGAGGTTTGTATGGCAGAAGCAACAACAAC
196 CAATTGAGCAACACCAACAACTATAACAACAACATAGAGGTTTGTATGGCAGAAGCAACAACAAC
57500 AGCCTATAAGGTTCATGAATGCTCGATTTGTGGGTCGGAGTTTACATCGGGGCAAGCCTTGGGAG
261 AGCCTATAAGGTTCATGAATGCTCGATTTGTGGGTCGGAGTTTACATCGGGGCAAGCCTTGGGAG
57565 GCACATGAGAAGACACAGAGGGTCCATAGGTACTAATATTACAGCTGCTAACACTGCCTTGTCGT
326 GCACAT-AGAAGACACAGAGGGTCCATAGGTACTAATATTACAGCTGCTAACACTGCCTTGTCGT
57630 TGAAAGTGCCAACCCCAATGGACAACCTCAGCAACCTAAGAAACCGAAGAATGTTCTGTCTCTAG
390 TGAAAGTGCCAACCCCAATGGACAACCTCAGCAACCTAAGAAACCGAAGAATGTTCTGTCTCTAG
57695 ACTTGGATCTCAATCTTCCGGCTCCCGACGACGATCATTGGGAACCAAATTCCCCTTTGCTTTGA
455 ACTTGGATCTCAATCTTCCGGCTCCCGACGACGATCATTGGGAACCAAATTCCCCTTTGCTTTGA
*
57760 AAGCAACAATCGCAGCAGCAGCAGCAACAACAACAGAAACAATCAGCTTTGTCTTCTCTGCCCCC
520 AAGCAACAATCGCAGCAGCAGCAG--ACAACAACAGAAACAATCAGCTCTGTCTTCTCTGCCCCC
57825 GCTTTGGTGGATTGTCATTACTAGAAACAGGTTAAAACAAACTTCCAACTACACAATTTATTATC
583 GCTTTGGTGGATTGTCATTACTAGAAACAGGTTAAAACAAACTTCCAACTACACAATTTATTATC
* *
57890 ATCCATGGTTATTGGGTGTTTTTGATTCTTTTTTTTTATACTTTATTTATTCACCATTTACAAGA
648 A-CAATGGTTATTGGGTGTTTTTGATTCTTTTTTTTTATACTTTATTTATTCAACATTTACAAGA
57955 TTCTTTTGATTCTTTGATGAAAACAATGAATAATGTGTTATATGTACAAAGTTTCATGATGGGTA
712 TTCTTTTGATTCTTTGATGAAAACAATGAATAATGTGTTATATGTACAAAGTTTCATGATGGGTA
58020 TTTTCTTTTCTCTTTTTTTTTTCATCTGCTTTGATTTATTCGATTTTTTTTTCGAGTCGAAATGT
777 TTTTCTTTTCTCTTTTTTTTTTCATCTGCTTTGATTTATTCGATTTTTTTTTCGAGTCGAAATGT
58085 GTTAAACACTTTGAGAGAGAAAGAGATTTAGGCCTGGATTTGTCACCACCACAACCCAAGAATTG
842 GTTAAACACTTTGAGAGAGAAAGAGATTTAGGCCTGGATTTGTCACCACCACAACCCAAGAATTG
*
58150 TGGCTGAATTTTCATTTTCACTCTCATATTGGGTGGCGGTGAT-AA-AGAATAATCTCTC-AATA
907 TGGCTGAATTTTCATTTTCACTCTCATAGTGGGTGGCGGTGATAAATAGAATAATCTCTCAAATA
58212 AA
972 AA
58214 TACGAGTGCAAGACGTGTAACCGGACGTTCCCCTCGTTCCAAGCCCTCGGCGGTCATCGTGCTAG
1 TACGAGTGCAAGACGTGTAACCGG-CGTTCCCCTCGTTCCAAGCCCTCGGCGGTCATCGTGCTAG
58279 TCATAAGAAGCCCAAGGCGGTGGCGGTGGTTGAGGAGAAGATACGACAATCCACGGCCACGACGA
65 TCATAAGAAGCCCAAGGCGGTGGCGGTGGTTGAGGAGAAGATACGACAATCCACGGCCACGACGA
58344 CG-A-ATAGGTTTATCGGATGAAGAAGGGCAAC-ATTCATGAAGACCAACAACATCTCATCTCTC
130 CGAATATAGGTTTATCGGATGAAGAA-GGCAACAATTCATGAAGACCAACAACATCTC-TCTCTC
*
58406 TCCCTTCAATTGAGC-ACACCAACAACTATAACAACAACAATAGAGGTTTGTATGGCAGCAGCAA
193 T--C-TCAATTGAGCAACACCAACAACTATAACAACAAC-ATAGAGGTTTGTATGGCAGAAGCAA
58470 C-ACAACAAGCCTAATAAGGTTCATGAATGCTCGATTTGTGGGTCGGAGTTTACATCGGGGCAAG
254 CAACAAC-AGCCT-ATAAGGTTCATGAATGCTCGATTTGTGGGTCGGAGTTTACATCGGGGCAAG
58534 CCTTGGGAGGGCACAT-G-AGACACAGAGGGTCCATAGGTACTAATATTACAGCTGCTAACACTG
317 CCTTGGGA-GGCACATAGAAGACACAGAGGGTCCATAGGTACTAATATTACAGCTGCTAACACTG
58597 CCTTGTCGTTGAAAGTGCCAACCCCAATGGAACAACCTCAGCAACCTAAGAAACCGAAGAATGTT
381 CCTTGTCGTTGAAAGTGCCAACCCCAATGG-ACAACCTCAGCAACCTAAGAAACCGAAGAATGTT
58662 CTGTCTCTAGACTTGGATCTCAATCTTCCGGCTCCCGACGACGATCATTGGGAACCAAAATTCCC
445 CTGTCTCTAGACTTGGATCTCAATCTTCCGGCTCCCGACGACGATCATTGGGAACC-AAATTCCC
58727 CTTTGCTTTGAAACAGCAACAATCGCAGCAGCAGCAG-CAACAACAGAAACAATCAGCTCTGTCT
509 CTTTGCTTTG-AA-AGCAACAATCGCAGCAGCAGCAGACAACAACAGAAACAATCAGCTCTGTCT
*
58791 TCTCTGCCCCCGCTTTGGTGGATTGTCATTACTAGAAACAAGGTTAAAA-GAACTTCCAACTACA
572 TCTCTGCCCCCGCTTTGGTGGATTGTCATTACTAGAAAC-AGGTTAAAACAAACTTCCAACTACA
58855 CAATTTATTATC-CAATGGTTATTGGGTG-TTTTGATTC-TTTTTTTTATACTTTTATTTATTCA
636 CAATTTATTATCACAATGGTTATTGGGTGTTTTTGATTCTTTTTTTTTATAC-TTTATTTATTC-
58917 AACATTTTACAAGATTCTTTTGATTCTTTGATGAAAAACAATGAATAATGTGTTATA-GTACAAA
699 AACA-TTTACAAGATTCTTTTGATTCTTTGATG-AAAACAATGAATAATGTGTTATATGTACAAA
58981 GTTTCATGATGGGTATTTT-TTTTCTC-TTTTTTTTTCATCTGCTTTGATTTATTCGATTTTCTT
762 GTTTCATGATGGGTATTTTCTTTTCTCTTTTTTTTTTCATCTGCTTTGATTTATTCGATTTT-TT
59044 TTTCGAGTCGAAATGTGTTAAACACTTTGAGAGAGAAAGAGAGAATTTAGGCCTGGATTTGTCAC
826 TTTCGAGTCGAAATGTGTTAAACACTTTGAGAGAG-AA-AGAG-ATTTAGGCCTGGATTTGTCAC
59109 CACCACAACCCAAGAATTGTGGCTGAATTTTCATTTTCACTCTCAT-GTGGGTGGCGGTGATCAA
888 CACCACAACCCAAGAATTGTGGCTGAATTTTCATTTTCACTCTCATAGTGGGTGGCGGTGAT-AA
59173 ATAGAATAATCTCTCAAATAAA
952 ATAGAATAATCTCTCAAATAAA
59195 T
1 T
59196 CCCCCAAATA
Statistics
Matches: 949, Mismatches: 6, Indels: 47
0.95 0.01 0.05
Matches are distributed among these distances:
973 57 0.06
974 92 0.10
975 169 0.18
976 161 0.17
977 263 0.28
978 153 0.16
979 11 0.01
980 36 0.04
981 7 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (973 bp):
TACGAGTGCAAGACGTGTAACCGGCGTTCCCCTCGTTCCAAGCCCTCGGCGGTCATCGTGCTAGT
CATAAGAAGCCCAAGGCGGTGGCGGTGGTTGAGGAGAAGATACGACAATCCACGGCCACGACGAC
GAATATAGGTTTATCGGATGAAGAAGGCAACAATTCATGAAGACCAACAACATCTCTCTCTCTCT
CAATTGAGCAACACCAACAACTATAACAACAACATAGAGGTTTGTATGGCAGAAGCAACAACAAC
AGCCTATAAGGTTCATGAATGCTCGATTTGTGGGTCGGAGTTTACATCGGGGCAAGCCTTGGGAG
GCACATAGAAGACACAGAGGGTCCATAGGTACTAATATTACAGCTGCTAACACTGCCTTGTCGTT
GAAAGTGCCAACCCCAATGGACAACCTCAGCAACCTAAGAAACCGAAGAATGTTCTGTCTCTAGA
CTTGGATCTCAATCTTCCGGCTCCCGACGACGATCATTGGGAACCAAATTCCCCTTTGCTTTGAA
AGCAACAATCGCAGCAGCAGCAGACAACAACAGAAACAATCAGCTCTGTCTTCTCTGCCCCCGCT
TTGGTGGATTGTCATTACTAGAAACAGGTTAAAACAAACTTCCAACTACACAATTTATTATCACA
ATGGTTATTGGGTGTTTTTGATTCTTTTTTTTTATACTTTATTTATTCAACATTTACAAGATTCT
TTTGATTCTTTGATGAAAACAATGAATAATGTGTTATATGTACAAAGTTTCATGATGGGTATTTT
CTTTTCTCTTTTTTTTTTCATCTGCTTTGATTTATTCGATTTTTTTTTCGAGTCGAAATGTGTTA
AACACTTTGAGAGAGAAAGAGATTTAGGCCTGGATTTGTCACCACCACAACCCAAGAATTGTGGC
TGAATTTTCATTTTCACTCTCATAGTGGGTGGCGGTGATAAATAGAATAATCTCTCAAATAAA
Found at i:62948 original size:13 final size:13
Alignment explanation
Indices: 62930--62966 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
62920 ACCAGAGACG
*
62930 CTTGAGTAGCAAA
1 CTTGAGCAGCAAA
62943 CTTGAGCAGCAAA
1 CTTGAGCAGCAAA
62956 CTTGAGCAGCA
1 CTTGAGCAGCA
62967 GTAGCTAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (13 bp):
CTTGAGCAGCAAA
Found at i:65000 original size:29 final size:29
Alignment explanation
Indices: 64958--65016 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
64948 GGTATATCCA
64958 AGCTTAAGGCTAAGCTTCTGAAATTATGT
1 AGCTTAAGGCTAAGCTTCTGAAATTATGT
*
64987 AGCTTAAGGTTAAGCTTCTGAAATTATGT
1 AGCTTAAGGCTAAGCTTCTGAAATTATGT
65016 A
1 A
65017 CTCCTATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (29 bp):
AGCTTAAGGCTAAGCTTCTGAAATTATGT
Found at i:66096 original size:22 final size:22
Alignment explanation
Indices: 66048--66096 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
66038 GATTGAGATA
*
66048 GATTTGTGTTTTAGAATTTAAG
1 GATTTATGTTTTAGAATTTAAG
* *
66070 AATTTATGTATTT-GAATTTAGG
1 GATTTATGT-TTTAGAATTTAAG
66092 GATTT
1 GATTT
66097 TGAAGATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (22 bp):
GATTTATGTTTTAGAATTTAAG
Found at i:72658 original size:18 final size:18
Alignment explanation
Indices: 72637--72681 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
72627 TCCACTTCGG
*
72637 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
72655 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
72673 GAGCCATCA
1 GAGCCATCA
72682 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:73229 original size:32 final size:32
Alignment explanation
Indices: 73193--73281 Score: 112
Period size: 32 Copynumber: 2.8 Consensus size: 32
73183 GGAAATGGCT
73193 ATCGCAAATGCGAATGAAAATCGCAACGAC-AA
1 ATCGC-AATGCGAATGAAAATCGCAACGACAAA
*
73225 ATCGCAATGCAAAATG-AAATCGCAACGACAAA
1 ATCGCAATGC-GAATGAAAATCGCAACGACAAA
*
73257 ATCGCAACGCGAAAT-AAAATCGCAA
1 ATCGCAATGCG-AATGAAAATCGCAA
73282 TGCGATTTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
31 18 0.36
32 32 0.64
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.12
Consensus pattern (32 bp):
ATCGCAATGCGAATGAAAATCGCAACGACAAA
Found at i:73320 original size:14 final size:14
Alignment explanation
Indices: 73298--73388 Score: 74
Period size: 14 Copynumber: 5.9 Consensus size: 14
73288 TTGTGTTTCG
*
73298 CGTTACGATTTTGT
1 CGTTGCGATTTTGT
*
73312 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
73328 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
73344 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
73361 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
73377 CGTTGCGATTTT
1 CGTTGCGATTTT
73389 CATTTCGCAT
Statistics
Matches: 63, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
14 26 0.41
15 3 0.05
16 12 0.19
17 4 0.06
18 12 0.19
19 6 0.10
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:73362 original size:33 final size:33
Alignment explanation
Indices: 73293--73404 Score: 199
Period size: 33 Copynumber: 3.4 Consensus size: 33
73283 GCGATTTGTG
* *
73293 TTTCGCGTTACGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
73325 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
73358 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
73391 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
73405 AGCCATTTCC
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 25 0.32
33 52 0.68
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:73426 original size:20 final size:19
Alignment explanation
Indices: 73389--73441 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
73379 TTGCGATTTT
* *
73389 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCAATAGC
*
73408 CATTTCCGCGTTGCAATAGT
1 CATTT-CGCGTTGCAATAGC
73428 CATTTTCGCGTTGC
1 CA-TTTCGCGTTGC
73442 GATTTAAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.17
20 21 0.72
21 3 0.10
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCAATAGC
Found at i:75301 original size:14 final size:14
Alignment explanation
Indices: 75282--75317 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
75272 ATTGTTTAAT
75282 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
75296 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
75310 TGATTTGT
1 TGATTTGT
75318 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:75458 original size:14 final size:14
Alignment explanation
Indices: 75439--75492 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
75429 GAAACTGACT
75439 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
75453 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
75472 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
75486 ATCGCAA
1 ATCGCAA
75493 TGCGATTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.31
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:75541 original size:20 final size:20
Alignment explanation
Indices: 75516--75591 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
75506 TCGCATTGCA
*
75516 ATTTTCTAGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
* ***
75536 ATTTTCGCGTTGCGATTTTTC
1 ATTTTCGAGTTGCGA-TAGCC
*
75557 A-TTTCGAATTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
*
75576 ATTTTCGCGTTGCGAT
1 ATTTTCGAGTTGCGAT
75592 TTCTTCGTTG
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
19 3 0.07
20 36 0.86
21 3 0.07
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (20 bp):
ATTTTCGAGTTGCGATAGCC
Found at i:75554 original size:34 final size:35
Alignment explanation
Indices: 75504--75607 Score: 113
Period size: 40 Copynumber: 2.9 Consensus size: 35
75494 GCGATTTTCA
* *
75504 TTTCGCATTGCAATTTTC-TAGTTGCGATAGCCAT
1 TTTCGCGTTGCGATTTTCTTAGTTGCGATAGCCAT
*
75538 TTTCGCGTTGCGATTTTTCATTTCGAATTGCGATAGCCAT
1 TTTCGCGTTGCGA-TTTTC--TT--AGTTGCGATAGCCAT
*
75578 TTTCGCGTTGCGA-TTTCTTCGTTGCGATAG
1 TTTCGCGTTGCGATTTTCTTAGTTGCGATAG
75608 TCAAATGAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
34 20 0.34
35 5 0.08
36 2 0.03
38 5 0.08
40 27 0.46
ACGTcount: A:0.16, C:0.20, G:0.21, T:0.42
Consensus pattern (35 bp):
TTTCGCGTTGCGATTTTCTTAGTTGCGATAGCCAT
Found at i:75832 original size:20 final size:20
Alignment explanation
Indices: 75807--75898 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
75797 TTGAAGATGA
75807 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
75827 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
* **
75847 TTGCGATTTTGTATTATCTCG
1 TTGCGATTTT-CAGAATCTCG
** * * *
75868 TTGCGATAGTCAGTATCGCA
1 TTGCGATTTTCAGAATCTCG
75888 TTGCGATTTTC
1 TTGCGATTTTC
75899 CAAATTCGCA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:76148 original size:12 final size:12
Alignment explanation
Indices: 76129--76162 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
76119 TTCTCTGGCG
76129 ACATCCGTTCCT
1 ACATCCGTTCCT
*
76141 ATATCCGTTCCT
1 ACATCCGTTCCT
76153 ACATCC-TTCC
1 ACATCCGTTCC
76163 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:76770 original size:24 final size:24
Alignment explanation
Indices: 76712--76758 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
76702 AGTCAGTATT
* *
76712 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATATTGGTCAATACC
76736 CGAACTTTGATATTGGTCAATAC
1 CGAACTTTGATATTGGTCAATAC
76759 TCGGATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATATTGGTCAATACC
Found at i:79275 original size:33 final size:33
Alignment explanation
Indices: 79228--79354 Score: 175
Period size: 33 Copynumber: 3.8 Consensus size: 33
79218 GGAAATTACT
79228 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
79261 ATCGTAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * * *
79293 TTTCACAATGCGAAATTAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
79327 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
79355 CGAATTTAAT
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
32 1 0.01
33 77 0.97
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:79315 original size:66 final size:66
Alignment explanation
Indices: 79232--79361 Score: 224
Period size: 66 Copynumber: 2.0 Consensus size: 66
79222 ATTACTATCG
* *
79232 CAATGCGAAATGAAAATCGCAACGAGAGAATCGTAATGCGAAATGAAAATCGCAACGCTAATTTC
1 CAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTTC
79297 A
66 A
* *
79298 CAATGCGAAATTAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
1 CAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
79362 AATTTCGCGT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.18
Consensus pattern (66 bp):
CAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTTC
A
Found at i:79405 original size:33 final size:33
Alignment explanation
Indices: 79354--79443 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
79344 AAATCGCAAC
* *
79354 GCGAATTTAATTTCGCGTTGCGATTCCCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCCCTCGTT
*
79387 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCCCTCGTT
*
79420 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
79444 AGTAATTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.13, C:0.23, G:0.21, T:0.42
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCCCTCGTT
Found at i:79407 original size:19 final size:19
Alignment explanation
Indices: 79383--79443 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
79373 GCGATTCCCT
79383 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
79402 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
79416 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
79435 CATTGCGAT
1 CGTTGCGAT
79444 AGTAATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 10 0.29
16 3 0.09
17 3 0.09
19 18 0.53
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:79421 original size:14 final size:14
Alignment explanation
Indices: 79369--79425 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
79359 TTTAATTTCG
*
79369 CGTTGCGATTCCCT
1 CGTTGCGATTCTCT
*
79383 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
79402 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
79416 CGTTGCGATT
1 CGTTGCGATT
79426 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:79576 original size:14 final size:14
Alignment explanation
Indices: 79553--79586 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
79543 ATCAATTAAC
79553 AATCAACTTTTACA
1 AATCAACTTTTACA
*
79567 AATCACCTTTTACA
1 AATCAACTTTTACA
79581 AATCAA
1 AATCAA
79587 TTAAACAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (14 bp):
AATCAACTTTTACA
Found at i:80992 original size:42 final size:41
Alignment explanation
Indices: 80933--81138 Score: 164
Period size: 42 Copynumber: 4.9 Consensus size: 41
80923 GTGAATCGGG
* *
80933 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGA-CTCTTCAAGGATGACAGTGGC
* * *
80975 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * *
81017 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGTGGC
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAGTGGC
* * *
81059 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * * *
81101 CTCTTCAACGATAGGAATGGACTCTTGAGGGATGACAG
1 CTCTTGAACGGT-GGGAGGGACTCTTCAAGGATGACAG
81139 GCGAGTCGGG
Statistics
Matches: 127, Mismatches: 29, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
41 8 0.06
42 105 0.83
43 14 0.11
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGACTCTTCAAGGATGACAGTGGC
Found at i:81074 original size:84 final size:84
Alignment explanation
Indices: 80963--81138 Score: 343
Period size: 84 Copynumber: 2.1 Consensus size: 84
80953 CCTCTTCAAC
80963 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
*
81028 TAGGAGTGGACTCTTGAGG
66 TAGGAATGGACTCTTGAGG
81047 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
81112 TAGGAATGGACTCTTGAGG
66 TAGGAATGGACTCTTGAGG
81131 GATGACAG
1 GATGACAG
81139 GCGAGTCGGG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 91 1.00
ACGTcount: A:0.24, C:0.18, G:0.38, T:0.21
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGGAATGGACTCTTGAGG
Found at i:81083 original size:21 final size:21
Alignment explanation
Indices: 80933--81083 Score: 58
Period size: 21 Copynumber: 7.2 Consensus size: 21
80923 GTGAATCGGG
*
80933 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
80953 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
80975 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
* ** *
80996 CTCTCG-A-GGAATGATAGGGGC
1 CTCTTGAACGG--TGGGAGGGGA
* * * *
81017 CTCTTCAACGATAGGAGTGGA
1 CTCTTGAACGGTGGGAGGGGA
* ** * *
81038 CTCTTG-AGGGATGACAGTGGC
1 CTCTTGAACGG-TGGGAGGGGA
81059 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
81080 CTCT
1 CTCT
81084 CGAGGAATGA
Statistics
Matches: 86, Mismatches: 37, Indels: 14
0.63 0.27 0.10
Matches are distributed among these distances:
19 2 0.02
20 3 0.03
21 74 0.86
22 6 0.07
23 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.37, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:81462 original size:93 final size:91
Alignment explanation
Indices: 81357--81541 Score: 293
Period size: 91 Copynumber: 2.0 Consensus size: 91
81347 ATTTCAAACT
* *
81357 TTCAACCAAAAGAC-AAA-ATAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTA
1 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAGTTTA
81420 GCAGAATTGGCAGCAACCGAATAAATTTAC
62 GCAGAATTGGCAGCAACCGAATAAATTTAC
81450 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAG
1 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAG
*
81515 TATTGGCAGCAACCGAATAAATTTAC
66 AATTGGCAGCAACCGAATAAATTTAC
81541 T
1 T
81542 AAGCAATCTA
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
91 42 0.48
93 14 0.16
94 3 0.03
95 28 0.32
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (91 bp):
TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAG
AATTGGCAGCAACCGAATAAATTTAC
Found at i:83232 original size:20 final size:19
Alignment explanation
Indices: 83201--83365 Score: 143
Period size: 19 Copynumber: 9.1 Consensus size: 19
83191 TCTTTTGGTT
*
83201 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
83220 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
** *
83240 GGAAATGACTATTGCAA--C
1 -GAAATGAAAATCGCAACGC
*
83258 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
83274 GAAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACGC
83293 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
83312 GAAATGAAAATTGCAA--C
1 GAAATGAAAATCGCAACGC
*
83329 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
83345 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
83364 GA
1 GA
83366 TTTTGGTTTC
Statistics
Matches: 117, Mismatches: 17, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
14 17 0.15
15 2 0.02
16 4 0.03
17 3 0.03
18 3 0.03
19 60 0.51
20 26 0.22
21 2 0.02
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:83283 original size:33 final size:33
Alignment explanation
Indices: 83226--83351 Score: 162
Period size: 33 Copynumber: 3.6 Consensus size: 33
83216 ACGAGATAAT
83226 GAGAATCGCAACGCGGAAATGACTATTGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATTGCAACGA
*
83260 GAGAATCGCAACGCGAAATGACTATCGCAACGCGAAA
1 GAGAATCGCAACGCGAAATGACTATTGCAA--CG--A
* **
83297 TGAAAATCGCAACGCGAAATGAAAATTGCAACGA
1 -GAGAATCGCAACGCGAAATGACTATTGCAACGA
83331 GAGAATCGCAACGCGAAATGA
1 GAGAATCGCAACGCGAAATGA
83352 AAATCGCAAT
Statistics
Matches: 81, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
33 35 0.43
34 15 0.19
35 2 0.02
36 2 0.02
37 1 0.01
38 26 0.32
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.13
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATTGCAACGA
Found at i:83330 original size:71 final size:73
Alignment explanation
Indices: 83201--83366 Score: 255
Period size: 71 Copynumber: 2.3 Consensus size: 73
83191 TCTTTTGGTT
* * **
83201 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGCGGAAATGACTATTGCAACGAGAGAAT
1 GAAATGAAAATCGCAACGCGATAATGAAAATCGCAACGCGGAAATGAAAATTGCAACGAGAGAAT
83266 CGCAACGC
66 CGCAACGC
**
83274 GAAATGACTATCGCAACGCGA-AATGAAAATCGCAACGC-GAAATGAAAATTGCAACGAGAGAAT
1 GAAATGAAAATCGCAACGCGATAATGAAAATCGCAACGCGGAAATGAAAATTGCAACGAGAGAAT
83337 CGCAACGC
66 CGCAACGC
*
83345 GAAATGAAAATCGCAATGCGAT
1 GAAATGAAAATCGCAACGCGAT
83367 TTTGGTTTCG
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
71 49 0.59
72 16 0.19
73 18 0.22
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.14
Consensus pattern (73 bp):
GAAATGAAAATCGCAACGCGATAATGAAAATCGCAACGCGGAAATGAAAATTGCAACGAGAGAAT
CGCAACGC
Found at i:83991 original size:20 final size:20
Alignment explanation
Indices: 83941--83993 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
83931 GCGCTATGTA
*
83941 AATCGTGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
*
83961 AATCGCATTGCGAAAGTCA-
1 AATCGCGTTGCGAAAGTCAG
*
83980 ATATCTCGTTGCGA
1 A-ATCGCGTTGCGA
83994 TTTTGTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:84027 original size:20 final size:20
Alignment explanation
Indices: 84002--84055 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
83992 GATTTTGTAT
84002 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
84022 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
84042 TATCGCATTGCGAT
1 TATCGCATTGCGAT
84056 TTTCCCAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:84074 original size:61 final size:61
Alignment explanation
Indices: 83942--84076 Score: 139
Period size: 61 Copynumber: 2.2 Consensus size: 61
83932 CGCTATGTAA
* * * * * ** *
83942 ATCGTGTTGCGAAAGTCAGAATCGCATTGCGAAAGTCAATATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAATATCGCATTGCGATTTTCCAAT
* * *
84003 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGT-AAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAA-TATCGCATTGCGATTTT-CCAAT
84065 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
84077 TTACTTATTC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
60 2 0.03
61 56 0.93
62 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAATATCGCATTGCGATTTTCCAAT
Found at i:88800 original size:18 final size:19
Alignment explanation
Indices: 88772--88808 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
88762 AAAAAGTTTG
88772 TCTCATTCTTTCTTCTCCA
1 TCTCATTCTTTCTTCTCCA
88791 TCTC-TTCTTTCTTCTCCA
1 TCTCATTCTTTCTTCTCCA
88809 AGAATTAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.08, C:0.38, G:0.00, T:0.54
Consensus pattern (19 bp):
TCTCATTCTTTCTTCTCCA
Found at i:90548 original size:82 final size:81
Alignment explanation
Indices: 90442--90656 Score: 207
Period size: 82 Copynumber: 2.6 Consensus size: 81
90432 GATACTTTAA
* * * *
90442 TGGCATTTTCCAACAAACGCCGTAATAGAGTGGTAATTTAGAGGCGTTTATAGCACAAACACCGG
1 TGGCATTTTTCAACAAACGCCGTAATAGAATAGTAATTTAGAGGCGTTTATA-CACAAACACCGC
*
90507 AATAGAGTTGTTTATAG
65 AACAGAGTTGTTTATAG
* * * * * * * *
90524 TGGCTTTTTTCAACAAACGTCGTAATATAATAGTAATTTAGCGGTGTTTTTATACAAACACCTCA
1 TGGCATTTTTCAACAAACGCCGTAATAGAATAGTAATTTAGAGGCGTTTATACACAAACACCGCA
*
90589 ACAGGGTTGTTTATAG
66 ACAGAGTTGTTTATAG
* * * * * * *
90605 TGGCGTTTGTCAAACAAACGACGCT-ATAAAAAAGTAATTTAGCGGCATTTAT
1 TGGCATTTTTC-AACAAACGCCG-TAATAGAATAGTAATTTAGAGGCGTTTAT
90657 CAAATAAATG
Statistics
Matches: 109, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
81 33 0.30
82 75 0.69
83 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (81 bp):
TGGCATTTTTCAACAAACGCCGTAATAGAATAGTAATTTAGAGGCGTTTATACACAAACACCGCA
ACAGAGTTGTTTATAG
Found at i:90749 original size:83 final size:81
Alignment explanation
Indices: 90507--90778 Score: 240
Period size: 83 Copynumber: 3.3 Consensus size: 81
90497 CAAACACCGG
* * * *
90507 AATAGAGTTGTTTATAGTGGCTTTTTTC-AACAAACGTCGTAATATAATAGTAATTTAGCGGTGT
1 AATAGGGTTGTTTATAGTGGCATTTATCAAACAAACGTCGTTATA-AATAGTAATTTAGCGGTGT
* *** **
90571 TTTTATACAAACACCTC
65 TTTCATACAAATGTCAA
* * * * * * **
90588 AACAGGGTTGTTTATAGTGGCGTTTGTCAAACAAACGACGCTATAAAAAAGTAATTTAGCGGCAT
1 AATAGGGTTGTTTATAGTGGCATTTATCAAACAAACGTCGTTAT-AAATAGTAATTTAGCGGTGT
* *
90653 TTATCAAATAAATGTCAA
65 TT-TCATACAAATGTCAA
* * *
90671 AATAGGGTTGTTTATAGTGGCATTTATGCAAAAAAATGTCATTATAAAGTAGTAATTTAGCGGTG
1 AATAGGGTTGTTTATAGTGGCATTTAT-CAAACAAACGTCGTTATAAA-TAGTAATTTAGCGGTG
* **
90736 TTTTCCTACAAATGTCGT
64 TTTTCATACAAATGTCAA
* *
90754 AATATGGTTATTTATAGTGGCATTT
1 AATAGGGTTGTTTATAGTGGCATTT
90779 TTAGAAAAAT
Statistics
Matches: 150, Mismatches: 36, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
81 24 0.16
82 30 0.20
83 68 0.45
84 28 0.19
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (81 bp):
AATAGGGTTGTTTATAGTGGCATTTATCAAACAAACGTCGTTATAAATAGTAATTTAGCGGTGTT
TTCATACAAATGTCAA
Found at i:91228 original size:22 final size:22
Alignment explanation
Indices: 91198--91242 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
91188 ATATATATAC
91198 ATAGAAAAATAACAACTTTTGA
1 ATAGAAAAATAACAACTTTTGA
* * *
91220 ATAGGAAAATAATAGCTTTTGA
1 ATAGAAAAATAACAACTTTTGA
91242 A
1 A
91243 AACCCGAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.07, G:0.13, T:0.29
Consensus pattern (22 bp):
ATAGAAAAATAACAACTTTTGA
Found at i:93424 original size:43 final size:43
Alignment explanation
Indices: 93362--93559 Score: 234
Period size: 43 Copynumber: 4.6 Consensus size: 43
93352 GAAGGATATA
* * *
93362 TCGCGACTTCAGTCGCCACCATTCACTCAGTCGGTTCCTTGCG
1 TCGCGCCTTCAGTCGCCACCATTCACTCAGCCGGTTCCTTACG
** *
93405 TCGCGCCTTCAGTTTCCACCATTCACTCCGCCGGTTCCTTACG
1 TCGCGCCTTCAGTCGCCACCATTCACTCAGCCGGTTCCTTACG
** * *
93448 TCGCATCTTCAGTCGCCACCATTCACTCAGTCGGTTCCTTGCG
1 TCGCGCCTTCAGTCGCCACCATTCACTCAGCCGGTTCCTTACG
** **
93491 TCGCGCCTTCAGTTTCCACCATTCACTTTGCCGGTTCCTTACG
1 TCGCGCCTTCAGTCGCCACCATTCACTCAGCCGGTTCCTTACG
** * *
93534 TCGCATCTTCAGTCACCACTATTCAC
1 TCGCGCCTTCAGTCGCCACCATTCAC
93560 GCCGTTCAAA
Statistics
Matches: 129, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 129 1.00
ACGTcount: A:0.14, C:0.38, G:0.17, T:0.31
Consensus pattern (43 bp):
TCGCGCCTTCAGTCGCCACCATTCACTCAGCCGGTTCCTTACG
Found at i:93513 original size:86 final size:86
Alignment explanation
Indices: 93368--93559 Score: 348
Period size: 86 Copynumber: 2.2 Consensus size: 86
93358 TATATCGCGA
93368 CTTCAGTCGCCACCATTCACTCAGTCGGTTCCTTGCGTCGCGCCTTCAGTTTCCACCATTCACTC
1 CTTCAGTCGCCACCATTCACTCAGTCGGTTCCTTGCGTCGCGCCTTCAGTTTCCACCATTCACTC
93433 CGCCGGTTCCTTACGTCGCAT
66 CGCCGGTTCCTTACGTCGCAT
*
93454 CTTCAGTCGCCACCATTCACTCAGTCGGTTCCTTGCGTCGCGCCTTCAGTTTCCACCATTCACTT
1 CTTCAGTCGCCACCATTCACTCAGTCGGTTCCTTGCGTCGCGCCTTCAGTTTCCACCATTCACTC
*
93519 TGCCGGTTCCTTACGTCGCAT
66 CGCCGGTTCCTTACGTCGCAT
* *
93540 CTTCAGTCACCACTATTCAC
1 CTTCAGTCGCCACCATTCAC
93560 GCCGTTCAAA
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 102 1.00
ACGTcount: A:0.14, C:0.39, G:0.16, T:0.31
Consensus pattern (86 bp):
CTTCAGTCGCCACCATTCACTCAGTCGGTTCCTTGCGTCGCGCCTTCAGTTTCCACCATTCACTC
CGCCGGTTCCTTACGTCGCAT
Found at i:94759 original size:5 final size:5
Alignment explanation
Indices: 94735--94967 Score: 443
Period size: 5 Copynumber: 47.0 Consensus size: 5
94725 ATCCTATACT
*
94735 TATCA T-TCA TA-CA CATCA TATCA TATCA TATCA TATCA TATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
94783 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
94833 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
94883 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
94933 TATCA TATCA TATCA TATCA TATCA TATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA
94968 CCAAACAAAC
Statistics
Matches: 224, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
4 7 0.03
5 217 0.97
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.39
Consensus pattern (5 bp):
TATCA
Found at i:103691 original size:40 final size:40
Alignment explanation
Indices: 103636--103757 Score: 226
Period size: 40 Copynumber: 3.0 Consensus size: 40
103626 TGTAGGTTTA
103636 TAATACACTTCGGTGTATATGGTGGGCATGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCATGACCTTATGTG
*
103676 TAATACACTTCGGTGTATATGGCGGGCATGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCATGACCTTATGTG
*
103716 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCATGACCTTATGTG
103756 TA
1 TA
103758 GCACTACGGT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCATGACCTTATGTG
Found at i:103956 original size:47 final size:45
Alignment explanation
Indices: 103862--103986 Score: 155
Period size: 47 Copynumber: 2.8 Consensus size: 45
103852 GTAACCATGT
* * *
103862 AAATAAGCTTACTAGCTTAGGGGAT-AATGGCAAGTATATGAGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATGAGTA
* *
103906 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTG-GTA
1 AAATAAGCTTACGAGCTTATGGGA--TAAATGGTAAGTA-TATGAGTA
*
103953 AAATGAGCTTACGAGCTTATGGGATAAATGGTAA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAA
103987 AAGATTTTAT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
44 21 0.30
45 10 0.14
46 1 0.01
47 35 0.50
48 3 0.04
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATGAGTA
Found at i:109997 original size:26 final size:25
Alignment explanation
Indices: 109952--110021 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 25
109942 TGCAAGGAAT
* * *
109952 TTTTTTAACTTCATTTATTTAACCA
1 TTTTTTAATTTGATTAATTTAACCA
**
109977 TTTTTTGAATTTGATTAATTTAATTA
1 TTTTTT-AATTTGATTAATTTAACCA
*
110003 TTTTTT-ATTTGTTTAATTT
1 TTTTTTAATTTGATTAATTT
110022 TTTTTGTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
24 12 0.32
25 6 0.16
26 20 0.53
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (25 bp):
TTTTTTAATTTGATTAATTTAACCA
Found at i:110033 original size:16 final size:19
Alignment explanation
Indices: 109995--110039 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
109985 ATTTGATTAA
*
109995 TTTAATTATTTTTTATTTG
1 TTTAATTATTTTTTAGTTG
110014 TTTAATT-TTTTTT-GTT-
1 TTTAATTATTTTTTAGTTG
*
110030 TTTAAATATT
1 TTTAATTATT
110040 ATAGAAGGCG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 6 0.26
17 4 0.17
18 6 0.26
19 7 0.30
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (19 bp):
TTTAATTATTTTTTAGTTG
Found at i:111669 original size:4 final size:4
Alignment explanation
Indices: 111660--113247 Score: 2851
Period size: 4 Copynumber: 397.5 Consensus size: 4
111650 TGGTCACCTA
* * * *
111660 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATGC ATGC ATCC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
111708 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
111756 ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATGC ATGC ATGCAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT--AC ATAC ATAC
* * * * *
111806 ATGC ATGC ATGC ATGC ATCC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
111854 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
111902 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATGC ATGC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
111950 ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATGC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
111998 ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATGC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
112046 ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATAC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
112094 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
112142 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
112190 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
112238 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
112286 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
112334 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
112382 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
112430 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
112478 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
112526 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
112574 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
112622 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
112670 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
112718 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
112766 ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
112812 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
112860 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
112908 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
112956 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
113004 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
113052 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
113100 AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
113146 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
113194 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
113242 ATAC AT
1 ATAC AT
113248 TATCATGTTA
Statistics
Matches: 1558, Mismatches: 20, Indels: 12
0.98 0.01 0.01
Matches are distributed among these distances:
2 4 0.00
4 1551 1.00
6 3 0.00
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:113491 original size:61 final size:61
Alignment explanation
Indices: 113426--113566 Score: 146
Period size: 61 Copynumber: 2.3 Consensus size: 61
113416 TAAATGTTAG
* * ** * *
113426 AATTTTATCCCTAAACTATGA-CTATGACTTCTAAACCAGTCCTTAAAC-TTTTGAACATT-T
1 AATTTTATCCCTAAACTATAACCT-TCA-TTCTAAACCAGTCCCCAAACTTTTTAAAAATTGT
* * *
113486 CAATTTCATTCCTAAACTATAACCTTCATTCTAAATCAGTCCCCAAACTTTTTAAAAATTGT
1 -AATTTTATCCCTAAACTATAACCTTCATTCTAAACCAGTCCCCAAACTTTTTAAAAATTGT
113548 AATTTTATCCC-AAACTATA
1 AATTTTATCCCTAAACTATA
113567 CGTATATACT
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
60 25 0.38
61 38 0.58
62 3 0.05
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (61 bp):
AATTTTATCCCTAAACTATAACCTTCATTCTAAACCAGTCCCCAAACTTTTTAAAAATTGT
Found at i:113788 original size:20 final size:20
Alignment explanation
Indices: 113759--113798 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
113749 TTTTGGGATG
113759 AAATTAAAATGTTCAATAGT
1 AAATTAAAATGTTCAATAGT
*
113779 AAATTGAAATGTTCAATAGT
1 AAATTAAAATGTTCAATAGT
113799 TTAAGGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (20 bp):
AAATTAAAATGTTCAATAGT
Found at i:122393 original size:23 final size:23
Alignment explanation
Indices: 122362--122434 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
122352 AAACCCAAAA
* *
122362 AAACATGCCACTAAGACAGAGAT
1 AAACGTGCCACAAAGACAGAGAT
*
122385 AAACGTGCCACAAAGGCAGAGAT
1 AAACGTGCCACAAAGACAGAGAT
122408 AAACGTGCCACAAAGACAGAGAT
1 AAACGTGCCACAAAGACAGAGAT
122431 AAAC
1 AAAC
122435 ATACAACACA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.48, C:0.22, G:0.21, T:0.10
Consensus pattern (23 bp):
AAACGTGCCACAAAGACAGAGAT
Found at i:122417 original size:46 final size:46
Alignment explanation
Indices: 122362--122461 Score: 137
Period size: 46 Copynumber: 2.2 Consensus size: 46
122352 AAACCCAAAA
* * * * *
122362 AAACATGCCACTAAGACAGAGATAAACGTGCCACAAAGGCAGAGAT
1 AAACATGCCACAAAGACAGAGATAAACATACAACAAAGGCAAAGAT
* *
122408 AAACGTGCCACAAAGACAGAGATAAACATACAACACAGGCAAAGAT
1 AAACATGCCACAAAGACAGAGATAAACATACAACAAAGGCAAAGAT
122454 AAACATGC
1 AAACATGC
122462 AACACATGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.49, C:0.22, G:0.19, T:0.10
Consensus pattern (46 bp):
AAACATGCCACAAAGACAGAGATAAACATACAACAAAGGCAAAGAT
Found at i:123042 original size:32 final size:31
Alignment explanation
Indices: 123006--123092 Score: 113
Period size: 32 Copynumber: 2.7 Consensus size: 31
122996 TCAGTTTGGA
* *
123006 TCAATATCAGATCGATTGATTTTTGGGTCGGG
1 TCAATATC-GATCGGTTGATTTTTGGGTCGAG
123038 TCAATATCGAATCGGTTAGA-TTTTGGGTCGAG
1 TCAATATCG-ATCGGTT-GATTTTTGGGTCGAG
123070 TCAATATCGGATCGGTTGATTTT
1 TCAATATC-GATCGGTTGATTTT
123093 CAGTTTAGGC
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
31 3 0.06
32 43 0.88
33 3 0.06
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (31 bp):
TCAATATCGATCGGTTGATTTTTGGGTCGAG
Found at i:124619 original size:18 final size:18
Alignment explanation
Indices: 124591--124638 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
124581 GATAAAACCT
124591 TAACCCATACCCCTATCC
1 TAACCCATACCCCTATCC
* *
124609 TATCTCATACCCCTATCC
1 TAACCCATACCCCTATCC
124627 TAACCCATACCC
1 TAACCCATACCC
124639 TGTAATAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.27, C:0.48, G:0.00, T:0.25
Consensus pattern (18 bp):
TAACCCATACCCCTATCC
Found at i:125011 original size:17 final size:17
Alignment explanation
Indices: 124943--125014 Score: 51
Period size: 17 Copynumber: 4.4 Consensus size: 17
124933 CTATTGATTA
* *
124943 TTATGTTAATTTTA-TT
1 TTATATTAATATTATTT
*
124959 TT-TATTAATATT-TGT
1 TTATATTAATATTATTT
* * * * *
124974 TAATTTTACTATTGTTG
1 TTATATTAATATTATTT
124991 TTATATTAATATTATTT
1 TTATATTAATATTATTT
125008 TTATATT
1 TTATATT
125015 GTATAATATC
Statistics
Matches: 40, Mismatches: 13, Indels: 5
0.69 0.22 0.09
Matches are distributed among these distances:
15 10 0.25
16 10 0.25
17 20 0.50
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.65
Consensus pattern (17 bp):
TTATATTAATATTATTT
Found at i:127885 original size:23 final size:24
Alignment explanation
Indices: 127840--127886 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
127830 TTTATTTTTT
127840 TAATAATTTATGTACTTTTTAAGTA
1 TAATAATTTATGTA-TTTTTAAGTA
*
127865 TAATAGTTTATGT-TTTTTAAGT
1 TAATAATTTATGTATTTTTAAGT
127887 TTAAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
25 12 0.57
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (24 bp):
TAATAATTTATGTATTTTTAAGTA
Found at i:127913 original size:24 final size:23
Alignment explanation
Indices: 127886--127935 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
127876 GTTTTTTAAG
127886 TTTA-AAAAATATATTTTATTGTTA
1 TTTATAAAAATAT-TTTT-TTGTTA
*
127910 TTTATTAAAAATATTTTTTTTTTA
1 TTTA-TAAAAATATTTTTTTGTTA
127934 TT
1 TT
127936 CTTATCTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 11 0.48
25 4 0.17
26 8 0.35
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTATAAAAATATTTTTTTGTTA
Found at i:129158 original size:33 final size:33
Alignment explanation
Indices: 129121--129185 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
129111 GTATGACCTC
*
129121 TAATTAAACTGTAAAATTA-AAATTTATAAATAT
1 TAATTAAAC-GTAAAATTATAAAATTATAAATAT
* *
129154 TAATTAGACGTGAAATTATAAAATTATAAATA
1 TAATTAAACGTAAAATTATAAAATTATAAATA
129186 AATAAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 8 0.29
33 20 0.71
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (33 bp):
TAATTAAACGTAAAATTATAAAATTATAAATAT
Found at i:129284 original size:10 final size:9
Alignment explanation
Indices: 129270--129322 Score: 63
Period size: 10 Copynumber: 5.7 Consensus size: 9
129260 TATAAATGAA
129270 TAAATAAAT
1 TAAATAAAT
129279 ATAAATAAA-
1 -TAAATAAAT
*
129288 TAAATGAAGT
1 TAAAT-AAAT
129298 TAAATAAAT
1 TAAATAAAT
129307 TAAATTAAAT
1 TAAA-TAAAT
129317 TAAATA
1 TAAATA
129323 GTATTATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
8 5 0.13
9 11 0.29
10 22 0.58
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (9 bp):
TAAATAAAT
Found at i:129287 original size:14 final size:14
Alignment explanation
Indices: 129268--129322 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
129258 ATTATAAATG
129268 AATAAATAAATATA
1 AATAAATAAATATA
129282 AATAAATAAATGA-A
1 AATAAATAAAT-ATA
**
129296 GTTAAATAAAT-TA
1 AATAAATAAATATA
129309 AATTAAATTAAATA
1 AA-TAAA-TAAATA
129323 GTATTATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
13 1 0.03
14 25 0.78
15 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (14 bp):
AATAAATAAATATA
Found at i:130348 original size:21 final size:18
Alignment explanation
Indices: 130324--130373 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 18
130314 TCTATCATTT
130324 AATAATAATAATTTATTCTCA
1 AATAATAATAATTTA-T-T-A
*
130345 AATAATAATATTTTATTA
1 AATAATAATAATTTATTA
130363 AATAATAATAA
1 AATAATAATAA
130374 CACTATCGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 11 0.41
19 1 0.04
20 1 0.04
21 14 0.52
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
AATAATAATAATTTATTA
Found at i:130350 original size:18 final size:18
Alignment explanation
Indices: 130327--130372 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
130317 ATCATTTAAT
*
130327 AATAATAAT-TTATTCTCA
1 AATAATAATATT-TTATCA
*
130345 AATAATAATATTTTATTA
1 AATAATAATATTTTATCA
130363 AATAATAATA
1 AATAATAATA
130373 ACACTATCGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (18 bp):
AATAATAATATTTTATCA
Found at i:130586 original size:3 final size:3
Alignment explanation
Indices: 130578--130633 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
130568 GATTGTTTCA
*
130578 TTC TTC TTC TT- TTC TCC TTC TTC TT- TTC TTCC TTC TTC TT- TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC TTC
130621 TTTC TTC TTC TTC
1 -TTC TTC TTC TTC
130634 CTTTCTTTCT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
2 6 0.13
3 34 0.74
4 6 0.13
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:130610 original size:15 final size:15
Alignment explanation
Indices: 130580--130632 Score: 90
Period size: 15 Copynumber: 3.6 Consensus size: 15
130570 TTGTTTCATT
130580 CTTCTTCTTTTC-TC
1 CTTCTTCTTTTCTTC
130594 CTTCTTCTTTTCTTC
1 CTTCTTCTTTTCTTC
*
130609 CTTCTTCTTTTCTTT
1 CTTCTTCTTTTCTTC
130624 CTTCTTCTT
1 CTTCTTCTT
130633 CCTTTCTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
14 12 0.32
15 25 0.68
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (15 bp):
CTTCTTCTTTTCTTC
Found at i:130617 original size:18 final size:16
Alignment explanation
Indices: 130578--130670 Score: 80
Period size: 18 Copynumber: 5.4 Consensus size: 16
130568 GATTGTTTCA
*
130578 TTCTTCTTCTTTTCTCC
1 TTCTTCTT-TTTTCTTC
130595 TTCTTCTTTTCTTCCTTC
1 TTCTTCTTTT-TT-CTTC
*
130613 TTCTT-TTCTTTCTTC
1 TTCTTCTTTTTTCTTC
130628 TTCTTCCTTTCTTTCTTCC
1 TTCTT-CTTT-TTTCTT-C
*
130647 TTCTCCTATTTTTCTTTC
1 TTCTTCT-TTTTTC-TTC
130665 TTCTTC
1 TTCTTC
130671 CCGGTGCCCC
Statistics
Matches: 63, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
15 9 0.14
16 4 0.06
17 15 0.24
18 26 0.41
19 9 0.14
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (16 bp):
TTCTTCTTTTTTCTTC
Found at i:130642 original size:22 final size:23
Alignment explanation
Indices: 130573--130670 Score: 70
Period size: 24 Copynumber: 4.4 Consensus size: 23
130563 TACATGATTG
*
130573 TTTCATTCTTCTT-CTTTTCTCCTTC
1 TTTC-TTCTTCTTCCTATTCT--TTC
*
130598 -TTCTT-TTCTTCCTTCTTCTTTTC
1 TTTCTTCTTCTTCC-TATTC-TTTC
130621 TTTCTTCTTCTTCCT-TTCTTTC
1 TTTCTTCTTCTTCCTATTCTTTC
130643 -TTC--CTTC-TCCTATT-TTTC
1 TTTCTTCTTCTTCCTATTCTTTC
130661 TTTCTTCTTC
1 TTTCTTCTTC
130671 CCGGTGCCCC
Statistics
Matches: 63, Mismatches: 1, Indels: 22
0.73 0.01 0.26
Matches are distributed among these distances:
18 8 0.13
19 9 0.14
21 7 0.11
22 9 0.14
23 9 0.14
24 13 0.21
25 8 0.13
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTCTTCTTCTTCCTATTCTTTC
Found at i:130643 original size:15 final size:15
Alignment explanation
Indices: 130573--130645 Score: 87
Period size: 15 Copynumber: 4.9 Consensus size: 15
130563 TACATGATTG
*
130573 TTTCATTCTTCTTCT
1 TTTCTTTCTTCTTCT
*
130588 TTTC-TCCTTCTTCT
1 TTTCTTTCTTCTTCT
*
130602 TTTCTTCCTTCTTCT
1 TTTCTTTCTTCTTCT
130617 TTTCTTTCTTCTTC-
1 TTTCTTTCTTCTTCT
*
130631 TTCCTTTCTTTCTTC
1 TTTCTTTC-TTCTTC
130646 CTTCTCCTAT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
14 20 0.38
15 33 0.62
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTCTTTCTTCTTCT
Found at i:130932 original size:39 final size:39
Alignment explanation
Indices: 130889--130965 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
130879 CATGCATGGC
*
130889 AGGGGAGAGATGCATGGCTCCCAATGCATCTTTGGGGGT
1 AGGGGAGAGACGCATGGCTCCCAATGCATCTTTGGGGGT
*
130928 AGGGGAGAGACGCATGGCTCCCAATGCGTCTTTGGGGG
1 AGGGGAGAGACGCATGGCTCCCAATGCATCTTTGGGGG
130966 GTTGGGCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.19, C:0.19, G:0.40, T:0.21
Consensus pattern (39 bp):
AGGGGAGAGACGCATGGCTCCCAATGCATCTTTGGGGGT
Found at i:130983 original size:40 final size:39
Alignment explanation
Indices: 130898--130984 Score: 111
Period size: 39 Copynumber: 2.2 Consensus size: 39
130888 CAGGGGAGAG
* * *
130898 ATGCATGGCTCCCAATGCATCTTTGGGGGTAGGGGAGAG
1 ATGCATGGCTCCCAATGCATCTTTGGGGGTAGGGCAAAC
* * *
130937 ACGCATGGCTCCCAATGCGTCTTTGGGGGGTTGGGCAAAC
1 ATGCATGGCTCCCAATGCATCTTT-GGGGGTAGGGCAAAC
130977 ATGCATGG
1 ATGCATGG
130985 AAACGGCCAG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 22 0.55
40 18 0.45
ACGTcount: A:0.20, C:0.21, G:0.37, T:0.23
Consensus pattern (39 bp):
ATGCATGGCTCCCAATGCATCTTTGGGGGTAGGGCAAAC
Found at i:134465 original size:22 final size:22
Alignment explanation
Indices: 134437--134508 Score: 96
Period size: 22 Copynumber: 3.4 Consensus size: 22
134427 TTGCATTTCG
134437 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
** *
134459 CGTTGCGATTTTCTA-A-AT-T
1 CGTTGCGATAGTCTACAGTTGT
134478 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
134500 CGTTGCGAT
1 CGTTGCGAT
134509 TTTCCAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
19 14 0.34
20 2 0.05
21 2 0.05
22 23 0.56
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:134482 original size:19 final size:19
Alignment explanation
Indices: 134458--134523 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
134448 TCTACAGTTG
134458 TCGTTGCGATTTTCTAAAT
1 TCGTTGCGATTTTCTAAAT
** *
134477 TCGTTGCGATAGTCTACAGTT
1 TCGTTGCGATTTTCTA-A-AT
*
134498 GTCGTTGCGATTTTCCAAAT
1 -TCGTTGCGATTTTCTAAAT
134518 TCGTTG
1 TCGTTG
134524 ATAGAATTCG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
19 20 0.54
20 2 0.05
21 2 0.05
22 13 0.35
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.42
Consensus pattern (19 bp):
TCGTTGCGATTTTCTAAAT
Found at i:134494 original size:41 final size:41
Alignment explanation
Indices: 134437--134523 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 41
134427 TTGCATTTCG
*
134437 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCTAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
134478 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
134519 CGTTG
1 CGTTG
134524 ATAGAATTCG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.40
Consensus pattern (41 bp):
CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
Found at i:134631 original size:6 final size:6
Alignment explanation
Indices: 134620--134648 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
134610 AGACACGTAT
134620 GACCAC GACCAC GACCAC GACCAC GACCA
1 GACCAC GACCAC GACCAC GACCAC GACCA
134649 AACTTATCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.48, G:0.17, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:138324 original size:20 final size:20
Alignment explanation
Indices: 138299--138353 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
138289 TTGCAGCCTT
138299 GGTGCATGGATGCACAACAG
1 GGTGCATGGATGCACAACAG
*
138319 GGTGCATGGATGCACAGCAG
1 GGTGCATGGATGCACAACAG
*
138339 GGTGCATCGATGCAC
1 GGTGCATGGATGCAC
138354 TAATTGCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.25, C:0.22, G:0.36, T:0.16
Consensus pattern (20 bp):
GGTGCATGGATGCACAACAG
Found at i:141554 original size:31 final size:31
Alignment explanation
Indices: 141467--141593 Score: 141
Period size: 31 Copynumber: 4.1 Consensus size: 31
141457 AGAGTCGAGG
*
141467 GTATACCTATGTTCTACGGAACATATGGACA
1 GTATACCTAGGTTCTACGGAACATATGGACA
* * *
141498 GAATTACCTATG-TCTTTC-GAGACATATGGACA
1 GTA-TACCTAGGTTC-TACGGA-ACATATGGACA
*
141530 GTATACCTAGGTTCTAAGGAACATATGGACA
1 GTATACCTAGGTTCTACGGAACATATGGACA
* * *
141561 GTTTACCTAGGTTCTTCGGAACCTATGGACA
1 GTATACCTAGGTTCTACGGAACATATGGACA
141592 GT
1 GT
141594 TGCCAAGGAT
Statistics
Matches: 81, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
31 54 0.67
32 27 0.33
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (31 bp):
GTATACCTAGGTTCTACGGAACATATGGACA
Found at i:141635 original size:30 final size:30
Alignment explanation
Indices: 141581--141652 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
141571 GTTCTTCGGA
* * *
141581 ACCTATGGACAGTTGCCAAGGATCTTTATG
1 ACCTCTGGATAGTTACCAAGGATCTTTATG
*
141611 ACCTCTGGATAGTTACCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCAAGGATCTTTATG
141641 ACCTCTGGATAG
1 ACCTCTGGATAG
141653 GTCCTTCGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCAAGGATCTTTATG
Found at i:145722 original size:29 final size:29
Alignment explanation
Indices: 145680--145767 Score: 140
Period size: 29 Copynumber: 3.0 Consensus size: 29
145670 GTACCAGGAG
* *
145680 TACATAATTTCAGAAGTTTAACCTTAAGC
1 TACATAATTTCAGAAGCTTAGCCTTAAGC
145709 TACATAATTTCAGAAGCTTAGCCTTAAGC
1 TACATAATTTCAGAAGCTTAGCCTTAAGC
* *
145738 TACAAAATTTCAGAAGCTTGGCCTTAAGC
1 TACATAATTTCAGAAGCTTAGCCTTAAGC
145767 T
1 T
145768 TGGATATACC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (29 bp):
TACATAATTTCAGAAGCTTAGCCTTAAGC
Found at i:152608 original size:48 final size:48
Alignment explanation
Indices: 152544--152652 Score: 146
Period size: 48 Copynumber: 2.3 Consensus size: 48
152534 AAACGGAGAT
* *
152544 ATCAAAAATCAAAACAGAATTCAGAACATATATCAGAACAGAATCCAA
1 ATCAAAAATCAGAACAGAATTCAGAACATATATCAGAACAAAATCCAA
* ** *
152592 ATCATAAATCAGAACAGAATTCAGGTCATATATCAGAACAAAATTCAA
1 ATCAAAAATCAGAACAGAATTCAGAACATATATCAGAACAAAATCCAA
* *
152640 GTCAGAAATCAGA
1 ATCAAAAATCAGA
152653 TAAAATATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.52, C:0.17, G:0.11, T:0.19
Consensus pattern (48 bp):
ATCAAAAATCAGAACAGAATTCAGAACATATATCAGAACAAAATCCAA
Found at i:152643 original size:24 final size:24
Alignment explanation
Indices: 152549--152652 Score: 111
Period size: 24 Copynumber: 4.3 Consensus size: 24
152539 GAGATATCAA
* *
152549 AAATCAAAACAGAATTC-AGAACAT
1 AAATCAGAACAGAATTCAAG-TCAT
* * *
152573 ATATCAGAACAGAATCCAAATCAT
1 AAATCAGAACAGAATTCAAGTCAT
*
152597 AAATCAGAACAGAATTCAGGTCAT
1 AAATCAGAACAGAATTCAAGTCAT
* * *
152621 ATATCAGAACAAAATTCAAGTCAG
1 AAATCAGAACAGAATTCAAGTCAT
152645 AAATCAGA
1 AAATCAGA
152653 TAAAATATTT
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
24 64 0.98
25 1 0.02
ACGTcount: A:0.52, C:0.17, G:0.12, T:0.19
Consensus pattern (24 bp):
AAATCAGAACAGAATTCAAGTCAT
Found at i:156837 original size:12 final size:12
Alignment explanation
Indices: 156812--156881 Score: 79
Period size: 12 Copynumber: 5.8 Consensus size: 12
156802 ACGGAGATAT
* *
156812 CAGAAATCAAAA
1 CAGAATTCAGAA
156824 CAGAATTCAGAA
1 CAGAATTCAGAA
156836 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
156848 CAGAATCCAGAT
1 CAGAATTCAGAA
*
156860 CAGAAATCAGAA
1 CAGAATTCAGAA
156872 CAGAATTCAG
1 CAGAATTCAG
156882 GTCATATATC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
11 2 0.04
12 44 0.92
13 2 0.04
ACGTcount: A:0.51, C:0.19, G:0.16, T:0.14
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:156839 original size:24 final size:24
Alignment explanation
Indices: 156812--156918 Score: 108
Period size: 24 Copynumber: 4.5 Consensus size: 24
156802 ACGGAGATAT
*
156812 CAGAAATCAAAACAGAATTCAGAA
1 CAGAAATCAGAACAGAATTCAGAA
* * *
156836 CAGATATCAGAACAGAATCCAGAT
1 CAGAAATCAGAACAGAATTCAGAA
**
156860 CAGAAATCAGAACAGAATTCAGGT
1 CAGAAATCAGAACAGAATTCAGAA
* * * *
156884 CATATATCAGAACAAAATTCA-AGT
1 CAGAAATCAGAACAGAATTCAGA-A
156908 CAGAAATCAGA
1 CAGAAATCAGA
156919 TAAAATATTT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
24 69 1.00
ACGTcount: A:0.50, C:0.18, G:0.15, T:0.17
Consensus pattern (24 bp):
CAGAAATCAGAACAGAATTCAGAA
Found at i:156881 original size:48 final size:47
Alignment explanation
Indices: 156810--156918 Score: 146
Period size: 48 Copynumber: 2.3 Consensus size: 47
156800 AAACGGAGAT
* *
156810 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCCA
1 ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAAAATCCA
** * *
156857 GATCAGAAATCAGAACAGAATTCAGGTCATATATCAGAACAAAATTCA
1 -ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAAAATCCA
156905 AGTCAGAAATCAGA
1 A-TCAGAAATCAGA
156919 TAAAATATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 1 0.02
48 53 0.98
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.17
Consensus pattern (47 bp):
ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAAAATCCA
Found at i:166628 original size:22 final size:21
Alignment explanation
Indices: 166603--166645 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
166593 AACCTCTTCA
166603 TCTTTCTCTCCTCTCACTTCTT
1 TCTTTCTCTCCTCTC-CTTCTT
* *
166625 TCTTTCTTTCTTCTCCTTCTT
1 TCTTTCTCTCCTCTCCTTCTT
166646 CCTCTACACG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.60
Consensus pattern (21 bp):
TCTTTCTCTCCTCTCCTTCTT
Found at i:169496 original size:2 final size:2
Alignment explanation
Indices: 169491--169583 Score: 186
Period size: 2 Copynumber: 46.5 Consensus size: 2
169481 TATATATATA
169491 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
169533 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
169575 TG TG TG TG T
1 TG TG TG TG T
169584 TATTGATATG
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 91 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:169926 original size:2 final size:2
Alignment explanation
Indices: 169919--169949 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
169909 AAAGTGAACC
169919 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
169950 GAGAAATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:170482 original size:32 final size:32
Alignment explanation
Indices: 170441--170627 Score: 170
Period size: 32 Copynumber: 5.9 Consensus size: 32
170431 AGTCAAGGGT
* *
170441 TTACCTATGTTCTACGGAACATATGGATAGAA
1 TTACCTATGTTCTTCGGAACATATGGACAGAA
* *
170473 TTACCTATGTTTTTCGGGACATATGGACAGAA
1 TTACCTATGTTCTTCGGAACATATGGACAGAA
* * *
170505 TTACCTATGTTTTTCGGGACATATGGACATAA
1 TTACCTATGTTCTTCGGAACATATGGACAGAA
**
170537 TTACCTATG-TCTTTTGAGACATATGGAC--AA
1 TTACCTATGTTCTTCGGA-ACATATGGACAGAA
* **
170567 TATACCTATGTTATAAGGAACATATGGACAG--
1 T-TACCTATGTTCTTCGGAACATATGGACAGAA
* * *
170598 TTACCTAGGTTTTTC-GAGACCTATGGACAG
1 TTACCTATGTTCTTCGGA-ACATATGGACAG
170628 TTGTCGATGT
Statistics
Matches: 131, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
29 2 0.02
30 24 0.18
31 23 0.18
32 82 0.63
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (32 bp):
TTACCTATGTTCTTCGGAACATATGGACAGAA
Found at i:170527 original size:64 final size:64
Alignment explanation
Indices: 170441--170627 Score: 231
Period size: 64 Copynumber: 3.0 Consensus size: 64
170431 AGTCAAGGGT
* * *
170441 TTACCTATGTTCTACGGAACATATGGATAGAATTACCTATGTTTTTCGGGACATATGGACAGAA
1 TTACCTATGTTATACGGAACATATGGACAGAATTACCTATGTTTTTCGAGACATATGGACAGAA
* * * *
170505 TTACCTATGTTTTTCGGGACATATGGACATAATTACCTATGTCTTTT-GAGACATATGGAC--AA
1 TTACCTATGTTATACGGAACATATGGACAGAATTACCTATGT-TTTTCGAGACATATGGACAGAA
* * *
170567 TATACCTATGTTATAAGGAACATATGGACAG--TTACCTAGGTTTTTCGAGACCTATGGACAG
1 T-TACCTATGTTATACGGAACATATGGACAGAATTACCTATGTTTTTCGAGACATATGGACAG
170628 TTGTCGATGT
Statistics
Matches: 105, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
60 4 0.04
61 21 0.20
62 3 0.03
63 24 0.23
64 49 0.47
65 4 0.04
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (64 bp):
TTACCTATGTTATACGGAACATATGGACAGAATTACCTATGTTTTTCGAGACATATGGACAGAA
Found at i:171452 original size:2 final size:2
Alignment explanation
Indices: 171445--171479 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
171435 AAAAATGAAG
171445 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
171480 TAAACATGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:173557 original size:74 final size:74
Alignment explanation
Indices: 173405--173802 Score: 652
Period size: 74 Copynumber: 5.5 Consensus size: 74
173395 CTTCTGGAAA
* * *
173405 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTCTACTTCGAGTGAAA-TTTTCTCAAGCGA
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGA
173469 G------TT
66 GAAACAATT
* *
173472 TGTTTTAAGAAAAACCATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTTCTCAAGTGA
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGA
173537 GAAACAATT
66 GAAACAATT
*
173546 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGA
173611 GAAACAATT
66 GAAACAATT
*
173620 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAAC-TTTCTCAAGCGA
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGA
173684 GAAA-AAGTT
66 GAAACAA-TT
173693 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGA
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGA
173758 GAAACAATT
66 GAAACAATT
*
173767 TGTTTTAAGAAAATCAATCTCAAGTGAGATAAATTG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTG
173803 TTTAAAAACA
Statistics
Matches: 309, Mismatches: 12, Indels: 13
0.93 0.04 0.04
Matches are distributed among these distances:
67 47 0.15
68 13 0.04
72 2 0.01
73 68 0.22
74 177 0.57
75 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (74 bp):
TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGA
GAAACAATT
Found at i:173725 original size:147 final size:148
Alignment explanation
Indices: 173405--173802 Score: 652
Period size: 147 Copynumber: 2.7 Consensus size: 148
173395 CTTCTGGAAA
* * *
173405 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTCTACTTCGAGTGAAA-TTTTCTCAAGCGA
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGA
*
173469 G------TTTGTTTTAAGAAAAACCATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTT
66 GAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTT
*
173528 CTCAAGTGAGAAACAATT
131 CTCAAGCGAGAAACAATT
*
173546 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGA
*
173611 GAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAAC-TTT
66 GAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTT
173675 CTCAAGCGAGAAA-AAGTT
131 CTCAAGCGAGAAACAA-TT
173693 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGA
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGA
*
173758 GAAACAATTTGTTTTAAGAAAATCAATCTCAAGTGAGATAAATTG
66 GAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTG
173803 TTTAAAAACA
Statistics
Matches: 240, Mismatches: 9, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
141 49 0.20
142 12 0.05
146 2 0.01
147 125 0.52
148 52 0.22
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (148 bp):
TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGA
GAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTT
CTCAAGCGAGAAACAATT
Found at i:173787 original size:221 final size:215
Alignment explanation
Indices: 173405--173802 Score: 688
Period size: 221 Copynumber: 1.8 Consensus size: 215
173395 CTTCTGGAAA
* *
173405 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTCTACTTCGAGTGAAATTTTCTCAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTACTTCGAGTGAAACTTTCTCAAGCGAG
*
173470 TTTGTTTTAAGAAAAACCATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTTCTCAAGT
66 TTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTTCTCAAGT
173535 GAGAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTT
131 GAGAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTT
173600 TTCTCAAGTGGGAAACAATT
196 TTCTCAAGTGGGAAACAATT
*
173620 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTACTTCGAGTGAAACTTTCTCAAGC--G
*
173685 AAAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTC
64 ----AGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTTC
*
173750 TCAAGTGAGAAACAATTTGTTTTAAGAAAATCAATCTCAAGTGAGATAAATTG
125 TCAAGTGAGAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTG
173803 TTTAAAAACA
Statistics
Matches: 171, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
215 59 0.35
217 1 0.01
221 111 0.65
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (215 bp):
TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTACTTCGAGTGAAACTTTCTCAAGCGAG
TTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTTCTCAAGT
GAGAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTT
TTCTCAAGTGGGAAACAATT
Found at i:179173 original size:2 final size:2
Alignment explanation
Indices: 179166--179222 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
179156 CTCATAATGG
179166 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
179208 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
179223 ATTTAAAACA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:180044 original size:29 final size:29
Alignment explanation
Indices: 179998--180072 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
179988 ATCAACCATT
179998 TTACGAAAATAGCACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
* * *
180027 TTATGAAAATAACACCCTTTTAGAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
*
180056 TTACAAAAATAGCACCC
1 TTACGAAAATAGCACCC
180073 AGTCAACGGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.48, C:0.19, G:0.07, T:0.27
Consensus pattern (29 bp):
TTACGAAAATAGCACCCTTTTAAAAATAA
Found at i:185749 original size:24 final size:25
Alignment explanation
Indices: 185722--185780 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
185712 CTATTAACTA
185722 TTAATATATTTTATTAA-TTTAATT
1 TTAATATATTTTATTAATTTTAATT
* * *
185746 TTAAAATGTTTTTTTAATTTTAATT
1 TTAATATATTTTATTAATTTTAATT
*
185771 TGAAATATAT
1 T-TAATATAT
185781 AAATATACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
24 14 0.52
25 8 0.30
26 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.59
Consensus pattern (25 bp):
TTAATATATTTTATTAATTTTAATT
Found at i:187826 original size:25 final size:24
Alignment explanation
Indices: 187777--187845 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
187767 TTAAATTCAT
*
187777 AATATTTTATATATATTAATT-TTA
1 AATATTTTTTA-ATATTAATTATTA
187801 AGA-ATTTTTTAATATTAACTTATTA
1 A-ATATTTTTTAATATTAA-TTATTA
* *
187826 AATATATTTTATTATTAATT
1 AATATTTTTTAATATTAATT
187846 TAATTAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 7 0.18
24 13 0.34
25 18 0.47
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (24 bp):
AATATTTTTTAATATTAATTATTA
Found at i:199348 original size:8 final size:9
Alignment explanation
Indices: 199302--199349 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
199292 TTAAAGGCTT
199302 TAATTTTTA
1 TAATTTTTA
199311 TAATTTTTA
1 TAATTTTTA
*
199320 TACTTTTTA
1 TAATTTTTA
**
199329 TAA-AATTA
1 TAATTTTTA
199337 TAATTTTT-
1 TAATTTTTA
199345 TAATT
1 TAATT
199350 AATATATATA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
8 11 0.34
9 21 0.66
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
TAATTTTTA
Found at i:205394 original size:28 final size:28
Alignment explanation
Indices: 205354--205416 Score: 126
Period size: 28 Copynumber: 2.2 Consensus size: 28
205344 GTAACATTAA
205354 ACACCTAGATGGGTCAAAAATAGTTTAG
1 ACACCTAGATGGGTCAAAAATAGTTTAG
205382 ACACCTAGATGGGTCAAAAATAGTTTAG
1 ACACCTAGATGGGTCAAAAATAGTTTAG
205410 ACACCTA
1 ACACCTA
205417 TTCAAAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (28 bp):
ACACCTAGATGGGTCAAAAATAGTTTAG
Found at i:205421 original size:23 final size:25
Alignment explanation
Indices: 205366--205425 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 25
205356 ACCTAGATGG
205366 GTCAAAAATAGTTTAGACACCTAGAT
1 GTCAAAAATAGTTTAGACACCTA-AT
205392 GGGTCAAAAATAGTTTAGACACCT-AT
1 --GTCAAAAATAGTTTAGACACCTAAT
205418 -TCAAAAAT
1 GTCAAAAAT
205426 TTAGGTATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 8 0.25
26 2 0.06
28 22 0.69
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (25 bp):
GTCAAAAATAGTTTAGACACCTAAT
Found at i:205677 original size:20 final size:20
Alignment explanation
Indices: 205652--205695 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
205642 TCATTTAACT
*
205652 AACGTTTTTCGTCATTGACC
1 AACGTTTTCCGTCATTGACC
*
205672 AACGTTTTCCGTCATTGACG
1 AACGTTTTCCGTCATTGACC
205692 AACG
1 AACG
205696 ATTCTATTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (20 bp):
AACGTTTTCCGTCATTGACC
Found at i:207006 original size:85 final size:85
Alignment explanation
Indices: 206917--207091 Score: 314
Period size: 85 Copynumber: 2.1 Consensus size: 85
206907 AATTTGGGTT
* * *
206917 TACAAAAAGACCGATGATTAGTACTTTATCCTTGAAACAAAAGTAATCATTTGTGTAGTTTACCC
1 TACAAAAAGACCGATGATTAGTACTTTATCCCTAAAACAAAAGTAATCATTTATGTAGTTTACCC
206982 TTAAAATAAAATAGGTTAAC
66 TTAAAATAAAATAGGTTAAC
*
207002 TACAAAAAGACCGATGATTAGTACTTTATCCCTAAAACAAAAGTGATCATTTATGTAGTTTACCC
1 TACAAAAAGACCGATGATTAGTACTTTATCCCTAAAACAAAAGTAATCATTTATGTAGTTTACCC
207067 TTAAAATAAAATAGGTTAAC
66 TTAAAATAAAATAGGTTAAC
207087 TACAA
1 TACAA
207092 CCCTAGTCCC
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (85 bp):
TACAAAAAGACCGATGATTAGTACTTTATCCCTAAAACAAAAGTAATCATTTATGTAGTTTACCC
TTAAAATAAAATAGGTTAAC
Found at i:207115 original size:233 final size:233
Alignment explanation
Indices: 206708--207470 Score: 1260
Period size: 233 Copynumber: 3.3 Consensus size: 233
206698 AAATTGATAT
* * *
206708 TTTATCCCTAAAACAAGAGTGATCATTTGTGTAGTTTACCCTTAAAATAAAATGGGTTAACTACA
1 TTTATCCTTGAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAAAATAAAATGGGTTAACTACA
* * *
206773 AAAAAACCGATGATTAGTACTTTATCCCTAAAATAAAAGTGATCATTTGTATAGTTTACCCTTAA
66 AAAAGACCGATGATTAGTACTTTATCCCTAAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAA
* * * *
206838 AATAAAATAGATTAACTACATCCTTAGTCTCTGAAGTCTCTAAAGTTTCTAAAATTGAAATAAAA
131 AATAAAATAGATTAACTACAACCCTAGTCCCTGAAGTCTCTAAAGTTTCTGAAATTGAAATAAAA
*
206903 TGATAATTTGGGTTTACAAAAAGACCGATGATTAGTAC
196 TGATATTTTGGGTTTACAAAAAGACCGATGATTAGTAC
* *
206941 TTTATCCTTGAAACAAAAGTAATCATTTGTGTAGTTTACCCTTAAAATAAAATAGGTTAACTACA
1 TTTATCCTTGAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAAAATAAAATGGGTTAACTACA
*
207006 AAAAGACCGATGATTAGTACTTTATCCCTAAAACAAAAGTGATCATTTATGTAGTTTACCCTTAA
66 AAAAGACCGATGATTAGTACTTTATCCCTAAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAA
* * *
207071 AATAAAATAGGTTAACTACAACCCTAGTCCCTAAAGTCTCTAAAGTTTTTGAAATTGAAATAAAA
131 AATAAAATAGATTAACTACAACCCTAGTCCCTGAAGTCTCTAAAGTTTCTGAAATTGAAATAAAA
* * * *
207136 TGATATTTTGGGTTTTCTAAAAGACTGATGATTAGTAT
196 TGATATTTTGGGTTTACAAAAAGACCGATGATTAGTAC
*
207174 TTTATCCCTT-AAGCAAAAGTGATCATTTGTGTAGTTTACCCTTAAAATAAAATGGGTTAACTAC
1 TTTAT-CCTTGAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAAAATAAAATGGGTTAACTAC
*
207238 AAAAAGACCGATGATTAGTACTTTATTCCTAAAACAAAAGTGATCATTTGTGTAGTTTACCCTTA
65 AAAAAGACCGATGATTAGTACTTTATCCCTAAAACAAAAGTGATCATTTGTGTAGTTTACCCTTA
* * *
207303 AAATAAAACAGATTAACTACAAACCTAGTCCCTGAAG-GTCTAAAGTTTCTGAAATTGAAATAAA
130 AAATAAAATAGATTAACTACAACCCTAGTCCCTGAAGTCTCTAAAGTTTCTGAAATTGAAATAAA
*
207367 ATGATATTTTAGGTTTACAAAAAGACCGATGATTAGTAC
195 ATGATATTTTGGGTTTACAAAAAGACCGATGATTAGTAC
207406 TTTATCCTTGAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAAAATAAAATGGGTTAACTACA
1 TTTATCCTTGAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAAAATAAAATGGGTTAACTACA
207471 TCCCTAGTCC
Statistics
Matches: 490, Mismatches: 38, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
231 4 0.01
232 118 0.24
233 364 0.74
234 4 0.01
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.33
Consensus pattern (233 bp):
TTTATCCTTGAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAAAATAAAATGGGTTAACTACA
AAAAGACCGATGATTAGTACTTTATCCCTAAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAA
AATAAAATAGATTAACTACAACCCTAGTCCCTGAAGTCTCTAAAGTTTCTGAAATTGAAATAAAA
TGATATTTTGGGTTTACAAAAAGACCGATGATTAGTAC
Found at i:207276 original size:85 final size:85
Alignment explanation
Indices: 207154--207325 Score: 272
Period size: 85 Copynumber: 2.0 Consensus size: 85
207144 TGGGTTTTCT
* * * *
207154 AAAAGACTGATGATTAGTATTTTATCCCTTAAGCAAAAGTGATCATTTGTGTAGTTTACCCTTAA
1 AAAAGACCGATGATTAGTACTTTATCCCTAAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAA
** *
207219 AATAAAATGGGTTAACTACA
66 AATAAAACAGATTAACTACA
*
207239 AAAAGACCGATGATTAGTACTTTATTCCTAAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAA
1 AAAAGACCGATGATTAGTACTTTATCCCTAAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAA
207304 AATAAAACAGATTAACTACA
66 AATAAAACAGATTAACTACA
207324 AA
1 AA
207326 CCTAGTCCCT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (85 bp):
AAAAGACCGATGATTAGTACTTTATCCCTAAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAA
AATAAAACAGATTAACTACA
Found at i:207483 original size:147 final size:148
Alignment explanation
Indices: 207235--207510 Score: 457
Period size: 147 Copynumber: 1.9 Consensus size: 148
207225 ATGGGTTAAC
207235 TACAAAAAGACCGATGATTAGTACTTTATTCCTAAAACAAAAGTGATCATTTGTGTAGTTTACCC
1 TACAAAAAGACCGATGATTAGTACTTTATTCCTAAAACAAAAGTGATCATTTGTGTAGTTTACCC
* *
207300 TTAAAATAAAACAGATTAACTACAAACCTAGTCCCTGAAG-GTCTAAAGTTTCTGAAATTGAAAT
66 TTAAAATAAAACAGATTAACTACAAACCTAGTCCCTGAAGTCTCTAAAGTTTCTAAAATTGAAAT
207364 AAAATGATATTTTAGGTT
131 AAAATGATATTTTAGGTT
*
207382 TACAAAAAGACCGATGATTAGTACTTTA-TCCTTGAAACAAAAGTGATCATTTGTGTAGTTTACC
1 TACAAAAAGACCGATGATTAGTACTTTATTCC-TAAAACAAAAGTGATCATTTGTGTAGTTTACC
** * **
207446 CTTAAAATAAAATGGGTTAACTACATCCCTAGTCCCTGAAGTCTCTAAAGTTTCTAAAATTGAAA
65 CTTAAAATAAAACAGATTAACTACAAACCTAGTCCCTGAAGTCTCTAAAGTTTCTAAAATTGAAA
207511 ACTTTTGGAG
Statistics
Matches: 119, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
146 3 0.03
147 95 0.80
148 21 0.18
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (148 bp):
TACAAAAAGACCGATGATTAGTACTTTATTCCTAAAACAAAAGTGATCATTTGTGTAGTTTACCC
TTAAAATAAAACAGATTAACTACAAACCTAGTCCCTGAAGTCTCTAAAGTTTCTAAAATTGAAAT
AAAATGATATTTTAGGTT
Found at i:225830 original size:37 final size:37
Alignment explanation
Indices: 225754--225830 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
225744 TTTTTATATT
*
225754 TTTAATTTTGTAAAATAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAATAAATTATATAAATATTATCAA
* *
225791 TTTAATTTTTTAAAGA-AAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-ATAAATTATATAAATATTAT-CAA
225828 TTT
1 TTT
225831 GTAATACTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 13 0.37
37 21 0.60
38 1 0.03
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (37 bp):
TTTAATTTTGTAAAATAAATTATATAAATATTATCAA
Found at i:226406 original size:18 final size:18
Alignment explanation
Indices: 226383--226418 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
226373 CGTTGAATGG
226383 TTCAAAGACTCTGTATGA
1 TTCAAAGACTCTGTATGA
*
226401 TTCAAAGGCTCTGTATGA
1 TTCAAAGACTCTGTATGA
226419 ATTGACTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (18 bp):
TTCAAAGACTCTGTATGA
Found at i:229485 original size:39 final size:39
Alignment explanation
Indices: 229431--229509 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
229421 ATTATATTAA
*
229431 TACTCCACTCTCTTTCAATGATAATCCAATGTGACTAGT
1 TACTCCAATCTCTTTCAATGATAATCCAATGTGACTAGT
229470 TACTCCAATCTCTTTCAATGATAATCCAATGTGACTAGT
1 TACTCCAATCTCTTTCAATGATAATCCAATGTGACTAGT
229509 T
1 T
229510 TTGAGGTATG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (39 bp):
TACTCCAATCTCTTTCAATGATAATCCAATGTGACTAGT
Found at i:230319 original size:40 final size:42
Alignment explanation
Indices: 230275--230356 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 42
230265 AAGTTTTTGC
230275 ATCTC-AATTATACATTTATAATT-GAGGCCACT-ATTTTTTA
1 ATCTCTAATTATACATTTATAATTAG-GGCCACTAATTTTTTA
* * * *
230315 ATCTCTATTTCTACCTTTATAATTAGGGCCTCTAATTTTTTA
1 ATCTCTAATTATACATTTATAATTAGGGCCACTAATTTTTTA
230357 CAATTTCATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
40 5 0.14
41 21 0.60
42 9 0.26
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.48
Consensus pattern (42 bp):
ATCTCTAATTATACATTTATAATTAGGGCCACTAATTTTTTA
Found at i:230334 original size:41 final size:40
Alignment explanation
Indices: 230152--230356 Score: 162
Period size: 43 Copynumber: 4.9 Consensus size: 40
230142 TGTTGAGTCA
*
230152 ATTTCTACCTTTATAATTGAGGTCCCTAATTTTTTAATCCC
1 ATTTCTACCTTTATAATTGAGG-CCCTAATTTTTTAATCTC
* * * *
230193 ACTTTTTTAACTTTATAATCGAGGCCTTAAGTTTTTATAATCTC
1 A--TTTCTACCTTTATAATTGAGGCCCTAA-TTTTT-TAATCTC
* * * * **
230237 ACTTTCTAACATTCTAATTGATGCCCCTAAGTTTTTGCATCTC
1 A-TTTCTACCTTTATAATTGA-GGCCCTAA-TTTTTTAATCTC
* * *
230280 AATTATACATTTATAATTGAGGCCACT-ATTTTTTAATCTC
1 ATTTCTACCTTTATAATTGAGGCC-CTAATTTTTTAATCTC
230320 TATTTCTACCTTTATAATT-AGGGCCTCTAATTTTTTA
1 -ATTTCTACCTTTATAATTGA-GGCC-CTAATTTTTTA
230357 CAATTTCATA
Statistics
Matches: 128, Mismatches: 27, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
40 11 0.09
41 26 0.20
42 28 0.22
43 44 0.34
44 19 0.15
ACGTcount: A:0.26, C:0.19, G:0.08, T:0.46
Consensus pattern (40 bp):
ATTTCTACCTTTATAATTGAGGCCCTAATTTTTTAATCTC
Done.