Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007977.1 Hibiscus syriacus cultivar Beakdansim tig00110414_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: 98082
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:263 original size:24 final size:24
Alignment explanation
Indices: 236--311 Score: 74
Period size: 24 Copynumber: 3.4 Consensus size: 24
226 TTGTGTATGA
236 TTATGTATTATGAGCTTTTAAACT
1 TTATGTATTATGAGCTTTTAAACT
* * *
260 TTATGTATT-T--TCTATGT-GA--
1 TTATGTATTATGAGCT-TTTAAACT
279 TTATGTATTATGAGCTTTTAAACT
1 TTATGTATTATGAGCTTTTAAACT
303 TTATGTATT
1 TTATGTATT
312 TTCTATGTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
19 9 0.23
20 1 0.03
21 5 0.13
22 5 0.13
23 1 0.03
24 18 0.46
ACGTcount: A:0.26, C:0.07, G:0.13, T:0.54
Consensus pattern (24 bp):
TTATGTATTATGAGCTTTTAAACT
Found at i:284 original size:43 final size:43
Alignment explanation
Indices: 233--323 Score: 182
Period size: 43 Copynumber: 2.1 Consensus size: 43
223 TTTTTGTGTA
233 TGATTATGTATTATGAGCTTTTAAACTTTATGTATTTTCTATG
1 TGATTATGTATTATGAGCTTTTAAACTTTATGTATTTTCTATG
276 TGATTATGTATTATGAGCTTTTAAACTTTATGTATTTTCTATG
1 TGATTATGTATTATGAGCTTTTAAACTTTATGTATTTTCTATG
319 TGATT
1 TGATT
324 TTTAAAAAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.25, C:0.07, G:0.14, T:0.54
Consensus pattern (43 bp):
TGATTATGTATTATGAGCTTTTAAACTTTATGTATTTTCTATG
Found at i:1761 original size:29 final size:30
Alignment explanation
Indices: 1720--1802 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
1710 ATTGAATACC
* * *
1720 TTATGTGCTTATTTTGACTAAAAAAT-ACT
1 TTATGTACCTATTTTGACCAAAAAATAACT
1749 TTA-GATACCTATTTTGACCAAAAAATAACT
1 TTATG-TACCTATTTTGACCAAAAAATAACT
* *
1779 TTATGTACTTATTTTGACCGAAAA
1 TTATGTACCTATTTTGACCAAAAA
1803 TACTATAGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 1 0.02
29 21 0.46
30 23 0.50
31 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (30 bp):
TTATGTACCTATTTTGACCAAAAAATAACT
Found at i:1780 original size:30 final size:29
Alignment explanation
Indices: 1714--1806 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 29
1704 AAAAAAATTG
* * * *
1714 AATACCTTATGTGCTTATTTTGACTAAAA
1 AATACTTTATGTACCTATTTTGACCAAAA
1743 AATACTTTA-GATACCTATTTTGACCAAAA
1 AATACTTTATG-TACCTATTTTGACCAAAA
* *
1772 AATAACTTTATGTACTTATTTTGACC-GAA
1 AAT-ACTTTATGTACCTATTTTGACCAAAA
1801 AATACT
1 AATACT
1807 ATAGGTACTT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
28 4 0.07
29 31 0.56
30 19 0.35
31 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.39
Consensus pattern (29 bp):
AATACTTTATGTACCTATTTTGACCAAAA
Found at i:1803 original size:29 final size:29
Alignment explanation
Indices: 1720--1817 Score: 94
Period size: 30 Copynumber: 3.4 Consensus size: 29
1710 ATTGAATACC
* *
1720 TTATGTGCTTATTTTGACTAAAAA-ATACT
1 TTATGTACTTATTTTGACCAAAAATA-ACT
*
1749 TTA-GATACCTATTTTGACCAAAAAATAACT
1 TTATG-TACTTATTTTGACC-AAAAATAACT
*
1779 TTATGTACTTATTTTGACCGAAAAT-ACT
1 TTATGTACTTATTTTGACCAAAAATAACT
* *
1807 ATAGGTACTTA
1 TTATGTACTTA
1818 AATAAAATAG
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
28 13 0.22
29 19 0.33
30 24 0.41
31 2 0.03
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (29 bp):
TTATGTACTTATTTTGACCAAAAATAACT
Found at i:6126 original size:191 final size:193
Alignment explanation
Indices: 5795--6176 Score: 641
Period size: 191 Copynumber: 2.0 Consensus size: 193
5785 TTAATATTTC
*
5795 TATTTGTTTGTACTCGTTTGGATATGTATGTCTTTCTTGAATTTATGTAATCTAAATTTATTTTC
1 TATTTGTTTGTACTCGTTTGGA-ATGCATGTCTTTCTTGAATTTATGTAATCTAAATTTATTTTC
5860 AATGAAATTGTGTAAAATCAATTTATGCAACGTCTAATGATGAATTAATGAAATTATTTTATTAT
65 AATGAAATTGTGTAAAATCAATTTATGCAACGTCTAATGATGAATTAATGAAATTATTTTATTAT
5925 TCTATTTTAGTTGTAGATTCTCAAATATATTTTAGTTAAGAAAATATAG-AAAACATGAAAGTA
130 TCTATTTTAGTTGTAGATTCTCAAATATATTTTAGTTAAGAAAATATAGCAAAACATGAAAGTA
*
5988 TATTTGTTTGTACTTGTTTGG-ATGCA-GTCTTTCTTGAATATTTATGTAATCTAAATTTA-TTT
1 TATTTGTTTGTACTCGTTTGGAATGCATGTCTTTCTTG-A-ATTTATGTAATCTAAATTTATTTT
*
6050 CAATGAAATTGTGTAAAATCAATTTATGCAACGTCTAATGATGAATTAATGAAATTTTTTTTATT
64 CAATGAAATTGTGTAAAATCAATTTATGCAACGTCTAATGATGAATTAATGAAA-TTATTTTATT
*
6115 -TATCT-TTTTAGTTGTAGATTCTCAAATTTATTTTAGTTAAGAAAATATAGCAAAACATGAAA
128 AT-TCTATTTTAGTTGTAGATTCTCAAATATATTTTAGTTAAGAAAATATAGCAAAACATGAAA
6177 ATAAAAAAAA
Statistics
Matches: 180, Mismatches: 4, Indels: 11
0.92 0.02 0.06
Matches are distributed among these distances:
190 10 0.06
191 107 0.59
192 43 0.24
193 20 0.11
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.45
Consensus pattern (193 bp):
TATTTGTTTGTACTCGTTTGGAATGCATGTCTTTCTTGAATTTATGTAATCTAAATTTATTTTCA
ATGAAATTGTGTAAAATCAATTTATGCAACGTCTAATGATGAATTAATGAAATTATTTTATTATT
CTATTTTAGTTGTAGATTCTCAAATATATTTTAGTTAAGAAAATATAGCAAAACATGAAAGTA
Found at i:6437 original size:13 final size:13
Alignment explanation
Indices: 6389--6439 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
6379 TTTTATATAA
6389 CAGTTAATCAAAT
1 CAGTTAATCAAAT
* **
6402 CAATTTCTCAAAT
1 CAGTTAATCAAAT
*
6415 CAGCTAATCAAAT
1 CAGTTAATCAAAT
*
6428 CAGTTGATCAAA
1 CAGTTAATCAAA
6440 CCATTTACTA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (13 bp):
CAGTTAATCAAAT
Found at i:7761 original size:30 final size:30
Alignment explanation
Indices: 7727--7792 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
7717 AGAACCGGTA
* *
7727 GAACCGGCTGAGAACCGGCAAAACCGAAGT
1 GAACCGGCTGAAAACCGACAAAACCGAAGT
* **
7757 GAACCGGCTGAAAACCGACCAAACCGGTGT
1 GAACCGGCTGAAAACCGACAAAACCGAAGT
7787 GAACCG
1 GAACCG
7793 CGATTCTCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.35, C:0.29, G:0.29, T:0.08
Consensus pattern (30 bp):
GAACCGGCTGAAAACCGACAAAACCGAAGT
Found at i:8463 original size:30 final size:30
Alignment explanation
Indices: 8401--8464 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
8391 AGAACTGGTA
* * *
8401 GAACCGGCTGAGAACCGGCAAAACTGAAGT
1 GAACCGGCTGAAAACCGACAAAACCGAAGT
* *
8431 GAACCGGCTGAAAACCGACCAAACCGATGT
1 GAACCGGCTGAAAACCGACAAAACCGAAGT
8461 GAAC
1 GAAC
8465 TGCCGGTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.27, T:0.09
Consensus pattern (30 bp):
GAACCGGCTGAAAACCGACAAAACCGAAGT
Found at i:9140 original size:30 final size:30
Alignment explanation
Indices: 9070--9143 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
9060 ACCGGTAAAG
* *
9070 AACCGGT-AGAACCGACTGAGAACCGACAA
1 AACCGGTGTGAACCGACTGAAAACCGACAA
* ** * *
9099 AACTGAAGTGAACCGGCTGAAAACCGACCA
1 AACCGGTGTGAACCGACTGAAAACCGACAA
9129 AACCGGTGTGAACCG
1 AACCGGTGTGAACCG
9144 CCGGTTCTCT
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
29 4 0.12
30 30 0.88
ACGTcount: A:0.38, C:0.27, G:0.26, T:0.09
Consensus pattern (30 bp):
AACCGGTGTGAACCGACTGAAAACCGACAA
Found at i:9489 original size:673 final size:674
Alignment explanation
Indices: 7654--9652 Score: 3597
Period size: 678 Copynumber: 3.0 Consensus size: 674
7644 GACCGGACCG
*
7654 GCCGGTTGAACCGTAAACCGGTGGCCTGTCCGGTCCGATTAACTCCCAAAACCGGATGAGCACAG
1 GCCGGTTGAACCGTGAACCGGTGGCCTGTCCGGTCCGATTAACTCCCAAAACCGGATGAGCACAG
*
7719 AACCGGT--AGAACC----G----GCTGAGAACCGGCAAAACCGAAGTGAACCGGCTGAAAACCG
66 AACCGGTAAAGAACCGGTAGAACCGCTGAGAACCGGCAAAACTGAAGTGAACCGGCTGAAAACCG
*
7774 ACCAAACCGGTGTGAACCG-CGATTCTCTTTTTTTCTTTTAAAAAAAATTAAATCAAACGACGTC
131 ACCAAACCGGTGTGAACCGCCGGTTCTC-TTTTTTCTTTTAAAAAAAATTAAATCAAACGACGTC
7838 ATTTGTTAAACGAGCCGAGTCGAACTCGAGTACTGTTGAGCTTGACTCGAACTCG-AAACTTT-A
195 ATTTGTTAAACGAGCCGAGTCGAACTCGAGTACTGTTGAGCTTGACTCGAACTCGAAAACTTTAA
7901 AAGTAAGCTAAACTCGACTAAAAAACTCACGAGCTAAAAATTATCAAGTTCAACTTGAACTCGAA
260 AAGTAAGCTAAACTCGACTAAAAAACTCACGAGCTAAAAATTATCAAGTTCAACTTGAACTCGAA
*
7966 ATATAATATTGAAACTTGAACACGAAAAGGCTCGAACTCAAAAAAAATTTAAAAGCTCGATTAAA
325 ATATAATATTGAAACTTGAACTCGAAAAGGCTCGAACTCAAAAAAAATTTAAAAGCTCGATTAAA
* *
8031 GCTTGAAATTCGAGCTCAATTGAAGCGAAAGAATAGTTCTCTCTGTGCTCACCAAAAGGCTCCAT
390 GCCTGAAATTCGAGCTCAATTGAAGCGAAAGAATAGTTCGCTCTGTGCTCACCAAAAGGCTCCAT
8096 GATTTTGAATGTCAAATTACCTCTAGTATTTATAGAAGTAAGTTGGGATGCTCTTCTATGTTTCT
455 GATTTTGAATGTCAAATTACCTCTAGTATTTATAGAAGTAAGTTGGGATGCTCTTCTATGTTTCT
8161 TAGCCATGTGAGATTGTTTTGTTCTCATATTTTTACTCTTTAGACTTTTGGGATGCTCTTCTATG
520 TAGCCATGTGAGATTGTTTTGTTCTCATATTTTTACTCTTTAGACTTTTGGGATGCTCTTCTATG
**
8226 TTTCTTAGCCATGTGGGATTGTTTTTAAAAAAAAATTAAACCAAACGACATCGTTTGTTATGATT
585 TTTCTTAGCCATGTGGGATTGTTTTT-TTAAAAAATTAAACCAAACGACATCGTTTGTTATGATT
8291 TTTTTCAGCCCCAAATTAAACCAAAC
649 TTTTTCAGCCCCAAATTAAACCAAAC
8317 GCCGGTTGAACCGTGAACCGGTGGCCTGTCCGGTCCGATTAACTCCCAAAACCGGATGAGCACAG
1 GCCGGTTGAACCGTGAACCGGTGGCCTGTCCGGTCCGATTAACTCCCAAAACCGGATGAGCACAG
*
8382 AACCGGTAAAGAACTGGTAGAACCGGCTGAGAACCGGCAAAACTGAAGTGAACCGGCTGAAAACC
66 AACCGGTAAAGAACCGGTAGAACC-GCTGAGAACCGGCAAAACTGAAGTGAACCGGCTGAAAACC
* * *
8447 GACCAAACCGATGTGAACTGCCGGTTCTTTTTTTTTTCTTTTAAAAAAAATTAAATCAAACGACG
130 GACCAAACCGGTGTGAACCGCCGGTTC--TCTTTTTTCTTTTAAAAAAAATTAAATCAAACGACG
*
8512 TCATTTGTTAAACGAGCCGATTCGAACTCGAGTACTGTTGAGCTTGACTCGAACTCGAAAACTTT
193 TCATTTGTTAAACGAGCCGAGTCGAACTCGAGTACTGTTGAGCTTGACTCGAACTCGAAAACTTT
*
8577 AAAAGTAAGCTAAACTCGACTAAAAAACTCACGAGCTAAAAATTATCAAGTTAAACTTGAACTCG
258 AAAAGTAAGCTAAACTCGACTAAAAAACTCACGAGCTAAAAATTATCAAGTTCAACTTGAACTCG
*
8642 AAATATAATATTGAAACTTGAACTCGAAAAGGCTCGAACTCAAAAAAAAATTAAAAGCTCGATTA
323 AAATATAATATTGAAACTTGAACTCGAAAAGGCTCGAACTCAAAAAAAATTTAAAAGCTCGATTA
*
8707 AAGCCTGAAATTCGAGCTCAATTGAAGCGAAAGAATAGTTCGCTCTGTGCTCACCAAAAGGCTCA
388 AAGCCTGAAATTCGAGCTCAATTGAAGCGAAAGAATAGTTCGCTCTGTGCTCACCAAAAGGCTCC
8772 ATGATTTTGAATGTCAAATTACCTCTAGTATTTATAGAAGTAAGTTGGGATGCTCTTCTATGTTT
453 ATGATTTTGAATGTCAAATTACCTCTAGTATTTATAGAAGTAAGTTGGGATGCTCTTCTATGTTT
8837 CTTAGCCATGTGAGATTGTTTTGTTCTCATATTTTTACTCTTTAGACTTTTGGGATGCTCTTCTA
518 CTTAGCCATGTGAGATTGTTTTGTTCTCATATTTTTACTCTTTAGACTTTTGGGATGCTCTTCTA
8902 TGTTTCTTAGCCATGTGGGATTGTTTTTTTAAAAAATTAAACCAAACGACATCGTTTGTTATGAT
583 TGTTTCTTAGCCATGTGGGATTGTTTTTTTAAAAAATTAAACCAAACGACATCGTTTGTTATGAT
8967 TTTTTTCAGCCCCAAATTAAACCAAAC
648 TTTTTTCAGCCCCAAATTAAACCAAAC
*
8994 GCCGGTTGAACCGTGAACCGGTGGCATGTCCGGTCCGATTAACTCCCAAAACCGGATGAGCACAG
1 GCCGGTTGAACCGTGAACCGGTGGCCTGTCCGGTCCGATTAACTCCCAAAACCGGATGAGCACAG
*
9059 AACCGGTAAAGAACCGGTAGAACCGACTGAGAACCGACAAAACTGAAGTGAACCGGCTGAAAACC
66 AACCGGTAAAGAACCGGTAGAACCG-CTGAGAACCGGCAAAACTGAAGTGAACCGGCTGAAAACC
9124 GACCAAACCGGTGTGAACCGCCGGTTCTCTTTTTTC-TTTAAAAAAAATTAAATCAAACGACGTC
130 GACCAAACCGGTGTGAACCGCCGGTTCTCTTTTTTCTTTTAAAAAAAATTAAATCAAACGACGTC
9188 ATTTGTTAAACGAGCCGAGTCGAACTCGAGTACTGTTGAGCTTGACTCGAACTCGAAAACTTTAA
195 ATTTGTTAAACGAGCCGAGTCGAACTCGAGTACTGTTGAGCTTGACTCGAACTCGAAAACTTTAA
* *
9253 AAGTAAGCTAAACTCGACT-AAAAATTCACGAGCTAAAAGTTATCAAGTTCAACTTGAACTCGAA
260 AAGTAAGCTAAACTCGACTAAAAAACTCACGAGCTAAAAATTATCAAGTTCAACTTGAACTCGAA
*
9317 ATATAATATTGAAACTTGAACTCGAAAAGGCTTGAACTCAAAAAAAATTTAAAAGCTCGATTAAA
325 ATATAATATTGAAACTTGAACTCGAAAAGGCTCGAACTCAAAAAAAATTTAAAAGCTCGATTAAA
9382 GCCTGAAATTCGAGCTCAATTGAAGCGAAAGAATAGTTCGCTCTGTGCTCACCAAAAGGCTCCAT
390 GCCTGAAATTCGAGCTCAATTGAAGCGAAAGAATAGTTCGCTCTGTGCTCACCAAAAGGCTCCAT
9447 GATTTTGAATGTCAAATTACCTCTAGTATTTATAGAAGTAAGTTGGGATGCTCTTCTATG-TTCT
455 GATTTTGAATGTCAAATTACCTCTAGTATTTATAGAAGTAAGTTGGGATGCTCTTCTATGTTTCT
9511 TAGCCATGTGAGATTGTTTTG-TCTCATA-TTTTACTCTTTAGAC-TTTGGGATGCTCTTCTATG
520 TAGCCATGTGAGATTGTTTTGTTCTCATATTTTTACTCTTTAGACTTTTGGGATGCTCTTCTATG
*
9573 TTTCTTAGCCGTGTGGGATTGTTTTTTTAAAAAATTAAACCAAACGACATCGTTTGTTATGA-TT
585 TTTCTTAGCCATGTGGGATTGTTTTTTTAAAAAATTAAACCAAACGACATCGTTTGTTATGATTT
*
9637 TTTTCAGCCCCTAATT
650 TTTTCAGCCCCAAATT
9653 TATTTTTTTA
Statistics
Matches: 1288, Mismatches: 31, Indels: 29
0.96 0.02 0.02
Matches are distributed among these distances:
663 71 0.06
665 5 0.00
668 17 0.01
669 81 0.06
670 15 0.01
671 7 0.01
672 25 0.02
673 229 0.18
674 168 0.13
675 13 0.01
676 91 0.07
677 220 0.17
678 346 0.27
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (674 bp):
GCCGGTTGAACCGTGAACCGGTGGCCTGTCCGGTCCGATTAACTCCCAAAACCGGATGAGCACAG
AACCGGTAAAGAACCGGTAGAACCGCTGAGAACCGGCAAAACTGAAGTGAACCGGCTGAAAACCG
ACCAAACCGGTGTGAACCGCCGGTTCTCTTTTTTCTTTTAAAAAAAATTAAATCAAACGACGTCA
TTTGTTAAACGAGCCGAGTCGAACTCGAGTACTGTTGAGCTTGACTCGAACTCGAAAACTTTAAA
AGTAAGCTAAACTCGACTAAAAAACTCACGAGCTAAAAATTATCAAGTTCAACTTGAACTCGAAA
TATAATATTGAAACTTGAACTCGAAAAGGCTCGAACTCAAAAAAAATTTAAAAGCTCGATTAAAG
CCTGAAATTCGAGCTCAATTGAAGCGAAAGAATAGTTCGCTCTGTGCTCACCAAAAGGCTCCATG
ATTTTGAATGTCAAATTACCTCTAGTATTTATAGAAGTAAGTTGGGATGCTCTTCTATGTTTCTT
AGCCATGTGAGATTGTTTTGTTCTCATATTTTTACTCTTTAGACTTTTGGGATGCTCTTCTATGT
TTCTTAGCCATGTGGGATTGTTTTTTTAAAAAATTAAACCAAACGACATCGTTTGTTATGATTTT
TTTCAGCCCCAAATTAAACCAAAC
Found at i:10124 original size:2 final size:2
Alignment explanation
Indices: 10117--10254 Score: 156
Period size: 2 Copynumber: 70.0 Consensus size: 2
10107 GGATTGGGTA
* * * *
10117 TC TC TC TC TC TC TC TC TC TC TC TT TC AC TC TA TC TT TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * *
10159 TC TC TC TC TC CC TC GC TC TC TC TC TC TC TC CC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * *
10201 TC TC TC TC -C T- TC TC -C ATC GC TC TC CC TC TC TC TC TC TA TC
1 TC TC TC TC TC TC TC TC TC -TC TC TC TC TC TC TC TC TC TC TC TC
10241 TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC
10255 ACACACACAC
Statistics
Matches: 112, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
1 3 0.03
2 108 0.96
3 1 0.01
ACGTcount: A:0.03, C:0.49, G:0.01, T:0.46
Consensus pattern (2 bp):
TC
Found at i:11170 original size:20 final size:20
Alignment explanation
Indices: 11133--11170 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11123 CACAACTGGT
*
11133 CTGAGTCAACTCGAACCAGA
1 CTGAGTCAACTAGAACCAGA
*
11153 CTGAGTCAACTAGGACCA
1 CTGAGTCAACTAGAACCA
11171 AATCTATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.29, G:0.21, T:0.16
Consensus pattern (20 bp):
CTGAGTCAACTAGAACCAGA
Found at i:11256 original size:18 final size:18
Alignment explanation
Indices: 11218--11261 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
11208 CCGGCCTGAC
*
11218 CCATTGACTTTGATCGAA
1 CCATTGACTTTGACCGAA
**
11236 CCATTGACTTTGACCTTA
1 CCATTGACTTTGACCGAA
11254 CCATTGAC
1 CCATTGAC
11262 ATGTTCAGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (18 bp):
CCATTGACTTTGACCGAA
Found at i:15887 original size:20 final size:20
Alignment explanation
Indices: 15738--15888 Score: 115
Period size: 20 Copynumber: 7.9 Consensus size: 20
15728 AGTATTTTGA
15738 CAAGAAGTTTCGAAAC-TTCT
1 CAAG-AGTTTCGAAACTTTCT
15758 ACAAGAGTTTCGAAACTTT-T
1 -CAAGAGTTTCGAAACTTTCT
* *
15778 CAAGA----C-AGA-TTCCT
1 CAAGAGTTTCGAAACTTTCT
* * *
15792 AAAAAGTTTCGATACTTT-T
1 CAAGAGTTTCGAAACTTTCT
*
15811 CAAGAGTTTCGAAACTATCT
1 CAAGAGTTTCGAAACTTTCT
*
15831 CAAGAGTTTCGAAACTATCT
1 CAAGAGTTTCGAAACTTTCT
*
15851 CAAGAGTTTCAAAACTTTCCT
1 CAAGAGTTTCGAAACTTT-CT
* *
15872 TAA-AGTTTCGATACTTT
1 CAAGAGTTTCGAAACTTT
15889 GGCTCCAACG
Statistics
Matches: 105, Mismatches: 15, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
13 2 0.02
14 6 0.06
15 1 0.01
18 1 0.01
19 22 0.21
20 63 0.60
21 10 0.10
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (20 bp):
CAAGAGTTTCGAAACTTTCT
Found at i:17080 original size:25 final size:25
Alignment explanation
Indices: 17025--17081 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
17015 CCTTGTATGC
*
17025 TATATGATTATTTTATCTGTTTTGA
1 TATATGATTATTTTATCTGTTTGGA
* *
17050 -ATTATGGTTGTTTTATCTGTTTGGA
1 TA-TATGATTATTTTATCTGTTTGGA
17075 TATATGA
1 TATATGA
17082 ATGGATTATC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 1 0.04
25 24 0.92
26 1 0.04
ACGTcount: A:0.23, C:0.04, G:0.18, T:0.56
Consensus pattern (25 bp):
TATATGATTATTTTATCTGTTTGGA
Found at i:21073 original size:24 final size:24
Alignment explanation
Indices: 21031--21083 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
21021 TTTTATAAAG
21031 TTTTT-TTTTATTTTCAAGTTTTCA
1 TTTTTATTTTATTTTCAAGTTTT-A
21055 TTTTTATTTTATTTT-AAGTTTTA
1 TTTTTATTTTATTTTCAAGTTTTA
21078 TTTTTA
1 TTTTTA
21084 AACATGCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 7 0.25
24 12 0.43
25 9 0.32
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTTTATTTTATTTTCAAGTTTTA
Found at i:21076 original size:12 final size:12
Alignment explanation
Indices: 21036--21081 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
21026 TAAAGTTTTT
21036 TTTTATTTTCAAG
1 TTTTATTTT-AAG
*
21049 TTTTCATTTTTA-
1 TTTT-ATTTTAAG
21061 TTTTATTTTAAG
1 TTTTATTTTAAG
21073 TTTTATTTT
1 TTTTATTTT
21082 TAAACATGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
11 6 0.21
12 13 0.45
13 5 0.17
14 5 0.17
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (12 bp):
TTTTATTTTAAG
Found at i:21557 original size:140 final size:140
Alignment explanation
Indices: 21343--21631 Score: 533
Period size: 140 Copynumber: 2.1 Consensus size: 140
21333 ACTTGGTGAG
21343 ATTGCCTTGCTAAGAGGGAATTAATATCGAAATTAGTAGTTATTAAAACAACAATACGAGTCGGT
1 ATTGCCTTGCTAAGAGGGAATTAATATCGAAATTAGTAGTTATTAAAACAACAATACGAGTCGGT
21408 CTTAACGAACTTAAACGGTTATTGATCTACGATAATTGATGTTGATCAGATCAATTTATGAAGTT
66 CTTAACGAACTTAAACGGTTATTGATCTACGATAATTGATGTTGATCAGATCAATTTATGAAGTT
*
21473 GGAATCAAAT
131 AGAATCAAAT
* *
21483 ATTGCCTTGCTAAGAGGGAATTGATATCGAAATTAGTAGTTATTGAAACAACAATACGAGTCGGT
1 ATTGCCTTGCTAAGAGGGAATTAATATCGAAATTAGTAGTTATTAAAACAACAATACGAGTCGGT
* *
21548 CTTAGCGAACTTAAACGGTTATTGATCTACGATAATTGATGTTGATCAGATCAATTTCTGAAGTT
66 CTTAACGAACTTAAACGGTTATTGATCTACGATAATTGATGTTGATCAGATCAATTTATGAAGTT
21613 AGAATCAAAT
131 AGAATCAAAT
21623 ATTGCCTTG
1 ATTGCCTTG
21632 AGTATTCTGT
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 144 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (140 bp):
ATTGCCTTGCTAAGAGGGAATTAATATCGAAATTAGTAGTTATTAAAACAACAATACGAGTCGGT
CTTAACGAACTTAAACGGTTATTGATCTACGATAATTGATGTTGATCAGATCAATTTATGAAGTT
AGAATCAAAT
Found at i:26000 original size:55 final size:55
Alignment explanation
Indices: 25929--26307 Score: 525
Period size: 55 Copynumber: 6.9 Consensus size: 55
25919 CTTCGGAAAA
* * * *
25929 CGTGTCCGCTCTCTATTCTTTCAGAGAGTATAAGACTCAAACAATCTTCAACAAT
1 CGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
* *
25984 CGTGTCTTCTCCCTATTCCTTCAGAGAGTATAAGACTCAAACAATCTTCAACAAT
1 CGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
* *
26039 CGTGTCTGCTCTCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
1 CGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
* *
26094 CGTGTCTGCTCCCTATTCCTTCAAAGAGTATAAGACTCGAACAATCTTCAACGAT
1 CGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
* *
26149 CGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAGT
1 CGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
*
26204 CGTGTCTACTCCCTATT-CTTCAGAGAG-AGTAAGACTCGAACAATCTTCAACAAT
1 CGTGTCTGCTCCCTATTCCTTCAGAGAGTA-TAAGACTCGAACAATCTTCAACAAT
* * * *
26258 CGGGT-TCGCTCCCTCTTTCTTTCAG-GCAGTAT-AGAACTCGAATAATCTTC
1 CGTGTCT-GCTCCCT-ATTCCTTCAGAG-AGTATAAG-ACTCGAACAATCTTC
26308 TTACGGGGTT
Statistics
Matches: 294, Mismatches: 23, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
53 2 0.01
54 44 0.15
55 225 0.77
56 22 0.07
57 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (55 bp):
CGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
Found at i:26324 original size:54 final size:52
Alignment explanation
Indices: 26258--26895 Score: 786
Period size: 54 Copynumber: 12.0 Consensus size: 52
26248 CTTCAACAAT
* * *
26258 CGGGTTCGCTCCCTCTTTCTTTCAGGCAGTATAGAACTCGAATAATCTTCTT-A
1 CGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATGGAACTCGAA-AATCTTCTTAA
* *
26311 CGGGGTTCACTCCCTCTTTCTCTAGGAAGTATGGAACTCGAAAATCTTCTTCAAA
1 C-GGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTT--AA
26366 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC-AAACATC-TCTTCAAA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAA-ATCTTCTT--AA
* * * * *
26419 CGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGGATATCTTC--ACA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTTA-A
* *
26470 CGGGTTCGCTCCCTCTTTCTCTAGGAAGTATGGAACTCGGAAATCTTCTTCAAA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTT--AA
*
26524 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC-AGACATCTTCTTCAAA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGA-AAATCTTCTT--AA
* *
26578 CGGGTTCGCTCCCTCTTTCTCTAGGAAGTATGGAACTCGGAAATCTTCTTCAAA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTT--AA
* *
26632 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTT--AA
* *
26686 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTT--AA
* * * *
26740 CGAGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGGACATCTTCTTCAAA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTT--AA
* *
26794 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGAAACTCGAACAATCTTC-AAA
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAA-AATCTTCTTAA
*
26846 CGGGTTCGCTCCCTTTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTT
1 CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTT
26896 TTGCTTCACT
Statistics
Matches: 534, Mismatches: 35, Indels: 33
0.89 0.06 0.05
Matches are distributed among these distances:
50 1 0.00
51 51 0.10
52 50 0.09
53 67 0.13
54 356 0.67
55 9 0.02
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.32
Consensus pattern (52 bp):
CGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTTCTTAA
Found at i:26691 original size:162 final size:162
Alignment explanation
Indices: 26258--26883 Score: 932
Period size: 162 Copynumber: 3.9 Consensus size: 162
26248 CTTCAACAAT
* * * *
26258 CGGGTTCGCTCCCTCTTTCTTTCAGGCAGTATAGAACTCGAATAATCTTCTT---ACGGGGTTCA
1 CGGGTTCGCTCCCTCTTTCTCTAAGG-AGTATAGAACTCGGA-AATCTTCTTCAAAC-GGGTTCG
26320 CTCCCTCTTTCTCTAGGAAGTATGGAACTCGAAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTC
63 CTCCCTCTTTCTCTAGGAAGTATGGAACTCGAAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTC
*
26385 TCTAGGGAGTATGGAACTCAAACATC-TCTTCAAA
128 TCTAGGGAGTATGGAACTCAGACATCTTCTTCAAA
* * * * *
26419 CGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGG--AT-ATCTTCACACGGGTTCGCTC
1 CGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCGGAAATCTTCTTCAAACGGGTTCGCTC
*
26481 CCTCTTTCTCTAGGAAGTATGGAACTCGGAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCT
66 CCTCTTTCTCTAGGAAGTATGGAACTCGAAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCT
26546 AGGGAGTATGGAACTCAGACATCTTCTTCAAA
131 AGGGAGTATGGAACTCAGACATCTTCTTCAAA
*
26578 CGGGTTCGCTCCCTCTTTCTCT-AGGAAGTATGGAACTCGGAAATCTTCTTCAAACGGGTTCGCT
1 CGGGTTCGCTCCCTCTTTCTCTAAGG-AGTATAGAACTCGGAAATCTTCTTCAAACGGGTTCGCT
* * *
26642 CCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTC
65 CCCTCTTTCTCTAGGAAGTATGGAACTCGAAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTC
*
26707 TAGGGAGTATGGAACTCGGACATCTTCTTCAAA
130 TAGGGAGTATGGAACTCAGACATCTTCTTCAAA
* * *
26740 CGAGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTC
1 CGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCGGAAATCTTCTTCAAACGGGTTCGCTC
* * *
26805 CCTCTTTCTCTAGGGAGTATGAAACTCGAACAA---TCTTCAAACGGGTTCGCTCCCTTTTTCTC
66 CCTCTTTCTCTAGGAAGTATGGAACTCGAA-AATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTC
26867 TAGGGAGTATGGAACTC
130 TAGGGAGTATGGAACTC
26884 GAAAATCTTC
Statistics
Matches: 432, Mismatches: 23, Indels: 21
0.91 0.05 0.04
Matches are distributed among these distances:
156 4 0.01
157 2 0.00
158 98 0.23
159 44 0.10
160 57 0.13
161 26 0.06
162 198 0.46
163 3 0.01
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (162 bp):
CGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCGGAAATCTTCTTCAAACGGGTTCGCTC
CCTCTTTCTCTAGGAAGTATGGAACTCGAAAATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCT
AGGGAGTATGGAACTCAGACATCTTCTTCAAA
Found at i:27355 original size:36 final size:36
Alignment explanation
Indices: 27265--27385 Score: 100
Period size: 36 Copynumber: 3.3 Consensus size: 36
27255 ACTCTTATGA
* * * *
27265 GAAGGCTTAAAATGGATTTCCTTCACGACTCTTT-GAT
1 GAAGGCTTAAGACGG-TTTGCTTCACTACTCTTTAG-T
* ** * * * *
27302 GAAGACACAAGATGGTTTGCTTCATTATTCTTTGGT
1 GAAGGCTTAAGACGGTTTGCTTCACTACTCTTTAGT
* *
27338 GCATGCTTAAGACGGTTTGCTTCACTACTCTTTAGT
1 GAAGGCTTAAGACGGTTTGCTTCACTACTCTTTAGT
27374 GAAGGCTTAAGA
1 GAAGGCTTAAGA
27386 TTGACTTTGC
Statistics
Matches: 64, Mismatches: 19, Indels: 3
0.74 0.22 0.03
Matches are distributed among these distances:
36 52 0.81
37 12 0.19
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (36 bp):
GAAGGCTTAAGACGGTTTGCTTCACTACTCTTTAGT
Found at i:33249 original size:46 final size:47
Alignment explanation
Indices: 33176--33298 Score: 194
Period size: 47 Copynumber: 2.6 Consensus size: 47
33166 CACAAAAAGA
* * *
33176 AAACCTAATCGCATGATATCTAATTCGCATGC-TTGTTCGAGAAAAT
1 AAACCTAACCGCATGATTTCTAGTTCGCATGCTTTGTTCGAGAAAAT
*
33222 AAACATAACCGCATGATTTCTAGTTCGCATGCTTTGTTCGAGAAAAT
1 AAACCTAACCGCATGATTTCTAGTTCGCATGCTTTGTTCGAGAAAAT
*
33269 ATACCTAACCGCATGATTTCTAGTTCGCAT
1 AAACCTAACCGCATGATTTCTAGTTCGCAT
33299 ACATTATTCA
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
46 28 0.40
47 42 0.60
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (47 bp):
AAACCTAACCGCATGATTTCTAGTTCGCATGCTTTGTTCGAGAAAAT
Found at i:38107 original size:20 final size:20
Alignment explanation
Indices: 38082--38122 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
38072 TGAAAAATGT
38082 CATTTTATGGTTGATAAGGG
1 CATTTTATGGTTGATAAGGG
38102 CATTTTATGGTTGATAAGGG
1 CATTTTATGGTTGATAAGGG
38122 C
1 C
38123 TTAAGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.07, G:0.29, T:0.39
Consensus pattern (20 bp):
CATTTTATGGTTGATAAGGG
Found at i:41614 original size:14 final size:14
Alignment explanation
Indices: 41585--41613 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
41575 TCATTTTTTG
41585 AAGAAAAGAGAAAA
1 AAGAAAAGAGAAAA
41599 AAGAAAAG-GAAAA
1 AAGAAAAGAGAAAA
41612 AA
1 AA
41614 ACAACAGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAGAAAAGAGAAAA
Found at i:42236 original size:31 final size:31
Alignment explanation
Indices: 42198--42256 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
42188 TTGGCTGATT
42198 TGATTATATCATACTTGAGGACAAGCATACA
1 TGATTATATCATACTTGAGGACAAGCATACA
42229 TGATTATATCATACTTGAGGACAAGCAT
1 TGATTATATCATACTTGAGGACAAGCAT
42257 GAGATAAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (31 bp):
TGATTATATCATACTTGAGGACAAGCATACA
Found at i:44806 original size:33 final size:33
Alignment explanation
Indices: 44760--44840 Score: 128
Period size: 33 Copynumber: 2.4 Consensus size: 33
44750 CCCTAAACCG
44760 AACCCGACCCGACCCGAATATCACACTT-AAAAA
1 AACCCGA-CCGACCCGAATATCACACTTAAAAAA
44793 AACCCGACTCGACCCGAATATCACACTTAAAAAAA
1 AACCCGAC-CGACCCGAATATCACACTT-AAAAAA
44828 AACCCGACCGACC
1 AACCCGACCGACC
44841 TGAACAAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
32 1 0.02
33 26 0.58
34 5 0.11
35 13 0.29
ACGTcount: A:0.42, C:0.37, G:0.10, T:0.11
Consensus pattern (33 bp):
AACCCGACCGACCCGAATATCACACTTAAAAAA
Found at i:56015 original size:12 final size:12
Alignment explanation
Indices: 55989--56033 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
55979 AATAGTACTG
55989 TGAACAATA--A
1 TGAACAATACCA
55999 TGAACAATACCA
1 TGAACAATACCA
*
56011 TGAACAGTACCA
1 TGAACAATACCA
*
56023 TGAACAGTACC
1 TGAACAATACC
56034 GATGCTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
10 9 0.28
12 23 0.72
ACGTcount: A:0.47, C:0.22, G:0.13, T:0.18
Consensus pattern (12 bp):
TGAACAATACCA
Found at i:56280 original size:14 final size:14
Alignment explanation
Indices: 56261--56289 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
56251 TTATTTACAT
56261 GCCAACCACAATCA
1 GCCAACCACAATCA
56275 GCCAACCACAATCA
1 GCCAACCACAATCA
56289 G
1 G
56290 TATTACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.41, G:0.10, T:0.07
Consensus pattern (14 bp):
GCCAACCACAATCA
Found at i:56925 original size:31 final size:32
Alignment explanation
Indices: 56874--56967 Score: 111
Period size: 31 Copynumber: 3.0 Consensus size: 32
56864 CCTGAAGGAC
* * *
56874 CTATCCACATGTTCCTAAGAACATAGGTAA-A
1 CTATCCATATGTCCCGAAGAACATAGGTAATA
* *
56905 CTATCTATATGTCCCGAAGAACATAGGTAATC
1 CTATCCATATGTCCCGAAGAACATAGGTAATA
*
56937 CTGTCCATATGTCCCGAA-AGACATAGGTAAT
1 CTATCCATATGTCCCGAAGA-ACATAGGTAAT
56968 CCTCGACTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
31 27 0.50
32 27 0.50
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (32 bp):
CTATCCATATGTCCCGAAGAACATAGGTAATA
Found at i:56952 original size:32 final size:32
Alignment explanation
Indices: 56873--56970 Score: 119
Period size: 32 Copynumber: 3.1 Consensus size: 32
56863 TCCTGAAGGA
* * *
56873 CCTATCCACATGTTCCTAAGAACATAGGTAA-
1 CCTATCCATATGTCCCGAAGAACATAGGTAAT
* *
56904 ACTATCTATATGTCCCGAAGAACATAGGTAAT
1 CCTATCCATATGTCCCGAAGAACATAGGTAAT
*
56936 CCTGTCCATATGTCCCGAA-AGACATAGGTAAT
1 CCTATCCATATGTCCCGAAGA-ACATAGGTAAT
56968 CCT
1 CCT
56971 CGACTCTTGG
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
31 27 0.47
32 30 0.53
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (32 bp):
CCTATCCATATGTCCCGAAGAACATAGGTAAT
Found at i:59153 original size:3 final size:3
Alignment explanation
Indices: 59092--59145 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
59082 CATTTTTTTG
*
59092 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
59139 TTA TTA T
1 TTA TTA T
59146 GTTATTATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 1 0.02
3 47 0.98
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:60423 original size:200 final size:198
Alignment explanation
Indices: 60122--60510 Score: 703
Period size: 200 Copynumber: 1.9 Consensus size: 198
60112 TTAAGGTCCC
60122 TGTTTTAATTATTTAATTTCACGTTGAATTTTTATATTATTTCAATTTAGTCATATGTTTTTTAT
1 TGTTTTAA-TATTTAATTTCACGTTGAATTTTTATATTATTTCAATTTAGTCATATGTTTTTTAT
60187 TAATTAATATTAATTAACCCCTAAATATCCTATAAATTTACAATTTAGTCCCTAATTTCAAATTG
65 TAATTAATATTAATTAACCCCTAAATATCCTATAAATTTACAATTTAGTCCCTAATTTCAAATTG
60252 ATTTATTTTAA-TGTAATTTTATCC-TGAGTTGTTATGCTTTTTAGTTTAGTCCCTTGAGTTACA
130 ATTTATTTTAATTGTAATTTTATCCATGAGTTGTTATGCTTTTTAGTTTAGTCCCTTGAGTTACA
60315 TTTT
195 TTTT
60319 TGTTTTAA-ATTTAATTTCACGTTGAATTTTTATATTTATTTCAATTTAGTCATATGTTTTATTT
1 TGTTTTAATATTTAATTTCACGTTGAATTTTTATA-TTATTTCAATTTAGTCATATG-TTT-TTT
60383 AATTAATTAATTATTAATTAACCCCTAAATATCCTATAAATTTACAATTTAGTCCCTAATTTCAA
63 -ATTAATTAA-TATTAATTAACCCCTAAATATCCTATAAATTTACAATTTAGTCCCTAATTTCAA
60448 ATTGATTTATTTTAATTGTAATTTTATCCATGAGTTGTTATGCTTTTTAGTTTAGTCCCTTGA
126 ATTGATTTATTTTAATTGTAATTTTATCCATGAGTTGTTATGCTTTTTAGTTTAGTCCCTTGA
60511 CTAGTTACAT
Statistics
Matches: 185, Mismatches: 0, Indels: 9
0.95 0.00 0.05
Matches are distributed among these distances:
195 26 0.14
196 21 0.11
197 11 0.06
198 3 0.02
199 9 0.05
200 69 0.37
201 13 0.07
202 33 0.18
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (198 bp):
TGTTTTAATATTTAATTTCACGTTGAATTTTTATATTATTTCAATTTAGTCATATGTTTTTTATT
AATTAATATTAATTAACCCCTAAATATCCTATAAATTTACAATTTAGTCCCTAATTTCAAATTGA
TTTATTTTAATTGTAATTTTATCCATGAGTTGTTATGCTTTTTAGTTTAGTCCCTTGAGTTACAT
TTT
Found at i:60581 original size:29 final size:28
Alignment explanation
Indices: 60549--60632 Score: 68
Period size: 28 Copynumber: 2.9 Consensus size: 28
60539 ATGATTAGAT
**
60549 TTTTCATACTTAGGTCCCTAGAATTTCTA
1 TTTT-ATACTTAGGTCCCTAGAATTTAAA
60578 TTTT-TACATATAGG-CCCTA-AACTTTAAA
1 TTTTATAC-T-TAGGTCCCTAGAA-TTTAAA
60606 TTTT-TACATTTAGGTCCCTAGAATTTA
1 TTTTATAC--TTAGGTCCCTAGAATTTA
60633 GTTTTTTTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
27 5 0.11
28 21 0.46
29 18 0.39
30 2 0.04
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.44
Consensus pattern (28 bp):
TTTTATACTTAGGTCCCTAGAATTTAAA
Found at i:60642 original size:30 final size:30
Alignment explanation
Indices: 60558--60663 Score: 114
Period size: 30 Copynumber: 3.6 Consensus size: 30
60548 TTTTTCATAC
*
60558 TTAGGTCCCTAGAATTT-CTATTTTTACAT
1 TTAGGTCCCTAGAATTTAGTATTTTTACAT
* *
60587 ATAGG-CCCTA-AACTTTA-AATTTTTACAT
1 TTAGGTCCCTAGAA-TTTAGTATTTTTACAT
*
60615 TTAGGTCCCTAGAATTTAGTTTTTTTACAGT
1 TTAGGTCCCTAGAATTTAGTATTTTTACA-T
*
60646 TTA-GTCCCTAGACTTTAG
1 TTAGGTCCCTAGAATTTAG
60664 AGTTCTTAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
27 2 0.03
28 22 0.34
29 13 0.20
30 24 0.37
31 4 0.06
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.44
Consensus pattern (30 bp):
TTAGGTCCCTAGAATTTAGTATTTTTACAT
Found at i:67599 original size:30 final size:30
Alignment explanation
Indices: 67565--67658 Score: 97
Period size: 29 Copynumber: 3.2 Consensus size: 30
67555 GTTTAGTCAC
67565 ATGGTTTATTTGATTAGGTACTTTTTCAAT
1 ATGGTTTATTTGATTAGGTACTTTTTCAAT
* * ** *
67595 ATGG-TTGTCTGCATATAGGT--TTAGTC-AC
1 ATGGTTTATTTG-AT-TAGGTACTTTTTCAAT
67623 ATGGTTTATTTGATTAGGTACTTTTTCAAT
1 ATGGTTTATTTGATTAGGTACTTTTTCAAT
67653 ATGGTT
1 ATGGTT
67659 GTCTGCAGAT
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
27 5 0.10
28 7 0.15
29 18 0.38
30 13 0.27
31 5 0.10
ACGTcount: A:0.22, C:0.09, G:0.20, T:0.49
Consensus pattern (30 bp):
ATGGTTTATTTGATTAGGTACTTTTTCAAT
Found at i:67623 original size:58 final size:58
Alignment explanation
Indices: 67533--67695 Score: 308
Period size: 58 Copynumber: 2.8 Consensus size: 58
67523 AATATACATA
*
67533 CAATATGGTTGTTTGCATATAGGTTTAGTCACATGGTTTATTTGATTAGGTACTTTTT
1 CAATATGGTTGTCTGCATATAGGTTTAGTCACATGGTTTATTTGATTAGGTACTTTTT
67591 CAATATGGTTGTCTGCATATAGGTTTAGTCACATGGTTTATTTGATTAGGTACTTTTT
1 CAATATGGTTGTCTGCATATAGGTTTAGTCACATGGTTTATTTGATTAGGTACTTTTT
*
67649 CAATATGGTTGTCTGCAGATAGGTTTAGTCACATGGTTTATTTGATT
1 CAATATGGTTGTCTGCATATAGGTTTAGTCACATGGTTTATTTGATT
67696 CGCAAGATAA
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 103 1.00
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.46
Consensus pattern (58 bp):
CAATATGGTTGTCTGCATATAGGTTTAGTCACATGGTTTATTTGATTAGGTACTTTTT
Found at i:68546 original size:20 final size:20
Alignment explanation
Indices: 68523--68574 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
68513 AACGCGATCC
68523 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
68543 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
68563 CCAAAATCGCAA
1 CCAGAATCGCAA
68575 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:68655 original size:20 final size:20
Alignment explanation
Indices: 68630--68823 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
68620 GATTTTCCAT
* *
68630 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
68650 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
68670 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
68690 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
68710 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
68730 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
68750 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
68770 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
68791 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
68811 AATCGCAACGCGA
1 AATCGCAACGCGA
68824 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:68675 original size:40 final size:39
Alignment explanation
Indices: 68626--68823 Score: 200
Period size: 40 Copynumber: 5.0 Consensus size: 39
68616 TTGCGATTTT
* ** *
68626 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCGAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
* *
68664 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* ** * *
68705 CCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* * **
68745 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
*
68784 TACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -CCAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
68824 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 94 0.71
41 33 0.25
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
Found at i:68713 original size:60 final size:60
Alignment explanation
Indices: 68630--68822 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
68620 GATTTTCCAT
* ** * *
68630 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
68690 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
68750 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
68811 AATCGCAACGCG
1 AATCGCAACGCG
68823 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:69243 original size:33 final size:33
Alignment explanation
Indices: 69204--69274 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
69194 TTCACTTAGA
*
69204 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
69237 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
69270 TTTCA
1 TTTCA
69275 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:69413 original size:14 final size:14
Alignment explanation
Indices: 69394--69448 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
69384 AGAATGACTG
69394 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
69408 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
69427 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
69441 TCGCAACG
1 TCGCAACG
69449 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:69431 original size:33 final size:33
Alignment explanation
Indices: 69394--69464 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
69384 AGAATGACTG
**
69394 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
69427 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
69460 TCGCA
1 TCGCA
69465 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:69482 original size:19 final size:19
Alignment explanation
Indices: 69460--69557 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
69450 GAAACCAAAA
*
69460 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
69479 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
69493 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
69512 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
69526 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
69545 TCGCGTTGCGATT
1 TCGCGTTGCGATT
69558 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:69501 original size:14 final size:14
Alignment explanation
Indices: 69482--69571 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
69472 TTTCATTTCG
69482 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
69496 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
69515 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
69529 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
69546 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
69562 CGTTGCGATT
1 CGTTGCGATT
69572 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:69507 original size:33 final size:33
Alignment explanation
Indices: 69465--69579 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
69455 CAAAATCGCA
69465 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
69498 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
69531 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
69564 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
69580 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:71737 original size:92 final size:92
Alignment explanation
Indices: 71271--71728 Score: 829
Period size: 92 Copynumber: 5.0 Consensus size: 92
71261 ATTGCTTAGA
*
71271 AAATTTATTCGGTTGCTGCCAATTCTGCTAAAACTGTGTATTCTTTAACACTGTGAAATAGTATT
1 AAATTTGTTCGGTTGCTGCCAATTCTGCT-AAACTGTGTATTCTTTAACACTGTGAAATAGTATT
71336 TGTCTT-TGTTTGTCTTTTGGTTGAAAGT
65 TGTCTTGT-TTTGTCTTTTGGTTGAAAGT
71364 AAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTG-ATTCTTTAACACTGTGAAATA-TATTT
1 AAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTT
71427 GTCTTTGTTTTGTCTTTTGGTTGAAAGT
66 GTC-TTGTTTTGTCTTTTGGTTGAAAGT
71455 AAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTT
1 AAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTT
71520 GTCTTGTTTTGTCTTTTGGTTGAAAGT
66 GTCTTGTTTTGTCTTTTGGTTGAAAGT
71547 AAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG-GTATTCTTTAACACTGTGAAATAGTATTT
1 AAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTT
71611 GTCTTTGTTTTGTCTTTTGGTTGAAAGT
66 GTC-TTGTTTTGTCTTTTGGTTGAAAGT
71639 AAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTT
1 AAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTT
71704 GTC-T-TTTTGTCTTTTGGTTGAAAGT
66 GTCTTGTTTTGTCTTTTGGTTGAAAGT
71729 TTCAATTTGC
Statistics
Matches: 358, Mismatches: 1, Indels: 15
0.96 0.00 0.04
Matches are distributed among these distances:
90 29 0.08
91 113 0.32
92 148 0.41
93 68 0.19
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (92 bp):
AAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTT
GTCTTGTTTTGTCTTTTGGTTGAAAGT
Found at i:71800 original size:19 final size:19
Alignment explanation
Indices: 71760--71888 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
71750 TAGTTTACTT
* *
71760 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
71780 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
71799 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
71818 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
71832 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
71851 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
71865 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
71884 TCGCA
1 TCGCA
71889 TTGCGATTTC
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:71839 original size:33 final size:32
Alignment explanation
Indices: 71796--71888 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
71786 CGCGAAACCA
**
71796 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
71828 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
71861 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
71889 TTGCGATTTC
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:71886 original size:52 final size:52
Alignment explanation
Indices: 71760--71888 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
71750 TAGTTTACTT
**
71760 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
71812 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
71865 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
71889 TTGCGATTTC
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:71924 original size:14 final size:14
Alignment explanation
Indices: 71905--71961 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
71895 TTTCATTTCG
71905 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
71919 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
71936 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
71952 CGTTGCGATT
1 CGTTGCGATT
71962 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:71936 original size:33 final size:33
Alignment explanation
Indices: 71889--71980 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
71879 CAAAATCGCA
*
71889 TTGCGA-TTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
71921 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
71954 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
71981 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 6 0.11
33 50 0.89
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:71945 original size:19 final size:19
Alignment explanation
Indices: 71884--72017 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
71874 GAAACCAAAA
*
71884 TCGCATTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
71902 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
71918 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
71935 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
71951 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
71968 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
71987 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
72007 TCGTGTTGCGA
1 TCGCGTTGCGA
72018 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
18 10 0.11
19 36 0.38
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:73941 original size:14 final size:14
Alignment explanation
Indices: 73922--73958 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
73912 TGATTGTTTA
73922 ATGATTTGTAAAAG
1 ATGATTTGTAAAAG
73936 ATGATTTGTAAAAG
1 ATGATTTGTAAAAG
*
73950 TTGATTTGT
1 ATGATTTGT
73959 GTAATTGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (14 bp):
ATGATTTGTAAAAG
Found at i:74086 original size:19 final size:19
Alignment explanation
Indices: 74062--74163 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
74052 CAAAAAGACT
74062 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
74081 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
74100 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
74114 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
74133 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
74153 ATCGCAATGCG
1 ATCGCAATGCG
74164 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:74216 original size:19 final size:19
Alignment explanation
Indices: 74192--74507 Score: 324
Period size: 19 Copynumber: 18.4 Consensus size: 19
74182 GATTATCTCG
74192 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
74211 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
74230 TTGCGA---TC-TTTCG--
1 TTGCGATTTTCATTTCGCA
74243 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
74262 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
74276 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
74294 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
74313 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
74327 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
74345 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
74364 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
74383 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
74397 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
74416 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
74435 TTGCGA--TTC---TC-CG
1 TTGCGATTTTCATTTCGCA
74448 TTGCGA-TTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
74467 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
74481 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
74500 TTGCGATT
1 TTGCGATT
74508 GTATTTTCCG
Statistics
Matches: 254, Mismatches: 10, Indels: 66
0.77 0.03 0.20
Matches are distributed among these distances:
13 13 0.05
14 34 0.13
15 11 0.04
16 31 0.12
17 22 0.09
18 14 0.06
19 124 0.49
20 5 0.02
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:74251 original size:32 final size:31
Alignment explanation
Indices: 74211--74507 Score: 201
Period size: 32 Copynumber: 8.9 Consensus size: 31
74201 TCATTTCGCA
74211 TTGCGATTTTCATTTCGCATTGCGATCTTTCG
1 TTGCGATTTTCATTTCGCATTGCGAT-TTTCG
74243 TTGCGATTTTCATTTCGCATTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCATTGCGA-T-TTTCG
74276 TTGCGA-TTTCATTTCGCATTGCGATTTTAATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA---T--TTTCG
* * *
74311 CATTGCGATTCTGTCGTTGCG-ATTTC-A-TTTCG
1 --TTGCGATT-T-TCATTTCGCATTGCGATTTTCG
*
74343 CATTGCGATTTTCATTTCGCATTGCGATTTTCA
1 --TTGCGATTTTCATTTCGCATTGCGATTTTCG
* * * *
74376 TTTCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCG
1 TTGCG-ATTTTC-ATT-TCGCATTGCGA---T--TTTCG
*
74414 CATTGCGATTTTCATTTCGCATTGCGATTCTCCG
1 --TTGCGATTTTCATTTCGCATTGCGATT-TTCG
74448 TTGCGA-TTTCATTTCCGCATTGCGATTTTCATG
1 TTGCGATTTTCATTT-CGCATTGCGATTTTC--G
* *
74481 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
74508 GTATTTTCCG
Statistics
Matches: 216, Mismatches: 21, Indels: 55
0.74 0.07 0.19
Matches are distributed among these distances:
30 6 0.03
31 22 0.10
32 81 0.38
33 44 0.20
34 13 0.06
35 6 0.03
36 1 0.00
37 6 0.03
38 15 0.07
39 9 0.04
40 13 0.06
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (31 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCG
Found at i:74259 original size:51 final size:52
Alignment explanation
Indices: 74170--74479 Score: 394
Period size: 51 Copynumber: 6.0 Consensus size: 52
74160 TGCGTTTATA
* *
74170 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
74222 ATTTCGCATTGCGA-TCTTTCGTTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
74271 -TTTCG--TTGCGATTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA-TTC-TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
*
74322 -TGTCG--TTGCGATTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA-TTC-TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
*
74375 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
74427 ATTTCGCATTGCGATTC-TCCGTTGCGA-TTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
74478 AT
1 AT
74480 GTTGGGATTT
Statistics
Matches: 238, Mismatches: 9, Indels: 23
0.88 0.03 0.09
Matches are distributed among these distances:
46 6 0.03
48 7 0.03
49 8 0.03
50 8 0.03
51 128 0.54
52 61 0.26
53 3 0.01
54 8 0.03
55 3 0.01
56 6 0.03
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:76996 original size:24 final size:24
Alignment explanation
Indices: 76962--77008 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
76952 CTGAAACATC
76962 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
76986 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
77009 GACCAATTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:77717 original size:20 final size:20
Alignment explanation
Indices: 77700--78045 Score: 420
Period size: 20 Copynumber: 17.5 Consensus size: 20
77690 TACAGATTCT
*
77700 CGTTGCGATTTACGGATTA-T
1 CGTTGCGATTTACGGA-TACG
* * *
77720 CGTTGCGATTTACAGATTCT
1 CGTTGCGATTTACGGATACG
*
77740 CGTTGCGATTTACGGATA-T
1 CGTTGCGATTTACGGATACG
77759 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
*
77779 CGTTGCGATTTACGGATTA-T
1 CGTTGCGATTTACGGA-TACG
77799 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
77819 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
*
77839 CATTGCGATTTAC-GATACG
1 CGTTGCGATTTACGGATACG
*
77858 CGTTGCGATTTTA-GGATACA
1 CGTTGCGA-TTTACGGATACG
*
77878 CGTTGCGGTTTACGGATACG
1 CGTTGCGATTTACGGATACG
77898 CG-TGCGATTTAC-GATACG
1 CGTTGCGATTTACGGATACG
*
77916 CGTTGCGATATACGGATACG
1 CGTTGCGATTTACGGATACG
* **
77936 CATTGCGATTTACCCATACG
1 CGTTGCGATTTACGGATACG
*
77956 CGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACG
77976 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
* *
77996 CGTTGCGATTTATGTG-TTCG
1 CGTTGCGATTTACG-GATACG
* ** *
78016 CGTTGCGATTTTCATATTCG
1 CGTTGCGATTTACGGATACG
78036 CGTTGCGATT
1 CGTTGCGATT
78046 ATGGAAAATC
Statistics
Matches: 286, Mismatches: 29, Indels: 22
0.85 0.09 0.07
Matches are distributed among these distances:
18 8 0.03
19 57 0.20
20 218 0.76
21 3 0.01
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.34
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACG
Found at i:77831 original size:79 final size:80
Alignment explanation
Indices: 77700--78026 Score: 427
Period size: 79 Copynumber: 4.1 Consensus size: 80
77690 TACAGATTCT
* * * *
77700 CGTTGCGATTTACGGATTA-TCGTTGCGATTTACAGATTCTCGTTGCGATTTACGGATA-TCGTT
1 CGTTGCGATTTACGGA-TACTCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTT
77763 GCGATTTACGGATACG
65 GCGATTTACGGATACG
*
77779 CGTTGCGATTTACGGATTA-TCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCATT
1 CGTTGCGATTTACGGA-TACTCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTT
77843 GCGATTTAC-GATACG
65 GCGATTTACGGATACG
* *
77858 CGTTGCGATTTTA-GGATACACGTTGCGGTTTACGGATACGCG-TGCGATTTAC-GATACGCGTT
1 CGTTGCGA-TTTACGGATACTCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTT
*
77920 GCGATATACGGATACG
65 GCGATTTACGGATACG
* ** * *
77936 CATTGCGATTTACCCATACGCGTTGCGATTTACGGATACACGTTGCGATTTACGGATACGCGTTG
1 CGTTGCGATTTACGGATACTCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTG
* *
78001 CGATTTATGTG-TTCG
66 CGATTTACG-GATACG
78016 CGTTGCGATTT
1 CGTTGCGATTT
78027 TCATATTCGC
Statistics
Matches: 221, Mismatches: 19, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
77 21 0.10
78 49 0.22
79 103 0.47
80 47 0.21
81 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (80 bp):
CGTTGCGATTTACGGATACTCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTG
CGATTTACGGATACG
Found at i:78695 original size:20 final size:20
Alignment explanation
Indices: 78665--78738 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
78655 TTTTCCCAAT
*
78665 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
* ** *
78685 TCGCTACGCGAATTGGGAAAA
1 TCGCAACGCGAA-TAAGTAAA
* *
78706 TCGCAATGCGGATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
78726 TCGCAACGCGAAT
1 TCGCAACGCGAAT
78739 TGGGAAAATA
Statistics
Matches: 40, Mismatches: 13, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
20 26 0.65
21 14 0.35
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATAAGTAAA
Found at i:78708 original size:21 final size:21
Alignment explanation
Indices: 78682--78757 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 21
78672 GCGAATAAGT
*
78682 AAATCGCTACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* * ** *
78703 AAATCGCAATGCGGA-TAAGT
1 AAATCGCAACGCGAATTGGGA
78723 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* *
78744 AAATAGCAATGCGA
1 AAATCGCAACGCGA
78758 TACTGACTAT
Statistics
Matches: 41, Mismatches: 13, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
20 15 0.37
21 26 0.63
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:78710 original size:41 final size:41
Alignment explanation
Indices: 78665--78757 Score: 159
Period size: 41 Copynumber: 2.3 Consensus size: 41
78655 TTTTCCCAAT
*
78665 TCGCAATGCGAATAAGTAAATCGCTACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
*
78706 TCGCAATGCGGATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
*
78747 TAGCAATGCGA
1 TCGCAATGCGA
78758 TACTGACTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:78774 original size:20 final size:20
Alignment explanation
Indices: 78749--78840 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
78739 TGGGAAAATA
*
78749 GCAATGCGATACTGACTATC
1 GCAACGCGATACTGACTATC
* * * **
78769 GCAATGCGATAATAAAAAATC
1 GCAACGCGATACT-GACTATC
* * * *
78790 GTAACGAGATACTTACTTTC
1 GCAACGCGATACTGACTATC
*
78810 GCAACGCGATACTGACTTTC
1 GCAACGCGATACTGACTATC
78830 GCAACGCGATA
1 GCAACGCGATA
78841 ATACATAATC
Statistics
Matches: 56, Mismatches: 15, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
20 43 0.77
21 13 0.23
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (20 bp):
GCAACGCGATACTGACTATC
Found at i:78788 original size:41 final size:41
Alignment explanation
Indices: 78743--78820 Score: 93
Period size: 41 Copynumber: 1.9 Consensus size: 41
78733 GCGAATTGGG
* * *
78743 AAAATAGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATAGCAACGAGATACTGACTATCGCAACGCGATAATAA
* * * *
78784 AAAATCGTAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATAGCAACGAGATACTGACTATCGCAACGCGATA
78821 CTGACTTTCG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 30 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (41 bp):
AAAATAGCAACGAGATACTGACTATCGCAACGCGATAATAA
Found at i:79053 original size:22 final size:22
Alignment explanation
Indices: 79025--79068 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
79015 CACTCTCTCA
79025 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
79047 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
79069 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:79356 original size:20 final size:20
Alignment explanation
Indices: 79331--79368 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
79321 CGATTCTCTC
79331 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
79351 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
79369 AGAAAACTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:80703 original size:18 final size:18
Alignment explanation
Indices: 80682--80726 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
80672 TCCACTTCGG
*
80682 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
80700 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
80718 GAGCCATCA
1 GAGCCATCA
80727 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:81262 original size:19 final size:20
Alignment explanation
Indices: 81208--81274 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
81198 TAGTTTACTT
* *
81208 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
81228 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
81248 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
81267 TCGCAACG
1 TCGCAACG
81275 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:81270 original size:39 final size:34
Alignment explanation
Indices: 81227--81328 Score: 93
Period size: 33 Copynumber: 2.8 Consensus size: 34
81217 GAAAATGACT
81227 ATCGCAACGCGGAAATGGCTATCGCAATGCGAAATGAAA
1 ATCGCAACGC-GAAAT-G--ATCGCAATGCGAAATG-AA
*
81266 ATCGCAACGAC-AAA--ATCGCAATACGAAATGAA
1 ATCGCAACG-CGAAATGATCGCAATGCGAAATGAA
81298 ATCGCAACGCGAAATGAAAATCGCAATGCGA
1 ATCGCAACGCGAAATG---ATCGCAATGCGA
81329 TTTGTGTTTC
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
31 1 0.02
32 14 0.26
33 15 0.28
37 11 0.20
38 3 0.06
39 9 0.17
40 1 0.02
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.14
Consensus pattern (34 bp):
ATCGCAACGCGAAATGATCGCAATGCGAAATGAA
Found at i:81320 original size:19 final size:19
Alignment explanation
Indices: 81208--81328 Score: 83
Period size: 19 Copynumber: 6.6 Consensus size: 19
81198 TAGTTTACTT
* **
81208 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
81228 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
81248 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
81267 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
**
81281 TCGCAATACGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
81299 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
81318 TCGCAATGCGA
1 TCGCAACGCGA
81329 TTTGTGTTTC
Statistics
Matches: 83, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
14 10 0.12
15 1 0.01
16 2 0.02
17 2 0.02
18 17 0.20
19 26 0.31
20 24 0.29
21 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.21, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:81359 original size:14 final size:14
Alignment explanation
Indices: 81340--81394 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
81330 TTGTGTTTCG
81340 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
81354 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
81370 CGCGTTGCGATTTTGC
1 --CGTTGCGATTTTGT
81386 CGTTGCGAT
1 CGTTGCGAT
81395 AGCCATTTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 20 0.59
16 3 0.09
18 11 0.32
ACGTcount: A:0.09, C:0.20, G:0.27, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:81374 original size:32 final size:33
Alignment explanation
Indices: 81335--81414 Score: 117
Period size: 32 Copynumber: 2.4 Consensus size: 33
81325 GCGATTTGTG
* **
81335 TTTCGCGTTGCGATTTTGTCGTTGCGAT-TTCA
1 TTTCGCGTTGCGATTTTGCCGTTGCGATAGCCA
81367 TTTCGCGTTGCGATTTTGCCGTTGCGATAGCCA
1 TTTCGCGTTGCGATTTTGCCGTTGCGATAGCCA
81400 TTTCCGCGTTGCGAT
1 TTT-CGCGTTGCGAT
81415 AGTCATTTCG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
32 27 0.63
33 5 0.12
34 11 0.26
ACGTcount: A:0.10, C:0.23, G:0.26, T:0.41
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGCCGTTGCGATAGCCA
Found at i:81428 original size:19 final size:18
Alignment explanation
Indices: 81354--81433 Score: 78
Period size: 20 Copynumber: 4.5 Consensus size: 18
81344 GCGATTTTGT
*
81354 CGTTGCGATTTCATTTCG
1 CGTTGCGATGTCATTTCG
*
81372 CGTTGCGAT-T--TTGC-
1 CGTTGCGATGTCATTTCG
*
81386 CGTTGCGATAGCCATTTCCG
1 CGTTGCGAT-GTCATTT-CG
81406 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT-GTCATTTCG
81425 CGTTGCGAT
1 CGTTGCGAT
81434 TTTAAGTTTC
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
14 9 0.17
15 3 0.06
17 1 0.02
18 11 0.21
19 12 0.23
20 16 0.31
ACGTcount: A:0.12, C:0.24, G:0.26, T:0.38
Consensus pattern (18 bp):
CGTTGCGATGTCATTTCG
Found at i:83457 original size:14 final size:15
Alignment explanation
Indices: 83438--83514 Score: 59
Period size: 14 Copynumber: 4.7 Consensus size: 15
83428 CGAAATGGCT
83438 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
83452 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCG--A-GAAA
*
83471 ATCGCAATGCGAAATGAA
1 ATCGCAA-GCGAGA--AA
83489 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
83503 ATCGCAATGCGA
1 ATCGCAA-GCGA
83515 TTTTCATTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
14 16 0.31
16 10 0.19
17 1 0.02
18 10 0.19
19 15 0.29
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.13
Consensus pattern (15 bp):
ATCGCAAGCGAGAAA
Found at i:83470 original size:19 final size:19
Alignment explanation
Indices: 83448--83514 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
83438 ATCGCAACGA
83448 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
83467 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
83486 G-AAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
83499 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
83515 TTTTCATTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.02
14 10 0.23
16 4 0.09
18 9 0.20
19 20 0.45
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:83558 original size:18 final size:19
Alignment explanation
Indices: 83533--83588 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
83523 TCGCATTGCG
*
83533 ATTTTTCGTTGCGATAACC
1 ATTTTCCGTTGCGATAACC
*
83552 ATTTTCGCGTTGCGATAGCC
1 ATTTTC-CGTTGCGATAACC
83572 ATTTTCGCGTTGCGATA
1 ATTTTC-CGTTGCGATA
83589 GTCAAATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 5 0.15
20 29 0.85
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (19 bp):
ATTTTCCGTTGCGATAACC
Found at i:83589 original size:20 final size:20
Alignment explanation
Indices: 83539--83589 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
83529 TGCGATTTTT
*
83539 CGTTGCGATAACCATTTTCG
1 CGTTGCGATAGCCATTTTCG
83559 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
83579 CGTTGCGATAG
1 CGTTGCGATAG
83590 TCAAATGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCG
Found at i:83842 original size:20 final size:20
Alignment explanation
Indices: 83814--83854 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
83804 CCTCGTTGCC
*
83814 TTTTTCATTTCGCATTGCGA
1 TTTTGCATTTCGCATTGCGA
83834 TTTTGCATTTCGCATTGCGA
1 TTTTGCATTTCGCATTGCGA
83854 T
1 T
83855 GGTCAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.49
Consensus pattern (20 bp):
TTTTGCATTTCGCATTGCGA
Found at i:84663 original size:24 final size:24
Alignment explanation
Indices: 84636--84689 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
84626 GTATTCGAAA
* *
84636 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
84660 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
84684 TTTGAT
1 TTTGAT
84690 GATGTTTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:87200 original size:19 final size:19
Alignment explanation
Indices: 87178--87275 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
87168 GAAAATTACT
87178 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
87197 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
87211 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
87230 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
87244 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
87263 ATCGCAACGCGAA
1 ATCGCAATGCGAA
87276 TTTAATTTCG
Statistics
Matches: 60, Mismatches: 9, Indels: 20
0.67 0.10 0.22
Matches are distributed among these distances:
14 18 0.30
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 30 0.50
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:87278 original size:33 final size:33
Alignment explanation
Indices: 87179--87278 Score: 157
Period size: 33 Copynumber: 3.0 Consensus size: 33
87169 AAAATTACTA
* *
87179 TCGCAATGCGAAATGAAAATCGCAACGAGAGA-A
1 TCGCAATGCGAAATGAAAATCGCAACGCGA-ATT
*
87212 TCGCAATGCGAAATGAAAATCGCAACGCTAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
87245 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
87278 T
1 T
87279 AATTTCGCGT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
32 1 0.02
33 61 0.98
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGCGAATT
Found at i:87293 original size:19 final size:20
Alignment explanation
Indices: 87271--87313 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
87261 AAATCGCAAC
87271 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
87290 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
87310 GCGA
1 GCGA
87314 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:87298 original size:14 final size:14
Alignment explanation
Indices: 87299--87332 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
87289 TGCGATTTTC
87299 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
87313 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
87327 ATTTTC
1 ATTTTC
87333 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:87473 original size:14 final size:14
Alignment explanation
Indices: 87454--87490 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
87444 CATCAATTAA
87454 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
87468 ACAAATCACCTTTT
1 ACAAATCAACTTTT
87482 ACAAATCAA
1 ACAAATCAA
87491 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:88907 original size:21 final size:21
Alignment explanation
Indices: 88841--88907 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
88831 GTGAATCGGG
*
88841 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
88861 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
88883 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
88904 CTCT
1 CTCT
88908 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:88926 original size:42 final size:41
Alignment explanation
Indices: 88841--88963 Score: 104
Period size: 42 Copynumber: 2.9 Consensus size: 41
88831 GTGAATCGGG
* * * * *
88841 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
88883 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * * *
88925 CTCTTCAACGATAGGAGTGAACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
88964 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:91034 original size:33 final size:33
Alignment explanation
Indices: 90977--91075 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
90967 ACGAGATAAT
*
90977 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
91011 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
91044 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
91076 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:91069 original size:19 final size:19
Alignment explanation
Indices: 90952--91136 Score: 174
Period size: 19 Copynumber: 10.1 Consensus size: 19
90942 TCTTTTGGTT
*
90952 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
90971 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
90991 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
91009 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
91025 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
91043 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
91058 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
91078 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
91097 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
91116 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
91135 GA
1 GA
91137 TTTTGGTTTC
Statistics
Matches: 138, Mismatches: 15, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 62 0.45
20 45 0.33
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:91090 original size:39 final size:38
Alignment explanation
Indices: 91047--91136 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
91037 GCGACCAGAC
91047 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
*
91086 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
91124 AATCGCAATGCGA
1 AATCGCAACGCGA
91137 TTTTGGTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 22 0.45
39 27 0.55
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:91154 original size:19 final size:19
Alignment explanation
Indices: 91132--91176 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
91122 AAAATCGCAA
* *
91132 TGCGATTTTGGTTTCGTGT
1 TGCGATTTTGATTTCGCGT
*
91151 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
91170 TGCGATT
1 TGCGATT
91177 ATCTCGTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.09, C:0.13, G:0.27, T:0.51
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:91741 original size:20 final size:21
Alignment explanation
Indices: 91712--91764 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
91702 GCGCTATGTA
91712 AATC-GCGTTGCGAAAGTCAG
1 AATCTGCGTTGCGAAAGTCAG
91732 AAT-TGCGTTGCGAAAGTCAG
1 AATCTGCGTTGCGAAAGTCAG
*
91752 TATCT-CGTTGCGA
1 AATCTGCGTTGCGA
91765 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (21 bp):
AATCTGCGTTGCGAAAGTCAG
Found at i:91825 original size:41 final size:40
Alignment explanation
Indices: 91732--91827 Score: 95
Period size: 41 Copynumber: 2.4 Consensus size: 40
91722 CGAAAGTCAG
* * * * **
91732 AATT-GCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGT
1 AATTCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCC
* *
91771 ATTATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCC
1 AAT-TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CC
91813 AATTCGCGTTGCGAT
1 AATTCGCGTTGCGAT
91828 TTACTTATTC
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
39 2 0.05
40 1 0.02
41 39 0.89
42 2 0.05
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (40 bp):
AATTCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCC
Done.