Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 48 of 106
Found at i:17974499 original size:15 final size:15
Alignment explanation
Indices: 17974457--17974500 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
17974447 TTCTTTTTTG
17974457 TTTCTTTCTTTCTTCC
1 TTTCTTTC-TTCTTCC
*
17974473 TTTCTCGT-TTCTTCC
1 TTTCT-TTCTTCTTCC
17974488 TTTCTTTCTTCTT
1 TTTCTTTCTTCTT
17974501 TTCCTCTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 1 0.04
15 17 0.71
16 5 0.21
17 1 0.04
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.68
Consensus pattern (15 bp):
TTTCTTTCTTCTTCC
Found at i:17974512 original size:27 final size:27
Alignment explanation
Indices: 17974460--17974512 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
17974450 TTTTTTGTTT
*
17974460 CTTTCTTTCTTCCTTTCTCGTTTCTTC
1 CTTTCTTTCTTCCTTTCTCGTCTCTTC
*
17974487 CTTTCTTTCTTCTTTTCCTC-TCTCTT
1 CTTTCTTTCTTCCTTT-CTCGTCTCTT
17974513 GTCATCGGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.00, C:0.34, G:0.02, T:0.64
Consensus pattern (27 bp):
CTTTCTTTCTTCCTTTCTCGTCTCTTC
Found at i:17974654 original size:34 final size:35
Alignment explanation
Indices: 17974616--17974717 Score: 95
Period size: 34 Copynumber: 3.0 Consensus size: 35
17974606 GTTCTAATCC
17974616 TTTCAACCT-AAAAATCAGCAACCAAAGCTGCTCA
1 TTTCAACCTAAAAAATCAGCAACCAAAGCTGCTCA
* * * *
17974650 TTTCAGCCTAAAAAATCAGTAGCC-AAGCTGCTCC
1 TTTCAACCTAAAAAATCAGCAACCAAAGCTGCTCA
* * *
17974684 TTTC-TCCTTCAAAACTC-GACAACCAAAGCTGCTC
1 TTTCAACC-TAAAAAATCAG-CAACCAAAGCTGCTC
17974718 CGTTCTTCTT
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
33 3 0.05
34 31 0.56
35 21 0.38
ACGTcount: A:0.34, C:0.31, G:0.11, T:0.24
Consensus pattern (35 bp):
TTTCAACCTAAAAAATCAGCAACCAAAGCTGCTCA
Found at i:17974733 original size:69 final size:68
Alignment explanation
Indices: 17974660--17974837 Score: 214
Period size: 68 Copynumber: 2.6 Consensus size: 68
17974650 TTTCAGCCTA
* *
17974660 AAAAATCAGTAGCCAAGCTGCTCCTTTCTCCTTCAAAACTCGACAACCAAAGCTGCTCCGTTCTT
1 AAAAATCAGCAGCCAAGCTGCTCCTTTCTCCTTCAAAACTCGACAACC-AAGCTGCTCCGTTCCT
*
17974725 CTTC
65 CCTC
* * * * * *
17974729 AAAAATTAGCAGCCAAGCTGCTCTTTTCTCCCTT-AAAACTCTACAGCCAAGCTGCTTCTTTCCT
1 AAAAATCAGCAGCCAAGCTGCTCCTTTCT-CCTTCAAAACTCGACAACCAAGCTGCTCCGTTCCT
17974793 CCTC
65 CCTC
* * * *
17974797 AAAAATCAACAGCCAACCTGCTCCTTTCTCCCTCGAAACTC
1 AAAAATCAGCAGCCAAGCTGCTCCTTTCTCCTTCAAAACTC
17974838 ACTAGCAAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
67 3 0.03
68 47 0.51
69 38 0.41
70 4 0.04
ACGTcount: A:0.28, C:0.35, G:0.10, T:0.28
Consensus pattern (68 bp):
AAAAATCAGCAGCCAAGCTGCTCCTTTCTCCTTCAAAACTCGACAACCAAGCTGCTCCGTTCCTC
CTC
Found at i:17974776 original size:34 final size:34
Alignment explanation
Indices: 17974670--17974827 Score: 169
Period size: 34 Copynumber: 4.6 Consensus size: 34
17974660 AAAAATCAGT
* *
17974670 AGCCAAGCTGCTCCTTTCTCCTTCAAAACTCGAC
1 AGCCAAGCTGCTCCTTTCTCCTTCAAAAATCTAC
* * *
17974704 AACCAAAGCTGCTCCGTTCTTCTTCAAAAAT-TAGC
1 AGCC-AAGCTGCTCCTTTCTCCTTCAAAAATCTA-C
* *
17974739 AGCCAAGCTGCTCTTTTCTCCCTT-AAAACTCTAC
1 AGCCAAGCTGCTCCTTTCT-CCTTCAAAAATCTAC
* *
17974773 AGCCAAGCTGCTTCTTTCCTCC-TCAAAAATCAAC
1 AGCCAAGCTGCTCCTTT-CTCCTTCAAAAATCTAC
*
17974807 AGCCAACCTGCTCCTTTCTCC
1 AGCCAAGCTGCTCCTTTCTCC
17974828 CTCGAAACTC
Statistics
Matches: 102, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
33 5 0.05
34 63 0.62
35 34 0.33
ACGTcount: A:0.25, C:0.36, G:0.10, T:0.28
Consensus pattern (34 bp):
AGCCAAGCTGCTCCTTTCTCCTTCAAAAATCTAC
Found at i:17974818 original size:68 final size:70
Alignment explanation
Indices: 17974634--17974837 Score: 227
Period size: 69 Copynumber: 3.0 Consensus size: 70
17974624 TAAAAATCAG
** ** * *
17974634 CAACCAAAGCTGCTCATTTCAGCCTAAAAAATCAGTAGCCAAGCTGCTCCTTTCT-CCTTCAAAA
1 CAACCAAAGCTGCTCCGTTCCTCCTCAAAAATCAGCAGCCAAGCTGCTCCTTTCTCCCTTCAAAA
17974698 CTCGA
66 CTCGA
* * * *
17974703 CAACCAAAGCTGCTCCGTTCTTCTTCAAAAATTAGCAGCCAAGCTGCTCTTTTCTCCCTT-AAAA
1 CAACCAAAGCTGCTCCGTTCCTCCTCAAAAATCAGCAGCCAAGCTGCTCCTTTCTCCCTTCAAAA
*
17974767 CTCTA
66 CTCGA
* * * * * *
17974772 CAGCC-AAGCTGCTTCTTTCCTCCTCAAAAATCAACAGCCAACCTGCTCCTTTCTCCC-TCGAAA
1 CAACCAAAGCTGCTCCGTTCCTCCTCAAAAATCAGCAGCCAAGCTGCTCCTTTCTCCCTTCAAAA
17974835 CTC
66 CTC
17974838 ACTAGCAAAA
Statistics
Matches: 113, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
67 1 0.01
68 50 0.44
69 58 0.51
70 4 0.04
ACGTcount: A:0.28, C:0.35, G:0.10, T:0.27
Consensus pattern (70 bp):
CAACCAAAGCTGCTCCGTTCCTCCTCAAAAATCAGCAGCCAAGCTGCTCCTTTCTCCCTTCAAAA
CTCGA
Found at i:17976742 original size:2 final size:2
Alignment explanation
Indices: 17976735--17976767 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
17976725 TACCTTTAAC
17976735 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17976768 CATTGTTGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:17981190 original size:24 final size:24
Alignment explanation
Indices: 17981154--17981217 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 24
17981144 GCCCTTTCCA
* *
17981154 TGGGCTCTTCCCATTTCTTCTTAT
1 TGGGCTATGCCCATTTCTTCTTAT
*
17981178 TGGGCTATGCCCATTTTTTTCTTAT
1 TGGGCTATGCCCA-TTTCTTCTTAT
*
17981203 TCGGCTATGCCCATT
1 TGGGCTATGCCCATT
17981218 CTCTCTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 13 0.37
25 22 0.63
ACGTcount: A:0.11, C:0.27, G:0.16, T:0.47
Consensus pattern (24 bp):
TGGGCTATGCCCATTTCTTCTTAT
Found at i:17981208 original size:25 final size:25
Alignment explanation
Indices: 17981163--17981217 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
17981153 ATGGGCTCTT
*
17981163 CCCA-TTTCTTCTTATTGGGCTATG
1 CCCATTTTCTTCTTATTCGGCTATG
*
17981187 CCCATTTTTTTCTTATTCGGCTATG
1 CCCATTTTCTTCTTATTCGGCTATG
17981212 CCCATT
1 CCCATT
17981218 CTCTCTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.13, C:0.27, G:0.13, T:0.47
Consensus pattern (25 bp):
CCCATTTTCTTCTTATTCGGCTATG
Found at i:17981268 original size:15 final size:15
Alignment explanation
Indices: 17981232--17981279 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
17981222 CTTTTTTTTT
*
17981232 TCTTTCTTCTT-TTC
1 TCTTTCTTCTTCTCC
17981246 TCGTTTCTTC--CT-C
1 TC-TTTCTTCTTCTCC
17981259 TCTTTCTTCTTCTCC
1 TCTTTCTTCTTCTCC
17981274 TCTTTC
1 TCTTTC
17981280 CCGTCTGTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
12 7 0.24
13 3 0.10
14 5 0.17
15 14 0.48
ACGTcount: A:0.00, C:0.35, G:0.02, T:0.62
Consensus pattern (15 bp):
TCTTTCTTCTTCTCC
Found at i:17981485 original size:34 final size:33
Alignment explanation
Indices: 17981446--17981554 Score: 105
Period size: 34 Copynumber: 3.2 Consensus size: 33
17981436 AAAAATCAGC
17981446 AGCCAAGTGGCTCTTGTCTCCCTCAAAACTCGAT
1 AGCCAAGT-GCTCTTGTCTCCCTCAAAACTCGAT
* * * *
17981480 AGCCAAAGTTACT-TTGTTCTTCCTCAAAAATCAAT
1 AGCC-AAG-TGCTCTTG-TCTCCCTCAAAACTCGAT
*
17981515 AGCCAAGCTGCTCATT-TCTCCCTCAAAACTCGAC
1 AGCCAAG-TGCTC-TTGTCTCCCTCAAAACTCGAT
17981549 AGCCAA
1 AGCCAA
17981555 AGTTGTTTTG
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
34 33 0.55
35 24 0.40
36 3 0.05
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (33 bp):
AGCCAAGTGCTCTTGTCTCCCTCAAAACTCGAT
Found at i:17981506 original size:35 final size:35
Alignment explanation
Indices: 17981466--17981577 Score: 129
Period size: 35 Copynumber: 3.2 Consensus size: 35
17981456 CTCTTGTCTC
*
17981466 CCTCAAAACTCGATAGCCAAAGTTACTTTGTTCTT
1 CCTCAAAACTCGATAGCCAAAGTTGCTTTGTTCTT
* * * * *
17981501 CCTCAAAAATCAATAGCC-AAGCTGCTCAT-TTCTC
1 CCTCAAAACTCGATAGCCAAAGTTGCT-TTGTTCTT
* *
17981535 CCTCAAAACTCGACAGCCAAAGTTGTTTTGTTCTT
1 CCTCAAAACTCGATAGCCAAAGTTGCTTTGTTCTT
17981570 CCTCAAAA
1 CCTCAAAA
17981578 ATCAGCAGCC
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
34 26 0.43
35 35 0.57
ACGTcount: A:0.30, C:0.29, G:0.11, T:0.30
Consensus pattern (35 bp):
CCTCAAAACTCGATAGCCAAAGTTGCTTTGTTCTT
Found at i:17981510 original size:69 final size:69
Alignment explanation
Indices: 17981436--17981596 Score: 245
Period size: 69 Copynumber: 2.3 Consensus size: 69
17981426 TTTCAGCCTA
*
17981436 AAAAATCAGCAGCCAAG-TGGCTC-TTGTCTCCCTCAAAACTCGATAGCCAAAGTTACTTTGTTC
1 AAAAATCAGCAGCCAAGCT-GCTCATT-TCTCCCTCAAAACTCGACAGCCAAAGTTACTTTGTTC
17981499 TTCCTC
64 TTCCTC
** **
17981505 AAAAATCAATAGCCAAGCTGCTCATTTCTCCCTCAAAACTCGACAGCCAAAGTTGTTTTGTTCTT
1 AAAAATCAGCAGCCAAGCTGCTCATTTCTCCCTCAAAACTCGACAGCCAAAGTTACTTTGTTCTT
17981570 CCTC
66 CCTC
17981574 AAAAATCAGCAGCCAAGCTGCTC
1 AAAAATCAGCAGCCAAGCTGCTC
17981597 CCTCAAACTC
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
69 80 0.96
70 3 0.04
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (69 bp):
AAAAATCAGCAGCCAAGCTGCTCATTTCTCCCTCAAAACTCGACAGCCAAAGTTACTTTGTTCTT
CCTC
Found at i:17981587 original size:35 final size:36
Alignment explanation
Indices: 17981400--17981589 Score: 128
Period size: 35 Copynumber: 5.5 Consensus size: 36
17981390 CCTTTCAACC
** * * **
17981400 CAAAAATCAATAGCCAAAGCTGCTCAT-TTCAGCCT
1 CAAAAATCAGCAGCCAAAGTTGCTCTTGTTCTCCCT
* *
17981435 AAAAAATCAGCAGCC-AAGTGGCTCTTG-TCTCCCT
1 CAAAAATCAGCAGCCAAAGTTGCTCTTGTTCTCCCT
* * * *
17981469 CAAAACTC-GATAGCCAAAGTTACT-TTGTTCTTCCT
1 CAAAAATCAG-CAGCCAAAGTTGCTCTTGTTCTCCCT
** * *
17981504 CAAAAATCAATAGCC-AAGCTGCTCAT-TTCTCCCT
1 CAAAAATCAGCAGCCAAAGTTGCTCTTGTTCTCCCT
* * *
17981538 CAAAACTC-GACAGCCAAAGTTG-TTTTGTTCTTCCT
1 CAAAAATCAG-CAGCCAAAGTTGCTCTTGTTCTCCCT
17981573 CAAAAATCAGCAGCCAA
1 CAAAAATCAGCAGCCAA
17981590 GCTGCTCCCT
Statistics
Matches: 117, Mismatches: 28, Indels: 20
0.71 0.17 0.12
Matches are distributed among these distances:
33 1 0.01
34 52 0.44
35 63 0.54
36 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (36 bp):
CAAAAATCAGCAGCCAAAGTTGCTCTTGTTCTCCCT
Found at i:17982082 original size:16 final size:16
Alignment explanation
Indices: 17982063--17982101 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
17982053 TTTCCAATTC
*
17982063 TTTTATTTTCTTA-TTA
1 TTTTATTAT-TTATTTA
17982079 TTTTATTATTTATTTA
1 TTTTATTATTTATTTA
17982095 TTTTATT
1 TTTTATT
17982102 CCCTCAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTATTATTTATTTA
Found at i:17989775 original size:18 final size:19
Alignment explanation
Indices: 17989752--17989795 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
17989742 CAAGTCAAGT
**
17989752 TTTTGAT-CATGAATTATA
1 TTTTGATACATGAAAAATA
17989770 TTTTGATGACATGAAAAATA
1 TTTTGAT-ACATGAAAAATA
17989790 TTTTGA
1 TTTTGA
17989796 ATTGCATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (19 bp):
TTTTGATACATGAAAAATA
Found at i:17991457 original size:61 final size:60
Alignment explanation
Indices: 17991300--17991663 Score: 414
Period size: 61 Copynumber: 6.0 Consensus size: 60
17991290 AGACATCATC
* * * *
17991300 ACCTA-TTCGTGGGAACTACCCACGCC-GCCATATATAAATCAGGGCTTCAGGTCCCCCTTT
1 ACCTACTT-GTGGGAACTGCCCATGCCACCCA-ATATAAATCAGGGCTTCAGGTCCCCTTTT
* *
17991360 ACCTAC-TGATGGGATCTGCCCATGCCACCTAATATAAATCAGGGCTTCAGGTCCCTCTTTT
1 ACCTACTTG-TGGGAACTGCCCATGCCACCCAATATAAATCAGGGCTTCAGGTCCC-CTTTT
* * ** * *
17991421 ATCTACTTGTGGGAACTGCTCACACCACCCAATATAAATCGGGGCTTCAGGTCCCCCTTT
1 ACCTACTTGTGGGAACTGCCCATGCCACCCAATATAAATCAGGGCTTCAGGTCCCCTTTT
* * *
17991481 ACCTACTCGTGGGATCTGCCCATGCCACCCAATATAAATC-GAGGCTTTAGGTCCCCCTTTT
1 ACCTACTTGTGGGAACTGCCCATGCCACCCAATATAAATCAG-GGCTTCAGGT-CCCCTTTT
* * ** *
17991542 ACCTACTTGTGGGAACTGCCCACGCCACTCAATATAAATCAGGATTTCATGTCCCCTTTTT
1 ACCTACTTGTGGGAACTGCCCATGCCACCCAATATAAATCAGGGCTTCAGGTCCCC-TTTT
* * *
17991603 TCCTACTCGTGGGAACTACCCATGCCACCCAATATAAATC-GAGGCTTCAGGTCCCCTTTT
1 ACCTACTTGTGGGAACTGCCCATGCCACCCAATATAAATCAG-GGCTTCAGGTCCCCTTTT
17991663 A
1 A
17991664 TAATCAAATA
Statistics
Matches: 255, Mismatches: 39, Indels: 20
0.81 0.12 0.06
Matches are distributed among these distances:
59 2 0.01
60 100 0.39
61 150 0.59
62 3 0.01
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (60 bp):
ACCTACTTGTGGGAACTGCCCATGCCACCCAATATAAATCAGGGCTTCAGGTCCCCTTTT
Found at i:17991527 original size:121 final size:120
Alignment explanation
Indices: 17991308--17991664 Score: 486
Period size: 121 Copynumber: 3.0 Consensus size: 120
17991298 TCACCTATTC
* * *
17991308 GTGGGAACTACCCACGCC-GCCATATATAAATCAGGGCTTCAGGTCCCCCTTTACCTACT-GATG
1 GTGGGAACTGCCCACACCACCCA-ATATAAATCAGGGCTTCAGGTCCCCCTTTACCTACTCG-TG
*
17991371 GGATCTGCCCATGCCACCTAATATAAATC-AGGGCTTCAGGTCCCTCTTTTATCTACTT
64 GGATCTGCCCATGCCACCCAATATAAATCGA-GGCTTCAGGTCCC-CTTTTATCTACTT
* *
17991429 GTGGGAACTGCTCACACCACCCAATATAAATCGGGGCTTCAGGTCCCCCTTTACCTACTCGTGGG
1 GTGGGAACTGCCCACACCACCCAATATAAATCAGGGCTTCAGGTCCCCCTTTACCTACTCGTGGG
* *
17991494 ATCTGCCCATGCCACCCAATATAAATCGAGGCTTTAGGTCCCCCTTTTACCTACTT
66 ATCTGCCCATGCCACCCAATATAAATCGAGGCTTCAGGT-CCCCTTTTATCTACTT
* * ** * * *
17991550 GTGGGAACTGCCCACGCCACTCAATATAAATCAGGATTTCATGTCCCCTTTTTTCCTACTCGTGG
1 GTGGGAACTGCCCACACCACCCAATATAAATCAGGGCTTCAGGTCCCC-CTTTACCTACTCGTGG
* *
17991615 GAACTACCCATGCCACCCAATATAAATCGAGGCTTCAGGTCCCCTTTTAT
65 GATCTGCCCATGCCACCCAATATAAATCGAGGCTTCAGGTCCCCTTTTAT
17991665 AATCAAATAT
Statistics
Matches: 210, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
121 151 0.72
122 59 0.28
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (120 bp):
GTGGGAACTGCCCACACCACCCAATATAAATCAGGGCTTCAGGTCCCCCTTTACCTACTCGTGGG
ATCTGCCCATGCCACCCAATATAAATCGAGGCTTCAGGTCCCCTTTTATCTACTT
Found at i:17992353 original size:67 final size:68
Alignment explanation
Indices: 17992251--17992419 Score: 180
Period size: 67 Copynumber: 2.4 Consensus size: 68
17992241 TAGCTATTCT
* ** *
17992251 TTTTTTGTCTATTTCTTCCCTCTCTTTCTTCTCCTCTATCGCTGCTTTTTCTCTCCTTATTC-TG
1 TTTTTT-TCT-TTT-TTCCCTCTCTTTCTTCTCCTCCATCGCTGCTCCTTATCTCCTTATTCTTG
17992315 TTTTT-
63 TTTTTC
* * * * * *
17992320 TCTTTTTTCTTTTTTCCCTCTTTTTCTTTTCCTCCGTCTCTGCTCCTTATTTCCTTCTTCTTGTT
1 T-TTTTTTCTTTTTTCCCTCTCTTTCTTCTCCTCCATCGCTGCTCCTTATCTCCTTATTCTTGTT
17992385 TTTC
65 TTTC
*
17992389 TTTTTCTTCTTTCTTCCCTCTCTTTCTTCTC
1 TTTTT-TTCTTTTTTCCCTCTCTTTCTTCTC
17992420 TTCGTCGCCA
Statistics
Matches: 83, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
67 37 0.45
68 14 0.17
69 27 0.33
70 5 0.06
ACGTcount: A:0.02, C:0.31, G:0.04, T:0.63
Consensus pattern (68 bp):
TTTTTTTCTTTTTTCCCTCTCTTTCTTCTCCTCCATCGCTGCTCCTTATCTCCTTATTCTTGTTT
TTC
Found at i:17992704 original size:14 final size:12
Alignment explanation
Indices: 17992652--17992713 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
17992642 AGGGCCCCTT
17992652 TTTTTCTTTTT-
1 TTTTTCTTTTTC
*
17992663 TTTTTCTTCTTC
1 TTTTTCTTTTTC
* *
17992675 CTTTTCTCTTCTC
1 TTTTTCT-TTTTC
17992688 TTTTGTCTTTTTC
1 TTTT-TCTTTTTC
* *
17992701 CTTTCCTTTTTC
1 TTTTTCTTTTTC
17992713 T
1 T
17992714 CTTCACATGC
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 13 0.33
14 3 0.08
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTTTC
Found at i:18001341 original size:20 final size:20
Alignment explanation
Indices: 18001296--18001333 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
18001286 TTTTGGCCCC
18001296 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
18001316 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
18001334 AGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:18009740 original size:27 final size:27
Alignment explanation
Indices: 18009695--18009746 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
18009685 GTGTCTTGGT
**
18009695 GGTGGAAAATTACTGTTTTG-CCCTTA
1 GGTGGAAAATTACCATTTTGTCCCTTA
18009721 GGTGGCAAAATTACCATTTTGTCCCT
1 GGTGG-AAAATTACCATTTTGTCCCT
18009747 ATGCTCTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 13 0.59
28 4 0.18
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (27 bp):
GGTGGAAAATTACCATTTTGTCCCTTA
Found at i:18019994 original size:68 final size:66
Alignment explanation
Indices: 18019895--18020102 Score: 211
Period size: 68 Copynumber: 3.1 Consensus size: 66
18019885 TATAACATCA
* * * * * *
18019895 ATCATACATTCTTATTCATCTCATGTAGTATATGGAATCTACATCATACACATATTTTCATGGCA
1 ATCATGCATACTTAATCATCTCATATGGTATATGGAATCTACATCATACACA-ATCTT-ATGGCA
18019960 TTC
64 TTC
* *
18019963 ATCATGCATACTTAATCACCTCATATGGTATATGGAACTTGTATCAT-ATACACAATCTTATGGC
1 ATCATGCATACTTAATCATCTCATATGGTATATGGAA--TCTA-CATCATACACAATCTTATGGC
18020027 ATTC
63 ATTC
** * * * *
18020031 ATCATGCATAAGTAATCATCTCATAAGGTATATGGAGTTTACATCATATACACAAGCTTATGGCA
1 ATCATGCATACTTAATCATCTCATATGGTATATGGAATCTACATC--ATACACAATCTTATGGCA
*
18020096 TTT
64 TTC
18020099 ATCA
1 ATCA
18020103 CACCAAACAT
Statistics
Matches: 118, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
65 3 0.03
66 3 0.03
68 95 0.81
69 4 0.03
70 10 0.08
71 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (66 bp):
ATCATGCATACTTAATCATCTCATATGGTATATGGAATCTACATCATACACAATCTTATGGCATT
C
Found at i:18021095 original size:50 final size:50
Alignment explanation
Indices: 18021040--18021136 Score: 115
Period size: 50 Copynumber: 1.9 Consensus size: 50
18021030 TTGGAACAAT
* * * *
18021040 TCTATCTATGCATTT-AACTATGTATTGATAGATGTTCATAAAATTCCAAA
1 TCTATCGATACATTTCAAC-ATGTATCGATACATGTTCATAAAATTCCAAA
* * *
18021090 TCTATCGATACATTTCTACATGTATCGATACATGTTCTTTAAATTCC
1 TCTATCGATACATTTCAACATGTATCGATACATGTTCATAAAATTCC
18021137 CCCTTTTAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 37 0.95
51 2 0.05
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (50 bp):
TCTATCGATACATTTCAACATGTATCGATACATGTTCATAAAATTCCAAA
Found at i:18024981 original size:19 final size:19
Alignment explanation
Indices: 18024957--18024998 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
18024947 CTTCTTCCCC
18024957 TTCATGCTCCCACGCCATT
1 TTCATGCTCCCACGCCATT
*
18024976 TTCATGCTCCGACGCCATT
1 TTCATGCTCCCACGCCATT
18024995 TTCA
1 TTCA
18024999 CCTTACCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.17, C:0.38, G:0.12, T:0.33
Consensus pattern (19 bp):
TTCATGCTCCCACGCCATT
Found at i:18029718 original size:64 final size:64
Alignment explanation
Indices: 18029625--18029892 Score: 412
Period size: 64 Copynumber: 4.2 Consensus size: 64
18029615 TCCCCACTTT
* * *
18029625 GCACATGCAGGGTAGTAATTATCACAACCTTTATCATTAAACTGGCATTTGTACTTCCCACTTC
1 GCACATGCACGGTCGTAATTATCACAACCTTTATCATTAAACTGGCATTTGTACTTCCCACTCC
* *
18029689 GCACATGCACGGTCGTAATTATCACAACCTTTATCATTAAACCGACATTTGTACTTCCCACTCC
1 GCACATGCACGGTCGTAATTATCACAACCTTTATCATTAAACTGGCATTTGTACTTCCCACTCC
* * *
18029753 GTACATGCACGGTCGTGATTATCACAACCTTTATCATTAAACAGGCATTTGTACTTCCCACTCC
1 GCACATGCACGGTCGTAATTATCACAACCTTTATCATTAAACTGGCATTTGTACTTCCCACTCC
* * * * *
18029817 GCACATGCACGGTCATAATTATCACATCCTTTGTCATTCAACTGGCA-TTGCACTTCCCACTCC
1 GCACATGCACGGTCGTAATTATCACAACCTTTATCATTAAACTGGCATTTGTACTTCCCACTCC
18029880 GCACATGCACGGT
1 GCACATGCACGGT
18029893 TGCATCAATT
Statistics
Matches: 187, Mismatches: 17, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
63 28 0.15
64 159 0.85
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.30
Consensus pattern (64 bp):
GCACATGCACGGTCGTAATTATCACAACCTTTATCATTAAACTGGCATTTGTACTTCCCACTCC
Found at i:18034537 original size:2 final size:2
Alignment explanation
Indices: 18034530--18034571 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
18034520 ACTTCCATAA
18034530 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
18034572 NNNNNNNNNN
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:18036648 original size:66 final size:66
Alignment explanation
Indices: 18036542--18036674 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
18036532 TTAGAAATGA
*
18036542 CGGTTGAGAATGATGATTGGGATTGCATAAAAAAAAAAAGCTTGCTTGGGCTTAGTGGGCTATGC
1 CGGTTGAGAATGATGATTGGGATTGCATAAAAAAAAAAAGCTTGCTTAGGCTTAGTGGGCTATGC
18036607 C
66 C
18036608 CGGTTGAGAATGATGATTGGGATTGCATAAAAAAAAAAAGCTTGCTTAGGCTTAGTGGGCTATGC
1 CGGTTGAGAATGATGATTGGGATTGCATAAAAAAAAAAAGCTTGCTTAGGCTTAGTGGGCTATGC
18036673 C
66 C
18036674 C
1 C
18036675 ATTGGGCCCA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (66 bp):
CGGTTGAGAATGATGATTGGGATTGCATAAAAAAAAAAAGCTTGCTTAGGCTTAGTGGGCTATGC
C
Found at i:18038489 original size:35 final size:35
Alignment explanation
Indices: 18038450--18038558 Score: 159
Period size: 35 Copynumber: 3.1 Consensus size: 35
18038440 TGTGCTGCAC
18038450 AATTTTTAGAAGGAAATAGGAAGAGTTTTGCTACA
1 AATTTTTAGAAGGAAATAGGAAGAGTTTTGCTACA
*
18038485 AATTTTTA-AGAGGAAATAGGAAGAGTTTTGTTACA
1 AATTTTTAGA-AGGAAATAGGAAGAGTTTTGCTACA
* * *
18038520 AATTTTGAG-AGGAAATAGAAAGAGTTTTGCTGCA
1 AATTTTTAGAAGGAAATAGGAAGAGTTTTGCTACA
18038554 AATTT
1 AATTT
18038559 GAAAGAGAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
34 28 0.42
35 39 0.58
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (35 bp):
AATTTTTAGAAGGAAATAGGAAGAGTTTTGCTACA
Found at i:18038536 original size:34 final size:34
Alignment explanation
Indices: 18038450--18038558 Score: 155
Period size: 34 Copynumber: 3.1 Consensus size: 34
18038440 TGTGCTGCAC
*
18038450 AATTTTTAGAAGGAAATAGGAAGAGTTTTGCTACA
1 AATTTTAAG-AGGAAATAGGAAGAGTTTTGCTACA
*
18038485 AATTTTTAAGAGGAAATAGGAAGAGTTTTGTTACA
1 AA-TTTTAAGAGGAAATAGGAAGAGTTTTGCTACA
* * *
18038520 AATTTTGAGAGGAAATAGAAAGAGTTTTGCTGCA
1 AATTTTAAGAGGAAATAGGAAGAGTTTTGCTACA
18038554 AATTT
1 AATTT
18038559 GAAAGAGAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
34 33 0.49
35 28 0.42
36 6 0.09
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (34 bp):
AATTTTAAGAGGAAATAGGAAGAGTTTTGCTACA
Found at i:18038763 original size:25 final size:25
Alignment explanation
Indices: 18038726--18038794 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 25
18038716 ATGAAAAAAA
* *
18038726 AAAAGAGTAGGCATAGCCCAATAAG
1 AAAAGAATGGGCATAGCCCAATAAG
* * *
18038751 AAAAGAATGGGCATGGCCTAATAGG
1 AAAAGAATGGGCATAGCCCAATAAG
* *
18038776 AAGA-AATGGGAATAGCCCA
1 AAAAGAATGGGCATAGCCCA
18038795 TGGAAAGGGC
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
24 12 0.34
25 23 0.66
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.13
Consensus pattern (25 bp):
AAAAGAATGGGCATAGCCCAATAAG
Found at i:18039972 original size:63 final size:63
Alignment explanation
Indices: 18039870--18040094 Score: 335
Period size: 63 Copynumber: 3.6 Consensus size: 63
18039860 TAATGGATGT
* * * *
18039870 AACCGTGCATGTGCGGAGTGGGCAATGCACATGCCGATTGAATGATGAGGTTTCGATAGTTAC
1 AACCGTGCATGTGCGAAGTGGGCAATGCACATGCCGATTGAATGATGATGTTGCGATAATTAC
* *
18039933 AACCGTGCATGTGCGAAGTGGGCAGTGCACATGCTGATTGAATGATGATGTTGCGATAATTAC
1 AACCGTGCATGTGCGAAGTGGGCAATGCACATGCCGATTGAATGATGATGTTGCGATAATTAC
* * *
18039996 TACTGTGCATGTGCGGAGTGGGCAATGCACATGCCGATTGAATGATGATGTTGCGATAATTAC
1 AACCGTGCATGTGCGAAGTGGGCAATGCACATGCCGATTGAATGATGATGTTGCGATAATTAC
* *
18040059 TACCGTGCATGTGCAGAA-TGGGCAGTGCACATGCCG
1 AACCGTGCATGTGC-GAAGTGGGCAATGCACATGCCG
18040095 GTAATGATGC
Statistics
Matches: 147, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
63 145 0.99
64 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (63 bp):
AACCGTGCATGTGCGAAGTGGGCAATGCACATGCCGATTGAATGATGATGTTGCGATAATTAC
Found at i:18049206 original size:2 final size:2
Alignment explanation
Indices: 18049201--18049244 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
18049191 TGTCCATACA
18049201 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
18049243 AT
1 AT
18049245 TATCAACGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18058608 original size:26 final size:26
Alignment explanation
Indices: 18058558--18058618 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
18058548 ACAATTTTCT
*
18058558 GTTTCTTCTT-CTAACTTTCTGTTCC
1 GTTTCTTCTTCCTAACCTTCTGTTCC
18058583 AGTTTCTTCTTCCCTAACCTT-T-TTCC
1 -GTTTCTTCTT-CCTAACCTTCTGTTCC
18058609 -TTTCTTCTTC
1 GTTTCTTCTTC
18058619 TCTGACACTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
23 1 0.03
24 9 0.28
26 14 0.44
27 1 0.03
28 7 0.22
ACGTcount: A:0.08, C:0.31, G:0.05, T:0.56
Consensus pattern (26 bp):
GTTTCTTCTTCCTAACCTTCTGTTCC
Found at i:18065325 original size:2 final size:2
Alignment explanation
Indices: 18065318--18065342 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18065308 ATCGATCAAG
18065318 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 T
18065343 TGTCTATAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18075641 original size:73 final size:74
Alignment explanation
Indices: 18075564--18075737 Score: 219
Period size: 73 Copynumber: 2.4 Consensus size: 74
18075554 TTAGTTGACC
* * * * *
18075564 AAGAAACATGGTTAGTCGACTAAGAGCTTACTGCCAGAAACTTGGTTCAG-AGACAGAGACGACT
1 AAGAAACATGGTTAGTCAACTAAGAGCTTACTGCCAGAAACTAGGATCAGAAGACAAAAACGACT
18075628 TAATCGACT
66 TAATCGACT
* * * * *
18075637 AAGAAGCATTGTTAGTCAACTAAGAGTTTACTGCTAGAAACTAGGATCAGAAGATAAAAACGACT
1 AAGAAACATGGTTAGTCAACTAAGAGCTTACTGCCAGAAACTAGGATCAGAAGACAAAAACGACT
18075702 TAATCGACT
66 TAATCGACT
*
18075711 AAG-AA-GTGTGTTAGTCAACTAAGAGCT
1 AAGAAACATG-GTTAGTCAACTAAGAGCT
18075738 CTTTGTTTGG
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
72 1 0.01
73 61 0.72
74 23 0.27
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.24
Consensus pattern (74 bp):
AAGAAACATGGTTAGTCAACTAAGAGCTTACTGCCAGAAACTAGGATCAGAAGACAAAAACGACT
TAATCGACT
Found at i:18088377 original size:22 final size:22
Alignment explanation
Indices: 18088352--18088393 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
18088342 GGGGAGAAAT
18088352 AGAAAGTAGAAAG-AATTTAGGG
1 AGAAAGTA-AAAGCAATTTAGGG
18088374 AGAAAGTAAAAGCAATTTAG
1 AGAAAGTAAAAGCAATTTAG
18088394 TGGTAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.52, C:0.02, G:0.26, T:0.19
Consensus pattern (22 bp):
AGAAAGTAAAAGCAATTTAGGG
Found at i:18089271 original size:73 final size:74
Alignment explanation
Indices: 18089187--18089351 Score: 217
Period size: 73 Copynumber: 2.2 Consensus size: 74
18089177 AAATAAAGAA
* * * * *
18089187 GACTTAGTCGACTAAGAAACATGGTTAATCAACTAAGAGCTTACTGCGAGAAACTGGGTTC-AGA
1 GACTTAATCGACTAAGAAACATGGTTAATCAACTAAGAGCTTACTGCCAGAAACTAGGATCAAAA
* *
18089251 GACAGAGAT
66 GACACAAAT
* * *
18089260 GACTTAATCGACTAAGAAGCATTGTTAGTCAACTAAGAGCTTACTGCCAGAAACTAGGATCAAAA
1 GACTTAATCGACTAAGAAACATGGTTAATCAACTAAGAGCTTACTGCCAGAAACTAGGATCAAAA
18089325 GACACAAAT
66 GACACAAAT
18089334 GA-TATAATCGACTAAGAA
1 GACT-TAATCGACTAAGAA
18089352 GTGTGTTGGT
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
73 55 0.69
74 25 0.31
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.22
Consensus pattern (74 bp):
GACTTAATCGACTAAGAAACATGGTTAATCAACTAAGAGCTTACTGCCAGAAACTAGGATCAAAA
GACACAAAT
Found at i:18089364 original size:73 final size:72
Alignment explanation
Indices: 18089187--18089374 Score: 209
Period size: 73 Copynumber: 2.6 Consensus size: 72
18089177 AAATAAAGAA
* * * * * * * *
18089187 GACTTAGTCGACTAAGAAACATGGTTAATCAACTAAGAGCTTACTGCGAGAAACTGGGTTCAGAG
1 GACTTAATCGACTAAG-AAGATTGTTAGTCAACTAAGAGCTTACTGCCAGAAACTAGGATCAAAG
* *
18089252 ACAGAGAT
65 ACACAAAT
18089260 GACTTAATCGACTAAGAAGCATTGTTAGTCAACTAAGAGCTTACTGCCAGAAACTAGGATCAAAA
1 GACTTAATCGACTAAGAAG-ATTGTTAGTCAACTAAGAGCTTACTGCCAGAAACTAGGATC-AAA
18089325 GACACAAAT
64 GACACAAAT
* *
18089334 GA-TATAATCGACTAAGAAG-TGTGTTGGTCAACTAAAAGCTT
1 GACT-TAATCGACTAAGAAGAT-TGTTAGTCAACTAAGAGCTT
18089375 TTTGTTTGGA
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
72 3 0.03
73 70 0.71
74 26 0.26
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (72 bp):
GACTTAATCGACTAAGAAGATTGTTAGTCAACTAAGAGCTTACTGCCAGAAACTAGGATCAAAGA
CACAAAT
Found at i:18091164 original size:64 final size:64
Alignment explanation
Indices: 18091079--18091314 Score: 274
Period size: 64 Copynumber: 3.7 Consensus size: 64
18091069 GCCTTTTAAT
* * * * *
18091079 GAGAGCAAGAACAACCCATGGTTTTTAACGAGCTTAACCATAAACCTTACAAATGTTTTTTACC
1 GAGAGCAAGCACAACCCATGGTTTTTAAAGAGCTCAACCACAAACCTTACAAATGCTTTTTACC
* * * * * *
18091143 GAGAGCAAGCACAACCAATGGTTTTTAATGAGCTCAACCCCAAACCTTAAAAATGCCTTTTATC
1 GAGAGCAAGCACAACCCATGGTTTTTAAAGAGCTCAACCACAAACCTTACAAATGCTTTTTACC
* * * * * *
18091207 TAAAGCAAGCACAACCCATGGTTTTTAAAGGGCTCAACAACAAACCTTGCAAATGCTTTTTACT
1 GAGAGCAAGCACAACCCATGGTTTTTAAAGAGCTCAACCACAAACCTTACAAATGCTTTTTACC
* * * * *
18091271 GGGAGCAAGCACAACCCATGTTTTTTAATGGGCTAAACCACAAA
1 GAGAGCAAGCACAACCCATGGTTTTTAAAGAGCTCAACCACAAA
18091315 TCCACACTAA
Statistics
Matches: 143, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
64 143 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (64 bp):
GAGAGCAAGCACAACCCATGGTTTTTAAAGAGCTCAACCACAAACCTTACAAATGCTTTTTACC
Found at i:18091230 original size:128 final size:128
Alignment explanation
Indices: 18091082--18091314 Score: 331
Period size: 128 Copynumber: 1.8 Consensus size: 128
18091072 TTTTAATGAG
* * * * *
18091082 AGCAAGAACAACCCATGGTTTTTAACGAGCTTAACCATAAACCTTACAAATGTTTTTTACCGAGA
1 AGCAAGAACAACCCATGGTTTTTAAAGAGCTCAACAACAAACCTTACAAATGCTTTTTACCGAGA
* *
18091147 GCAAGCACAACCAATGGTTTTTAATGAGCTCAACCCCAAACCTTAAAAATGCCTTTTATCTAA
66 GCAAGCACAACCAATGGTTTTTAATGAGCTAAACCACAAACCTTAAAAATGCCTTTTATCTAA
* * * * *
18091210 AGCAAGCACAACCCATGGTTTTTAAAGGGCTCAACAACAAACCTTGCAAATGCTTTTTACTGGGA
1 AGCAAGAACAACCCATGGTTTTTAAAGAGCTCAACAACAAACCTTACAAATGCTTTTTACCGAGA
* * *
18091275 GCAAGCACAACCCATGTTTTTTAATGGGCTAAACCACAAA
66 GCAAGCACAACCAATGGTTTTTAATGAGCTAAACCACAAA
18091315 TCCACACTAA
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
128 90 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.26
Consensus pattern (128 bp):
AGCAAGAACAACCCATGGTTTTTAAAGAGCTCAACAACAAACCTTACAAATGCTTTTTACCGAGA
GCAAGCACAACCAATGGTTTTTAATGAGCTAAACCACAAACCTTAAAAATGCCTTTTATCTAA
Found at i:18098884 original size:38 final size:39
Alignment explanation
Indices: 18098842--18098944 Score: 120
Period size: 38 Copynumber: 2.6 Consensus size: 39
18098832 ATATTGCCCG
* *
18098842 TGTGCACGATGTGGGGGGATGTACACGACGACAT-TAG-A
1 TGTGCACGATGTGGGGGGATGCACACGACGAC-TCCAGCA
* * *
18098880 TGTGCATGAGGTGGGGGGATGCACACGATGACTCCAGCTA
1 TGTGCACGATGTGGGGGGATGCACACGACGACTCCAGC-A
*
18098920 TGTGCACGATGTGGGGAGATGCACA
1 TGTGCACGATGTGGGGGGATGCACA
18098945 TGAGTTGGGG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
37 1 0.02
38 30 0.56
40 23 0.43
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.20
Consensus pattern (39 bp):
TGTGCACGATGTGGGGGGATGCACACGACGACTCCAGCA
Found at i:18106346 original size:74 final size:74
Alignment explanation
Indices: 18106254--18106506 Score: 249
Period size: 74 Copynumber: 3.4 Consensus size: 74
18106244 CCCTAAGTGT
* * * *
18106254 CAAAGCAACTGGCAGAGGTTCAAATCACACATAGTACCAAAGTAATTGATGGAGGTTCAAATCAC
1 CAAAGTAACTAGCAGAGGTTCAAATCACACATAGTACCGAAGTAATTGATGGAGGTTCAAATCAT
18106319 GCACAATAC
66 GCACAATAC
* * * ** **
18106328 CAAAGTAACTAGCGGAGGTTTAAATCACGCACGGTACCGAAGTAATTGACAGAGGTTCAAATCAT
1 CAAAGTAACTAGCAGAGGTTCAAATCACACATAGTACCGAAGTAATTGATGGAGGTTCAAATCAT
* ** *
18106393 GTATGATAT
66 GCACAATAC
* * ** * * *
18106402 CGAAGTAA-TCG-ATGGAGGTTCAAATCATGCATAGTACCGAAGTAATAGGTGGAGCTTCAAATC
1 CAAAGTAACTAGCA--GAGGTTCAAATCACACATAGTACCGAAGTAATTGATGGAGGTTCAAATC
18106465 ATGCACAATAC
64 ATGCACAATAC
** *
18106476 TGAAGTAACTAGTAGAGGTTCAAATCACACA
1 CAAAGTAACTAGCAGAGGTTCAAATCACACA
18106507 AAGTGTCAAA
Statistics
Matches: 140, Mismatches: 35, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
73 2 0.01
74 135 0.96
75 2 0.01
76 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.22
Consensus pattern (74 bp):
CAAAGTAACTAGCAGAGGTTCAAATCACACATAGTACCGAAGTAATTGATGGAGGTTCAAATCAT
GCACAATAC
Found at i:18106406 original size:37 final size:37
Alignment explanation
Indices: 18106266--18106502 Score: 147
Period size: 37 Copynumber: 6.4 Consensus size: 37
18106256 AAGCAACTGG
** * *
18106266 CAGAGGTTCAAATCACACATAGTACCAAAGTAATTGA
1 CAGAGGTTCAAATCATGCATAGTACCGAAGTAATCGA
** * * * * *
18106303 TGGAGGTTCAAATCACGCACAATACCAAAGTAA-CTA
1 CAGAGGTTCAAATCATGCATAGTACCGAAGTAATCGA
* * * ** *
18106339 GCGGAGGTTTAAATCACGCACGGTACCGAAGTAATTGA
1 -CAGAGGTTCAAATCATGCATAGTACCGAAGTAATCGA
* *
18106377 CAGAGGTTCAAATCATGTAT-GATATCGAAGTAATCGA
1 CAGAGGTTCAAATCATGCATAG-TACCGAAGTAATCGA
** * *
18106414 TGGAGGTTCAAATCATGCATAGTACCGAAGTAATAGG
1 CAGAGGTTCAAATCATGCATAGTACCGAAGTAATCGA
** * * * * *
18106451 TGGAGCTTCAAATCATGCACAATACTGAAGTAA-CTA
1 CAGAGGTTCAAATCATGCATAGTACCGAAGTAATCGA
*
18106487 GTAGAGGTTCAAATCA
1 -CAGAGGTTCAAATCA
18106503 CACAAAGTGT
Statistics
Matches: 159, Mismatches: 36, Indels: 10
0.78 0.18 0.05
Matches are distributed among these distances:
36 2 0.01
37 155 0.97
38 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (37 bp):
CAGAGGTTCAAATCATGCATAGTACCGAAGTAATCGA
Found at i:18106519 original size:111 final size:111
Alignment explanation
Indices: 18106266--18106519 Score: 262
Period size: 111 Copynumber: 2.3 Consensus size: 111
18106256 AAGCAACTGG
* * *
18106266 CAGAGGTTCAAATCACACATAGTACCAAAGTAATTGATGGAGGTTCAAATCACGCACAATACCAA
1 CAGAGGTTCAAATCACACAAAGTATCAAAGTAATCGATGGAGGTTCAAATCACGCACAATACCAA
* * ** *
18106331 AGTAACTAGCGGAGGTTTAAATCACGCACGGTACCGAAGTAATTGA
66 AGTAACTAGCGGAGCTTCAAATCACGCACAATACCGAAGTAATAGA
*** * * * * * *
18106377 CAGAGGTTCAAATCA-TGTATGATATCGAAGTAATCGATGGAGGTTCAAATCATGCATAGTACCG
1 CAGAGGTTCAAATCACACAAAG-TATCAAAGTAATCGATGGAGGTTCAAATCACGCACAATACCA
* * *
18106441 AAGTAA-TAGGTGGAGCTTCAAATCATGCACAATACTGAAGTAACTAG-
65 AAGTAACTA-GCGGAGCTTCAAATCACGCACAATACCGAAGTAA-TAGA
* *
18106488 TAGAGGTTCAAATCACACAAAGTGTCAAAGTA
1 CAGAGGTTCAAATCACACAAAGTATCAAAGTA
18106520 GCTGGCAGAA
Statistics
Matches: 112, Mismatches: 27, Indels: 8
0.76 0.18 0.05
Matches are distributed among these distances:
110 3 0.03
111 105 0.94
112 4 0.04
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (111 bp):
CAGAGGTTCAAATCACACAAAGTATCAAAGTAATCGATGGAGGTTCAAATCACGCACAATACCAA
AGTAACTAGCGGAGCTTCAAATCACGCACAATACCGAAGTAATAGA
Found at i:18106655 original size:2 final size:2
Alignment explanation
Indices: 18106648--18106687 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
18106638 GTTAATTTTG
* * *
18106648 CA CA CA CA TA CA CA CA CA CA CA CA CA CA CA AA CA TA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
18106688 TCTATATATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.42, G:0.00, T:0.05
Consensus pattern (2 bp):
CA
Found at i:18111871 original size:43 final size:43
Alignment explanation
Indices: 18111709--18111873 Score: 158
Period size: 43 Copynumber: 3.8 Consensus size: 43
18111699 TCATTCATCG
* ***
18111709 TCATGTGCACTCCCTACTC-CAACATAGCCAAGTCATCATC-GAC
1 TCATGCGCACTCCCTACTCGC-ACATAGCTGGGTCATCATCAG-C
* * *
18111752 TTATGCGCACTCCCTACTCGCACATAGCCGGGTCATCATCGGC
1 TCATGCGCACTCCCTACTCGCACATAGCTGGGTCATCATCAGC
* * *
18111795 TTATGCGCACTCCCTACTTGCATATAG-TCGGGTCATCATCAGC
1 TCATGCGCACTCCCTACTCGCACATAGCT-GGGTCATCATCAGC
* *
18111838 TCATGTGCACTCTC-ACATCGCACATAGCTGGGTCAT
1 TCATGCGCACTCCCTAC-TCGCACATAGCTGGGTCAT
18111874 TATTATCACA
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
42 2 0.02
43 99 0.95
44 3 0.03
ACGTcount: A:0.22, C:0.34, G:0.18, T:0.26
Consensus pattern (43 bp):
TCATGCGCACTCCCTACTCGCACATAGCTGGGTCATCATCAGC
Found at i:18112736 original size:23 final size:23
Alignment explanation
Indices: 18112710--18112770 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
18112700 TTTTTTCCCT
* *
18112710 TTTCCTTTTTTTTTCTTTCTTTC
1 TTTCCTTTTTTTTTCTCTCTCTC
** *
18112733 TTTCCCGTTTCTTTCTCTCTCTC
1 TTTCCTTTTTTTTTCTCTCTCTC
*
18112756 TCTCTCTTTTTTTTT
1 TTTC-CTTTTTTTTT
18112771 TGCTTCTCTT
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
23 21 0.75
24 7 0.25
ACGTcount: A:0.00, C:0.28, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTCCTTTTTTTTTCTCTCTCTC
Found at i:18112737 original size:30 final size:28
Alignment explanation
Indices: 18112687--18112743 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 28
18112677 TATTATTTAT
*
18112687 TTTTATTTTTCTTTTTTTTCCCTTTTCC
1 TTTTATTTTTCTTTTTTTTCCCGTTTCC
18112715 TTTT-TTTTTCTTTCTTTCTTTCCCGTTTC
1 TTTTATTTTTC-TT-TTT-TTTCCCGTTTC
18112744 TTTCTCTCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 6 0.24
28 6 0.24
29 3 0.12
30 10 0.40
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.74
Consensus pattern (28 bp):
TTTTATTTTTCTTTTTTTTCCCGTTTCC
Found at i:18113054 original size:35 final size:34
Alignment explanation
Indices: 18113015--18113111 Score: 149
Period size: 34 Copynumber: 2.8 Consensus size: 34
18113005 TTTCTCTATC
* *
18113015 AAATTTGCAACAAAACGCTTTCTTTTTCCCTCTTA
1 AAATTTGCAACAAAACTCTTTCTATTTCCCTC-TA
*
18113050 AAATTTGCAACAAAACTCTTTCTATTTCCTTCTA
1 AAATTTGCAACAAAACTCTTTCTATTTCCCTCTA
*
18113084 AAATTTGCAGCAAAACTCTTTCTATTTC
1 AAATTTGCAACAAAACTCTTTCTATTTC
18113112 TTTATAAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
34 29 0.50
35 29 0.50
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (34 bp):
AAATTTGCAACAAAACTCTTTCTATTTCCCTCTA
Found at i:18113091 original size:34 final size:34
Alignment explanation
Indices: 18113015--18113130 Score: 151
Period size: 35 Copynumber: 3.4 Consensus size: 34
18113005 TTTCTCTATC
* * *
18113015 AAATTTGCAACAAAACGCTTTCTTTTTCCCTCTTA
1 AAATTTGCAACAAAACTCTTTCTATTTCCTTC-TA
18113050 AAATTTGCAACAAAACTCTTTCTATTTCCTTCTA
1 AAATTTGCAACAAAACTCTTTCTATTTCCTTCTA
* * *
18113084 AAATTTGCAGCAAAACTCTTTCTATTTCTTTATAA
1 AAATTTGCAACAAAACTCTTTCTATTTCCTTCT-A
*
18113119 AAATTTACAACA
1 AAATTTGCAACA
18113131 CAAGGCCTCT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
34 32 0.44
35 40 0.56
ACGTcount: A:0.34, C:0.22, G:0.04, T:0.40
Consensus pattern (34 bp):
AAATTTGCAACAAAACTCTTTCTATTTCCTTCTA
Found at i:18113311 original size:24 final size:23
Alignment explanation
Indices: 18113243--18113313 Score: 60
Period size: 24 Copynumber: 3.1 Consensus size: 23
18113233 CCTCTCTCTC
* *
18113243 TCACCGACTTCTCTATTTCTTCT
1 TCACCGATTTCTCTCTTTCTTCT
*
18113266 TCA--GCTTTC-C-CTTTACTCTCT
1 TCACCGATTTCTCTCTTT-CT-TCT
18113287 TACACCGATTTCTCTCTTTCTTCT
1 T-CACCGATTTCTCTCTTTCTTCT
18113311 TCA
1 TCA
18113314 AATAGTCAGC
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
19 3 0.08
20 3 0.08
21 8 0.22
22 2 0.05
23 5 0.14
24 9 0.24
25 3 0.08
26 4 0.11
ACGTcount: A:0.13, C:0.35, G:0.04, T:0.48
Consensus pattern (23 bp):
TCACCGATTTCTCTCTTTCTTCT
Found at i:18119346 original size:67 final size:67
Alignment explanation
Indices: 18119256--18119384 Score: 161
Period size: 67 Copynumber: 1.9 Consensus size: 67
18119246 TTGGTTGTTG
* * * ** * **
18119256 GGTTTTGGTTGATCCCGGTAAAAATCATTGTTGTAGGTTGTGGTTGAGCCTTTGAAAAGCCACTT
1 GGTTTTGGTTGATCCCGGTAAAAACCAATGCTAAAGGTTGTGGCTGAGCCTGCGAAAAGCCACTT
18119321 TA
66 TA
*
18119323 GGTTTTGGTTGATCTC-GTGAAAAACCAATGCTAAAGGTTGTGGCTGAGCCTGCGAAAAGCCA
1 GGTTTTGGTTGATCCCGGT-AAAAACCAATGCTAAAGGTTGTGGCTGAGCCTGCGAAAAGCCA
18119385 TTGTAAAAGC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
66 2 0.04
67 50 0.96
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (67 bp):
GGTTTTGGTTGATCCCGGTAAAAACCAATGCTAAAGGTTGTGGCTGAGCCTGCGAAAAGCCACTT
TA
Found at i:18124119 original size:42 final size:42
Alignment explanation
Indices: 18124045--18124161 Score: 128
Period size: 42 Copynumber: 2.8 Consensus size: 42
18124035 CAGCTCATAT
* * **
18124045 GCAACGGCTTATGCACACTCTTACTCATACATAG-CTAGGTCA
1 GCAACGGCTTATGCGCACTCCTACTCGCACATAGTC-AGGTCA
* * *
18124087 GCAATGGCTTATGCGCACTCCCACTCGCACATAGTCGGGTCA
1 GCAACGGCTTATGCGCACTCCTACTCGCACATAGTCAGGTCA
** *
18124129 GCAACAACTTATGCGCACTCCTACTTGCACATA
1 GCAACGGCTTATGCGCACTCCTACTCGCACATA
18124162 ACCGGGTCAA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
42 61 0.98
43 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (42 bp):
GCAACGGCTTATGCGCACTCCTACTCGCACATAGTCAGGTCA
Found at i:18124200 original size:2 final size:2
Alignment explanation
Indices: 18124193--18124232 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
18124183 AACATTATTC
18124193 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
18124233 GTAGTAATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18126525 original size:20 final size:20
Alignment explanation
Indices: 18126500--18126538 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18126490 TAATGAATGT
* *
18126500 TTGATGATGATTGATAATAC
1 TTGATGATAATTGAGAATAC
18126520 TTGATGATAATTGAGAATA
1 TTGATGATAATTGAGAATA
18126539 GTGCTTGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGATGATAATTGAGAATAC
Found at i:18129115 original size:31 final size:29
Alignment explanation
Indices: 18129080--18129148 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
18129070 TGCTAGTTAT
18129080 TATGGATATTCAATATATCTTGCTTAGCTAC
1 TATGGATATT--ATATATCTTGCTTAGCTAC
** * **
18129111 TATGGGCATTATATATCTTGTTTAGCTGT
1 TATGGATATTATATATCTTGCTTAGCTAC
18129140 TATGGATAT
1 TATGGATAT
18129149 GATAAATAGT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
29 23 0.74
31 8 0.26
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (29 bp):
TATGGATATTATATATCTTGCTTAGCTAC
Found at i:18133378 original size:42 final size:42
Alignment explanation
Indices: 18133319--18133471 Score: 173
Period size: 42 Copynumber: 3.6 Consensus size: 42
18133309 TGTTAATGTG
* *
18133319 GACCCGGCTATGTGCAAGTAGGAGTGTGCATACATCGATGAT
1 GACCCAGCTATGTGCAAGTAGGAGTGTGCATACACCGATGAT
*
18133361 GACCCAGCTATGTGCAAGTAGGAGTGTTCATACACCGATGAT
1 GACCCAGCTATGTGCAAGTAGGAGTGTGCATACACCGATGAT
* * * * * *
18133403 GACTCGGCTATGTGCGAGTAGAAGTGCGCATA-AGCCGATGCT
1 GACCCAGCTATGTGCAAGTAGGAGTGTGCATACA-CCGATGAT
* * *
18133445 GACCTAGCCATGTGCTAGTGAGGAGTG
1 GACCCAGCTATGTGCAAGT-AGGAGTG
18133472 CACATGAGCT
Statistics
Matches: 93, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
41 1 0.01
42 86 0.92
43 6 0.06
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.23
Consensus pattern (42 bp):
GACCCAGCTATGTGCAAGTAGGAGTGTGCATACACCGATGAT
Found at i:18136959 original size:43 final size:43
Alignment explanation
Indices: 18136901--18137110 Score: 214
Period size: 43 Copynumber: 4.9 Consensus size: 43
18136891 ATTCATCGTC
**
18136901 ATGTGCACGCCCTACTC-CAACATAGCCAGGTCATCATTGGCTT
1 ATGTGCACTTCCTACTCGC-ACATAGCCAGGTCATCATTGGCTT
* * *
18136944 ATGTTCACTTCCTACTCGCACATAGCC-GAGTCATCATCGACTT
1 ATGTGCACTTCCTACTCGCACATAGCCAG-GTCATCATTGGCTT
* * *
18136987 ATGCGCACTCCCTACTCGCACATAGTC-GAGTCATCATTGGCTT
1 ATGTGCACTTCCTACTCGCACATAGCCAG-GTCATCATTGGCTT
* ** *
18137030 ATGTGCA-TTCCCTACTCGCACATAGCCAAGTCATCATCAGCTC
1 ATGTGCACTT-CCTACTCGCACATAGCCAGGTCATCATTGGCTT
* *
18137073 ATGTGCAC-TCCCACATCGCACATAGCCAAGTCATCATT
1 ATGTGCACTTCCTAC-TCGCACATAGCCAGGTCATCATT
18137111 ATAACACAAA
Statistics
Matches: 141, Mismatches: 20, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
42 6 0.04
43 134 0.95
44 1 0.01
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGTGCACTTCCTACTCGCACATAGCCAGGTCATCATTGGCTT
Found at i:18137055 original size:86 final size:85
Alignment explanation
Indices: 18136899--18137110 Score: 261
Period size: 86 Copynumber: 2.5 Consensus size: 85
18136889 TCATTCATCG
* * * *
18136899 TCATGTGCACGCCCTACTC-CAACATAGCCAGGTCATCATTGGCTTATGTTCACTTCCTACTCGC
1 TCATGCGCACTCCCTACTCGC-ACATAG-CAAGTCATCATTGGCTTATGTGCACTTCCTACTCGC
*
18136963 ACATAGCCGAGTCATCATC-GAC
64 ACATAGCCAAGTCATCATCAG-C
* *
18136985 TTATGCGCACTCCCTACTCGCACATAGTCGAGTCATCATTGGCTTATGTGCA-TTCCCTACTCGC
1 TCATGCGCACTCCCTACTCGCACATAG-CAAGTCATCATTGGCTTATGTGCACTT-CCTACTCGC
18137049 ACATAGCCAAGTCATCATCAGC
64 ACATAGCCAAGTCATCATCAGC
*
18137071 TCATGTGCACTCCC-ACATCGCACATAGCCAAGTCATCATT
1 TCATGCGCACTCCCTAC-TCGCACATAG-CAAGTCATCATT
18137111 ATAACACAAA
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
85 4 0.04
86 104 0.95
87 2 0.02
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (85 bp):
TCATGCGCACTCCCTACTCGCACATAGCAAGTCATCATTGGCTTATGTGCACTTCCTACTCGCAC
ATAGCCAAGTCATCATCAGC
Found at i:18137943 original size:15 final size:15
Alignment explanation
Indices: 18137925--18137995 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 15
18137915 TTTTTTTTTA
18137925 TTTTTTTTTCTTCCT
1 TTTTTTTTTCTTCCT
*
18137940 TTTTTTTTTCTTTCT
1 TTTTTTTTTCTTCCT
*
18137955 TTCTTTCTTTC--CCGT
1 TT-TTTTTTTCTTCC-T
*
18137970 TTCTTTTTCTCTCTCTCT
1 TT-TTTTTTTCT-TC-CT
18137988 TTTTTTTT
1 TTTTTTTT
18137996 GCTCCTCTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
14 1 0.02
15 26 0.59
16 7 0.16
17 5 0.11
18 4 0.09
19 1 0.02
ACGTcount: A:0.00, C:0.23, G:0.01, T:0.76
Consensus pattern (15 bp):
TTTTTTTTTCTTCCT
Found at i:18137946 original size:23 final size:23
Alignment explanation
Indices: 18137915--18137964 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
18137905 ATAATTATTA
* *
18137915 TTTTTTTTTATTTTTTTTTCTTCC
1 TTTTTTTTT-TCTTTCTTTCTTCC
*
18137939 TTTTTTTTTTCTTTCTTTCTTTC
1 TTTTTTTTTTCTTTCTTTCTTCC
18137962 TTT
1 TTT
18137965 CCCGTTTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTTTTTTTCTTTCTTTCTTCC
Found at i:18137947 original size:19 final size:20
Alignment explanation
Indices: 18137919--18137960 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
18137909 TTATTATTTT
*
18137919 TTTTTATTTTTTTTTCTTCC
1 TTTTTATTTTTCTTTCTTCC
*
18137939 TTTTT-TTTTTCTTTCTTTC
1 TTTTTATTTTTCTTTCTTCC
18137958 TTT
1 TTT
18137961 CTTTCCCGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTTATTTTTCTTTCTTCC
Found at i:18138232 original size:35 final size:35
Alignment explanation
Indices: 18138149--18138258 Score: 150
Period size: 35 Copynumber: 3.2 Consensus size: 35
18138139 TTTCTTTCTC
* *
18138149 AAATTTACAGCAAAACTCTTTCTTTTTCC-TCTCA
1 AAATTTACAGCAAAACTCTTTCTATTTCCTTCTAA
* * * *
18138183 AAATTTGCAACAAAACTTTTTCTATTTCCTTTTAA
1 AAATTTACAGCAAAACTCTTTCTATTTCCTTCTAA
*
18138218 AAATTTATAGCAAAACTCTTTCTATTTCCTTCTAA
1 AAATTTACAGCAAAACTCTTTCTATTTCCTTCTAA
18138253 AAATTT
1 AAATTT
18138259 GCAACACAAG
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
34 25 0.39
35 39 0.61
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.44
Consensus pattern (35 bp):
AAATTTACAGCAAAACTCTTTCTATTTCCTTCTAA
Found at i:18138406 original size:19 final size:22
Alignment explanation
Indices: 18138381--18138443 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 22
18138371 TCTCACACCG
18138381 ACTTTTCTCTTTCTTCTT-CA-
1 ACTTTTCTCTTTCTTCTTACAC
*
18138401 AC-TTTCCCTTTGCTCTCTTACACC
1 ACTTTTCTCTTT-CT-TCTTACA-C
18138425 GACTTTTCTCTTTCTTCTT
1 -ACTTTTCTCTTTCTTCTT
18138444 TAAATAGTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
19 8 0.24
20 4 0.12
21 4 0.12
22 2 0.06
24 4 0.12
25 4 0.12
26 8 0.24
ACGTcount: A:0.10, C:0.33, G:0.03, T:0.54
Consensus pattern (22 bp):
ACTTTTCTCTTTCTTCTTACAC
Found at i:18149625 original size:2 final size:2
Alignment explanation
Indices: 18149618--18149643 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18149608 NNNNNNNNNN
18149618 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
18149644 GGGCCCTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18153532 original size:17 final size:16
Alignment explanation
Indices: 18153502--18153536 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
18153492 TCAATTTTTT
18153502 AATTTTTATATTATTA
1 AATTTTTATATTATTA
*
18153518 AATTTATTATTTTATTA
1 AATTT-TTATATTATTA
18153535 AA
1 AA
18153537 AAGAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AATTTTTATATTATTA
Found at i:18156881 original size:54 final size:54
Alignment explanation
Indices: 18156808--18156916 Score: 130
Period size: 54 Copynumber: 2.0 Consensus size: 54
18156798 TTCCAGTTCC
* * * *
18156808 GCCTTCGGCGCTCCTTCTTCAACG-CTCTCGTTTGGCACTCCCTCTTCCACTCCT
1 GCCTTCGGCACTCCCTCTTCAACGAC-CGCGTTTGGAACTCCCTCTTCCACTCCT
* * * *
18156862 GCCTTCGGCACTCCCTCTTCCACGACGGCGTTTGGAACTCCGTCTTCGACTCCT
1 GCCTTCGGCACTCCCTCTTCAACGACCGCGTTTGGAACTCCCTCTTCCACTCCT
18156916 G
1 G
18156917 GTTTTGGTAC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 45 0.98
55 1 0.02
ACGTcount: A:0.09, C:0.42, G:0.18, T:0.30
Consensus pattern (54 bp):
GCCTTCGGCACTCCCTCTTCAACGACCGCGTTTGGAACTCCCTCTTCCACTCCT
Found at i:18156901 original size:27 final size:27
Alignment explanation
Indices: 18156836--18156908 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
18156826 TCAACGCTCT
** *
18156836 CGTTTGGCACTCCCTCTTCCACTCCTG
1 CGTTTGGCACTCCCTCTTCCACGACGG
* *
18156863 CCTTCGGCACTCCCTCTTCCACGACGG
1 CGTTTGGCACTCCCTCTTCCACGACGG
* *
18156890 CGTTTGGAACTCCGTCTTC
1 CGTTTGGCACTCCCTCTTC
18156909 GACTCCTGGT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.10, C:0.42, G:0.18, T:0.30
Consensus pattern (27 bp):
CGTTTGGCACTCCCTCTTCCACGACGG
Found at i:18156929 original size:54 final size:54
Alignment explanation
Indices: 18156836--18156956 Score: 134
Period size: 54 Copynumber: 2.2 Consensus size: 54
18156826 TCAACGCTCT
* *
18156836 CGTTTGGCACTCCCTCTTCCACTCCTGCCTTCGGCACTCCCTCTTCCACGACGG
1 CGTTTGGAACTCCCTCTTCCACTCCTGCCTTCGGCACTCCCTCCTCCACGACGG
* * ** * * * * *
18156890 CGTTTGGAACTCCGTCTTCGACTCCTGGTTTTGGTACTCCGTCCTCGACGCCGG
1 CGTTTGGAACTCCCTCTTCCACTCCTGCCTTCGGCACTCCCTCCTCCACGACGG
*
18156944 CGTTTGGGACTCC
1 CGTTTGGAACTCC
18156957 TTCAACGCCA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.09, C:0.39, G:0.22, T:0.30
Consensus pattern (54 bp):
CGTTTGGAACTCCCTCTTCCACTCCTGCCTTCGGCACTCCCTCCTCCACGACGG
Found at i:18156949 original size:27 final size:27
Alignment explanation
Indices: 18156887--18156956 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
18156877 TCTTCCACGA
* *
18156887 CGGCGTTTGGAACTCCGTCTTCGACTC
1 CGGCGTTTGGAACTCCGTCCTCGACGC
* *
18156914 CTGG-TTTTGGTACTCCGTCCTCGACGC
1 C-GGCGTTTGGAACTCCGTCCTCGACGC
*
18156941 CGGCGTTTGGGACTCC
1 CGGCGTTTGGAACTCC
18156957 TTCAACGCCA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 2 0.06
27 31 0.89
28 2 0.06
ACGTcount: A:0.09, C:0.33, G:0.29, T:0.30
Consensus pattern (27 bp):
CGGCGTTTGGAACTCCGTCCTCGACGC
Found at i:18174945 original size:21 final size:23
Alignment explanation
Indices: 18174921--18174977 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 23
18174911 AATTTTATCT
18174921 AAAC-AATTAAAATTAA-AACTA
1 AAACTAATTAAAATTAATAACTA
*
18174942 AAACTAA-T-AAACTAATAACTA
1 AAACTAATTAAAATTAATAACTA
18174963 AAACTAATCTAAAAT
1 AAACTAAT-TAAAAT
18174978 ATATCAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 6 0.21
21 17 0.59
22 2 0.07
23 1 0.03
24 3 0.10
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.25
Consensus pattern (23 bp):
AAACTAATTAAAATTAATAACTA
Found at i:18178255 original size:36 final size:36
Alignment explanation
Indices: 18178214--18178299 Score: 91
Period size: 36 Copynumber: 2.4 Consensus size: 36
18178204 TGTTTTGGTT
* * * *
18178214 AAGGTTATGCCTTATCATATGAAAGGGCATGATGTG
1 AAGGTTATGCCTGATCATATGAAAAGGCATGATATA
* * * * *
18178250 AAGGTTACGCCTGATCCTGTTAAAAGGCATGTTATA
1 AAGGTTATGCCTGATCATATGAAAAGGCATGATATA
18178286 AAGGTTATGCCTGA
1 AAGGTTATGCCTGA
18178300 CCCTGTTGGG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (36 bp):
AAGGTTATGCCTGATCATATGAAAAGGCATGATATA
Found at i:18179014 original size:20 final size:20
Alignment explanation
Indices: 18178989--18179040 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
18178979 AATAAGGACA
*
18178989 AATGTATCGATATATTTGGC
1 AATGTATCGATACATTTGGC
*
18179009 AATGTATCGATACATTTGGT
1 AATGTATCGATACATTTGGC
18179029 AATGTATCGATA
1 AATGTATCGATA
18179041 ACCACTGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACATTTGGC
Found at i:18179583 original size:2 final size:2
Alignment explanation
Indices: 18179578--18179609 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18179568 AATGTGTATG
18179578 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18179610 CACATATAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18182634 original size:19 final size:19
Alignment explanation
Indices: 18182604--18182644 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
18182594 CTGGCATGTG
18182604 AAAAGAAAAAGAGAAG-GA
1 AAAAGAAAAAGAGAAGAGA
18182622 AAAAGACAAAAGAGAAGAGA
1 AAAAGA-AAAAGAGAAGAGA
18182642 AAA
1 AAA
18182645 TAAAGAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.29
19 10 0.48
20 5 0.24
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAGAGAAGAGA
Found at i:18182659 original size:13 final size:14
Alignment explanation
Indices: 18182634--18182665 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
18182624 AAGACAAAAG
18182634 AGAAGAGAAAATAA
1 AGAAGAGAAAATAA
18182648 AGAAGA-AAAATAA
1 AGAAGAGAAAATAA
18182661 AGAAG
1 AGAAG
18182666 TAAGTAAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (14 bp):
AGAAGAGAAAATAA
Found at i:18182826 original size:16 final size:17
Alignment explanation
Indices: 18182799--18182840 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
18182789 GGGGGCGTTC
18182799 AAGAGAAAGAAGAAAGA-
1 AAGAG-AAGAAGAAAGAG
18182816 AAGAGAAGAAGAAAGAG
1 AAGAGAAGAAGAAAGAG
18182833 AAGA-AAGA
1 AAGAGAAGA
18182841 GGCTGAGGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (17 bp):
AAGAGAAGAAGAAAGAG
Found at i:18182829 original size:12 final size:12
Alignment explanation
Indices: 18182806--18182837 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
18182796 TTCAAGAGAA
18182806 AGAAGAAAGAAAG
1 AGAAG-AAGAAAG
18182819 AGAAGAAGAAAG
1 AGAAGAAGAAAG
18182831 AGAAGAA
1 AGAAGAA
18182838 AGAGGCTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (12 bp):
AGAAGAAGAAAG
Found at i:18182942 original size:23 final size:22
Alignment explanation
Indices: 18182905--18182948 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
18182895 GCGGCGTCTC
18182905 AAAGGGAAAGAAAAAGAGAGAAG
1 AAAGGGAAAGAAAAAG-GAGAAG
18182928 AAAGGG-AAGAAAAAAGGAGAA
1 AAAGGGAAAG-AAAAAGGAGAA
18182949 AGAGGGAGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (22 bp):
AAAGGGAAAGAAAAAGGAGAAG
Found at i:18183002 original size:16 final size:16
Alignment explanation
Indices: 18182989--18183019 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18182979 AGAGAAAGGG
18182989 AAAAAAGAAGAAAGAA
1 AAAAAAGAAGAAAGAA
18183005 AAAAAAGAAGAAAGA
1 AAAAAAGAAGAAAGA
18183020 GAGAGGAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAGAAAGAA
Found at i:18183072 original size:13 final size:14
Alignment explanation
Indices: 18183046--18183104 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 14
18183036 GGTGCCGAAG
18183046 GAGAAAAAGGAAGAA
1 GAGAAAAA-GAAGAA
18183061 GAGAAAAAAAGAAGGAA
1 GAG--AAAAAGAA-GAA
*
18183078 GAAGAGAAAGAAGAA
1 G-AGAAAAAGAAGAA
*
18183093 GAGAAAGAGAAG
1 GAGAAAAAGAAG
18183105 CGCCTGCTGG
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 9 0.24
15 7 0.19
16 10 0.27
17 9 0.24
18 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (14 bp):
GAGAAAAAGAAGAA
Found at i:18183090 original size:12 final size:12
Alignment explanation
Indices: 18183055--18183104 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
18183045 GGAGAAAAAG
18183055 GAAGAAGAG-AA
1 GAAGAAGAGAAA
*
18183066 -AA-AA-AGAAG
1 GAAGAAGAGAAA
18183075 GAAGAAGAGAAA
1 GAAGAAGAGAAA
18183087 GAAGAAGAGAAA
1 GAAGAAGAGAAA
18183099 G-AGAAG
1 GAAGAAG
18183105 CGCCTGCTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
8 2 0.06
9 3 0.09
10 4 0.12
11 7 0.21
12 17 0.52
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (12 bp):
GAAGAAGAGAAA
Found at i:18183878 original size:60 final size:60
Alignment explanation
Indices: 18183771--18184129 Score: 423
Period size: 60 Copynumber: 6.0 Consensus size: 60
18183761 ATTTGATTTA
* * * *
18183771 AAAAGGGAGACTTGAAGCCCCGA-TTATATATGATGGCATGGGCAGTTCCCACAAGTAGGT
1 AAAAGGG-GACCTGAAGCCCCGATTTATATATGGTGGCGTGGGCAGTTCCCACGAGTAGGT
* * * * *
18183831 AAAAGGGGACCTGAAGCCCCGATTTGTATATGGTGGCGTCGGTAGTTCCCATGAGTAGAT
1 AAAAGGGGACCTGAAGCCCCGATTTATATATGGTGGCGTGGGCAGTTCCCACGAGTAGGT
* * * *
18183891 AAAAGGGGACTTGAAGTCCTGATTTATATATGGTGGCATGGGCAGTTCCCACGAGTAGGT
1 AAAAGGGGACCTGAAGCCCCGATTTATATATGGTGGCGTGGGCAGTTCCCACGAGTAGGT
* ** *
18183951 AAAAGGGGGACTTGAAGCTTCGATTTATATATAGTGGCGTGGGCAGTTCCCACGAGTAGGT
1 AAAA-GGGGACCTGAAGCCCCGATTTATATATGGTGGCGTGGGCAGTTCCCACGAGTAGGT
* * * ** *
18184012 AAAAGGGGGACCTGAAGCCCTGATTTATATATGGTGGTGTGAGCAGTTTTCATGAGTAGGT
1 AAAA-GGGGACCTGAAGCCCCGATTTATATATGGTGGCGTGGGCAGTTCCCACGAGTAGGT
* ** ** *
18184073 AAAGGGGGACCTGAAGCCTTGATTTATATATGGTAACGTGGGCAGTTCCCACAAGTA
1 AAAAGGGGACCTGAAGCCCCGATTTATATATGGTGGCGTGGGCAGTTCCCACGAGTA
18184130 AGTGATGATG
Statistics
Matches: 253, Mismatches: 44, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
59 14 0.06
60 135 0.53
61 104 0.41
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.26
Consensus pattern (60 bp):
AAAAGGGGACCTGAAGCCCCGATTTATATATGGTGGCGTGGGCAGTTCCCACGAGTAGGT
Found at i:18184009 original size:121 final size:121
Alignment explanation
Indices: 18183771--18184129 Score: 456
Period size: 121 Copynumber: 3.0 Consensus size: 121
18183761 ATTTGATTTA
* * *
18183771 AAAAGGGAGACTTGAAGCCCCGA-TTATATATGATGGCATGGGCAGTTCCCACAAGTAGGTAAAA
1 AAAAGGG-GACTTGAAGCCCTGATTTATATATGGTGGCATGGGCAGTTCCCACGAGTAGGTAAAA
** * * * *
18183835 -GGGGACCTGAAGCCCCGATTTGTATATGGTGGCGTCGGTAGTTCCCATGAGTAGAT
65 GGGGGACCTGAAGCTTCGATTTATATATGGTGGCGTGGGCAGTTCCCACGAGTAGAT
*
18183891 AAAAGGGGACTTGAAGTCCTGATTTATATATGGTGGCATGGGCAGTTCCCACGAGTAGGTAAAAG
1 AAAAGGGGACTTGAAGCCCTGATTTATATATGGTGGCATGGGCAGTTCCCACGAGTAGGTAAAAG
* * *
18183956 GGGGACTTGAAGCTTCGATTTATATATAGTGGCGTGGGCAGTTCCCACGAGTAGGT
66 GGGGACCTGAAGCTTCGATTTATATATGGTGGCGTGGGCAGTTCCCACGAGTAGAT
* ** * ** *
18184012 AAAAGGGGGACCTGAAGCCCTGATTTATATATGGTGGTGTGAGCAGTTTTCATGAGTAGGT-AAA
1 AAAA-GGGGACTTGAAGCCCTGATTTATATATGGTGGCATGGGCAGTTCCCACGAGTAGGTAAAA
** *
18184076 GGGGGACCTGAAGCCTT-GATTTATATATGGTAACGTGGGCAGTTCCCACAAGTA
65 GGGGGACCTGAAG-CTTCGATTTATATATGGTGGCGTGGGCAGTTCCCACGAGTA
18184130 AGTGATGATG
Statistics
Matches: 209, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
119 13 0.06
120 46 0.22
121 99 0.47
122 51 0.24
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.26
Consensus pattern (121 bp):
AAAAGGGGACTTGAAGCCCTGATTTATATATGGTGGCATGGGCAGTTCCCACGAGTAGGTAAAAG
GGGGACCTGAAGCTTCGATTTATATATGGTGGCGTGGGCAGTTCCCACGAGTAGAT
Found at i:18190415 original size:22 final size:23
Alignment explanation
Indices: 18190374--18190416 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
18190364 CGGCATCTCG
18190374 AAGGGAAAGAAAAAGAGAGAAGA
1 AAGGGAAAGAAAAAGAGAGAAGA
18190397 AAGGG-AAGAAGAAAG-GAGAA
1 AAGGGAAAGAA-AAAGAGAGAA
18190417 AGGGGGAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (23 bp):
AAGGGAAAGAAAAAGAGAGAAGA
Found at i:18191336 original size:61 final size:60
Alignment explanation
Indices: 18191237--18191401 Score: 231
Period size: 61 Copynumber: 2.7 Consensus size: 60
18191227 ATTTAAAACA
* * * * *
18191237 GGGGACTTGAAACCCTGATTTATATATGATGGCATGGGCAGTTCCCACAAGTAGGTAAAAG
1 GGGGACCTGAAGCCCCGATTTATATATGGTGGCGTGGGCAGTTCCCACAAGTAGGT-AAAG
* *
18191298 GGGGATCTGAAGCCCCGATTTATATATGGTGGCGTGGGCAGTTCCCACGAGTAGGTAAAG
1 GGGGACCTGAAGCCCCGATTTATATATGGTGGCGTGGGCAGTTCCCACAAGTAGGTAAAG
* * *
18191358 GGGGACCTGAAGCCCCGATTTATATATAGTGACGTGAGCAGTTC
1 GGGGACCTGAAGCCCCGATTTATATATGGTGGCGTGGGCAGTTC
18191402 TCATGAGTAG
Statistics
Matches: 93, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
60 44 0.47
61 49 0.53
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (60 bp):
GGGGACCTGAAGCCCCGATTTATATATGGTGGCGTGGGCAGTTCCCACAAGTAGGTAAAG
Found at i:18191399 original size:60 final size:60
Alignment explanation
Indices: 18191237--18191413 Score: 230
Period size: 60 Copynumber: 2.9 Consensus size: 60
18191227 ATTTAAAACA
* * * * *
18191237 GGGGACTTGAAACCCTGATTTATATATGATGGCATGGGCAGTTCCCACAAGTAGGTAAAAG
1 GGGGACCTGAAGCCCCGATTTATATATG-TGGCGTGGGCAGTTCCCACGAGTAGGTAAAAG
*
18191298 GGGGATCTGAAGCCCCGATTTATATATGGTGGCGTGGGCAGTTCCCACGAGTAGGT-AAAG
1 GGGGACCTGAAGCCCCGATTTATATAT-GTGGCGTGGGCAGTTCCCACGAGTAGGTAAAAG
* * * *
18191358 GGGGACCTGAAGCCCCGATTTATATATAGTGACGTGAGCAGTTCTCATGAGTAGGT
1 GGGGACCTGAAGCCCCGATTTATATAT-GTGGCGTGGGCAGTTCCCACGAGTAGGT
18191414 GATGATGTCT
Statistics
Matches: 103, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
60 54 0.52
61 48 0.47
62 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (60 bp):
GGGGACCTGAAGCCCCGATTTATATATGTGGCGTGGGCAGTTCCCACGAGTAGGTAAAAG
Found at i:18208581 original size:37 final size:37
Alignment explanation
Indices: 18208539--18208653 Score: 196
Period size: 37 Copynumber: 3.1 Consensus size: 37
18208529 GTTGTGTGAG
*
18208539 GATGTT-GAAGTGTGCAAGTAGGGAGTGCACACATGAT
1 GATGTTAG-AGTGTGCAAGTAGGAAGTGCACACATGAT
*
18208576 GATGTTAGAGTGTGCGAGTAGGAAGTGCACACATGAT
1 GATGTTAGAGTGTGCAAGTAGGAAGTGCACACATGAT
18208613 GATGTTAGAGTGTGCAAGTAGGAAGTGCACACATGAT
1 GATGTTAGAGTGTGCAAGTAGGAAGTGCACACATGAT
18208650 GATG
1 GATG
18208654 AATGCATATG
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
37 73 0.99
38 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.35, T:0.24
Consensus pattern (37 bp):
GATGTTAGAGTGTGCAAGTAGGAAGTGCACACATGAT
Found at i:18217520 original size:47 final size:47
Alignment explanation
Indices: 18217451--18217571 Score: 197
Period size: 47 Copynumber: 2.6 Consensus size: 47
18217441 TTTTCGGCCT
* * *
18217451 CAAGCCGCCCTTTTCGAGTTTTCAGCATGAGCCTCCTTCTTTAGGTA
1 CAAGCTGCCCTTTTCGGGTTTTCAGCATGAGCCTCCTCCTTTAGGTA
18217498 CAAGCTGCCCTTTTCGGGTTTTCAGCATGAGCCTCCTCCTTTAGGTA
1 CAAGCTGCCCTTTTCGGGTTTTCAGCATGAGCCTCCTCCTTTAGGTA
* *
18217545 CGAGCTGCCCTTTCCGGGTTTTCAGCA
1 CAAGCTGCCCTTTTCGGGTTTTCAGCA
18217572 CAAACCCTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.15, C:0.31, G:0.21, T:0.33
Consensus pattern (47 bp):
CAAGCTGCCCTTTTCGGGTTTTCAGCATGAGCCTCCTCCTTTAGGTA
Found at i:18228053 original size:12 final size:12
Alignment explanation
Indices: 18228036--18228065 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18228026 NNNNNNCTTT
18228036 TTTTTTTAATTA
1 TTTTTTTAATTA
*
18228048 TTTTTTTATTTA
1 TTTTTTTAATTA
18228060 TTTTTT
1 TTTTTT
18228066 ATATTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTTAATTA
Found at i:18228072 original size:18 final size:21
Alignment explanation
Indices: 18228051--18228092 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
18228041 TTAATTATTT
18228051 TTTTA-TTTATTTT-TTAT-A
1 TTTTATTTTATTTTATTATCA
18228069 TTTTATTTTATTTTATTATCA
1 TTTTATTTTATTTTATTATCA
18228090 TTT
1 TTT
18228093 AAATTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 4 0.19
21 4 0.19
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTATTTTATTTTATTATCA
Found at i:18228072 original size:19 final size:19
Alignment explanation
Indices: 18228045--18228113 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
18228035 TTTTTTTTAA
*
18228045 TTATTTTTTTATTTATTTT
1 TTATATTTTTATTTATTTT
18228064 TTATA-TTTTATTTTATTTT
1 TTATATTTTTA-TTTATTTT
**
18228083 ATTATCATTTAAATTT-TTTAT
1 -TTAT-ATTTTTATTTATTT-T
18228104 TTAT-TTTTTA
1 TTATATTTTTA
18228114 GGTGTCTACA
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
18 9 0.22
19 12 0.30
20 11 0.28
21 5 0.12
22 3 0.08
ACGTcount: A:0.23, C:0.01, G:0.00, T:0.75
Consensus pattern (19 bp):
TTATATTTTTATTTATTTT
Found at i:18228077 original size:23 final size:23
Alignment explanation
Indices: 18228037--18228113 Score: 72
Period size: 23 Copynumber: 3.3 Consensus size: 23
18228027 NNNNNCTTTT
*
18228037 TTTTTTAATTATTTTTTTATTTA
1 TTTTTTAATTATTATTTTATTTA
18228060 TTTTTTATATT-TTATTTTATTTTA
1 TTTTTTA-ATTATTATTTTA-TTTA
18228084 TTATCATTTAA--ATT-TTTTATTTA
1 TT-T--TTTAATTATTATTTTATTTA
18228107 TTTTTTA
1 TTTTTTA
18228114 GGTGTCTACA
Statistics
Matches: 47, Mismatches: 1, Indels: 15
0.75 0.02 0.24
Matches are distributed among these distances:
20 4 0.09
22 1 0.02
23 20 0.43
24 14 0.30
25 3 0.06
26 1 0.02
27 4 0.09
ACGTcount: A:0.23, C:0.01, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTTAATTATTATTTTATTTA
Found at i:18235047 original size:43 final size:43
Alignment explanation
Indices: 18234960--18235049 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 43
18234950 GTAATTATAT
* * * **
18234960 TGACTCGGCTATGTGCGAGTAGGGAGTGGGCATAGGCCGATGA
1 TGACCCGGCTATGTGAGAGTAGGGAGTGCGCATAACCCGATGA
* *
18235003 TGACCCGGTTATGTGAGAGTAGGGAGTGCGCATAACCCGTTGA
1 TGACCCGGCTATGTGAGAGTAGGGAGTGCGCATAACCCGATGA
18235046 TGAC
1 TGAC
18235050 GTAGCCATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.22, C:0.18, G:0.38, T:0.22
Consensus pattern (43 bp):
TGACCCGGCTATGTGAGAGTAGGGAGTGCGCATAACCCGATGA
Found at i:18238436 original size:97 final size:96
Alignment explanation
Indices: 18238215--18238426 Score: 288
Period size: 97 Copynumber: 2.2 Consensus size: 96
18238205 GCATAAAAGT
**
18238215 ATAGTCTAGTGCATATAGCAACTGACTTTCAATAACATGGGGTAGGGTATTATTCCAGTACCTAG
1 ATAGTCTAGTGCATATAGCAACTGACTTTCAATAACATAAGGTAGGGTATTATTCCAGTACCTAG
* *
18238280 AACATTTAGAATTGTCTTGTAGCACCAATAT
66 AACATTTAGAATTGTCTTATAGCACCAATAC
* *
18238311 ATAGTCTGGTGCATATAG-ATACTGACTTTCAATAACATAAGGTAGGGTATTATTTCCATTACCT
1 ATAGTCTAGTGCATATAGCA-ACTGACTTTCAATAACATAAGGTAGGGTATTA-TTCCAGTACCT
18238375 AGAACATTTA-AAGTTACG-C-TATAGCACCAATAC
64 AGAACATTTAGAA-TT--GTCTTATAGCACCAATAC
*
18238408 ATAGTCTAATGCATATAGC
1 ATAGTCTAGTGCATATAGC
18238427 CACCAACTTT
Statistics
Matches: 102, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
95 1 0.01
96 49 0.48
97 50 0.49
98 1 0.01
99 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (96 bp):
ATAGTCTAGTGCATATAGCAACTGACTTTCAATAACATAAGGTAGGGTATTATTCCAGTACCTAG
AACATTTAGAATTGTCTTATAGCACCAATAC
Found at i:18241844 original size:21 final size:20
Alignment explanation
Indices: 18241820--18241859 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
18241810 TCCCACAAGT
*
18241820 GTGATTTGAAGCTAGGAAAAG
1 GTGATTTAAAGCTA-GAAAAG
18241841 GTGATTTAAAGCTAGAAAA
1 GTGATTTAAAGCTAGAAAA
18241860 TCAATCTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.42, C:0.05, G:0.28, T:0.25
Consensus pattern (20 bp):
GTGATTTAAAGCTAGAAAAG
Found at i:18243554 original size:2 final size:2
Alignment explanation
Indices: 18243547--18243579 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
18243537 CATAATATTC
18243547 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18243580 CTAGGCTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:18244808 original size:30 final size:30
Alignment explanation
Indices: 18244763--18244840 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 30
18244753 GAAAGGAAAG
* *
18244763 GAAATGAGAGAAGGAAGGCCGATGGGAGGA
1 GAAAAGAGAGAAGGAAGGCCGACGGGAGGA
* *
18244793 GAAAAGAGAGTAGGAAGGTCGACGGGAGGA
1 GAAAAGAGAGAAGGAAGGCCGACGGGAGGA
* * *
18244823 AAAAAGAAAGAAGAAAGG
1 GAAAAGAGAGAAGGAAGG
18244841 AAAGGAAATG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.47, C:0.05, G:0.42, T:0.05
Consensus pattern (30 bp):
GAAAAGAGAGAAGGAAGGCCGACGGGAGGA
Found at i:18248799 original size:12 final size:13
Alignment explanation
Indices: 18248774--18248802 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
18248764 AGCTATTCAA
18248774 ATTAAATAAAAAT
1 ATTAAATAAAAAT
18248787 ATTAAAT-AAAAT
1 ATTAAATAAAAAT
18248799 ATTA
1 ATTA
18248803 TATTTTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATTAAATAAAAAT
Found at i:18249199 original size:20 final size:20
Alignment explanation
Indices: 18249176--18249216 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
18249166 ATCAAATCTC
*
18249176 ATTTCATTTCATATAAATCA
1 ATTTCATTTCATAAAAATCA
18249196 ATTTCATTTCATAAAAATCA
1 ATTTCATTTCATAAAAATCA
18249216 A
1 A
18249217 CAAGGCTTAT
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:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTTCATTTCATAAAAATCA
Found at i:18252714 original size:18 final size:18
Alignment explanation
Indices: 18252693--18252729 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
18252683 AAAGTACCAT
18252693 AAATAGTCAAATATCAGC
1 AAATAGTCAAATATCAGC
* *
18252711 AAATATTCAATTATCAGC
1 AAATAGTCAAATATCAGC
18252729 A
1 A
18252730 GCAAAATACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.27
Consensus pattern (18 bp):
AAATAGTCAAATATCAGC
Found at i:18255719 original size:43 final size:43
Alignment explanation
Indices: 18255545--18255706 Score: 218
Period size: 43 Copynumber: 3.8 Consensus size: 43
18255535 GTAAATATGT
* * *
18255545 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
** *
18255588 TGACTTGGTTATGTGTGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
*
18255631 TGACCCGGTTATGTGCGAGTAGGGAGTGCACATAACCCGGTGA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* **
18255674 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCAT
18255707 GAGCTGGTGA
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 1 0.01
43 105 0.99
ACGTcount: A:0.22, C:0.19, G:0.37, T:0.22
Consensus pattern (43 bp):
TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:18255733 original size:20 final size:20
Alignment explanation
Indices: 18255708--18255765 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
18255698 AGTGCGCATG
18255708 AGCTGGTGATGATGATGATA
1 AGCTGGTGATGATGATGATA
*
18255728 AGCTGGTGATGATGATGATG
1 AGCTGGTGATGATGATGATA
* *
18255748 GGTTGGTGA-GATGATGAT
1 AGCTGGTGATGATGATGAT
18255766 GATGGGTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
19 9 0.26
20 26 0.74
ACGTcount: A:0.26, C:0.03, G:0.40, T:0.31
Consensus pattern (20 bp):
AGCTGGTGATGATGATGATA
Found at i:18265651 original size:43 final size:43
Alignment explanation
Indices: 18265588--18265695 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 43
18265578 CATTGACTCG
* **
18265588 GCTATGTACGAGTAGGGAGTGCACATAAGTCGATGATGACCCGA
1 GCTATGTGCGAGTAGGGAGTGCACATAACCCGATGATGA-CCGA
* * * *
18265632 -TTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCTA
1 GCTATGTGCGAGTAGGGAGTGCACATAACCCGATGATGACCGA
*
18265674 GCCATGTGCGAGTAGGGAGTGC
1 GCTATGTGCGAGTAGGGAGTGC
18265696 GCATGAGTTG
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
42 3 0.06
43 51 0.94
ACGTcount: A:0.25, C:0.19, G:0.35, T:0.21
Consensus pattern (43 bp):
GCTATGTGCGAGTAGGGAGTGCACATAACCCGATGATGACCGA
Found at i:18265826 original size:2 final size:2
Alignment explanation
Indices: 18265819--18265881 Score: 108
Period size: 2 Copynumber: 31.0 Consensus size: 2
18265809 NNNNNNNNNN
18265819 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
*
18265861 AT AT AT AC AT AT AT GAT AT AT
1 AT AT AT AT AT AT AT -AT AT AT
18265882 GGTTGAAATG
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 56 0.97
3 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18269654 original size:19 final size:19
Alignment explanation
Indices: 18269622--18269658 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
18269612 ATATCAAGTT
18269622 TTTTCATTTTCTTTCCTTG
1 TTTTCATTTTCTTTCCTTG
18269641 TTTTC-TTTTCCTTTCCTT
1 TTTTCATTTT-CTTTCCTT
18269659 TCTCTTCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.70
Consensus pattern (19 bp):
TTTTCATTTTCTTTCCTTG
Found at i:18270704 original size:35 final size:35
Alignment explanation
Indices: 18270679--18270777 Score: 153
Period size: 35 Copynumber: 2.8 Consensus size: 35
18270669 CGTGTGATGG
18270679 TATTGAAATGTGCGTGTAGGGAGTGCACATAATGA
1 TATTGAAATGTGCGTGTAGGGAGTGCACATAATGA
*
18270714 TATTGAAATGTGCGTGTAGGGAGTGCACATGATGA
1 TATTGAAATGTGCGTGTAGGGAGTGCACATAATGA
*** *
18270749 TATTGCCTTGTGCGTGTAGGGAATGCACA
1 TATTGAAATGTGCGTGTAGGGAGTGCACA
18270778 AGCACTAATG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 59 1.00
ACGTcount: A:0.27, C:0.11, G:0.32, T:0.29
Consensus pattern (35 bp):
TATTGAAATGTGCGTGTAGGGAGTGCACATAATGA
Found at i:18270846 original size:21 final size:21
Alignment explanation
Indices: 18270830--18270871 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
18270820 CACTATTGAG
18270830 ATGTTTATATATGCTATAGAA
1 ATGTTTATATATGCTATAGAA
18270851 ATGTTTATATATGCTAT-GAA
1 ATGTTTATATATGCTATAGAA
18270871 A
1 A
18270872 AAGTTAAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (21 bp):
ATGTTTATATATGCTATAGAA
Found at i:18287175 original size:81 final size:81
Alignment explanation
Indices: 18287037--18287194 Score: 228
Period size: 81 Copynumber: 2.0 Consensus size: 81
18287027 ATCAAGCATG
* * * * *
18287037 TAATCTGCTCGATGTAAAGCCAAGCGTATTTCCTGTTCCAAAAACGGCATATGATTAGATTCTTT
1 TAATCTGATCGAGGTAAAGCCAAGCGTATGTCCTATTCCAAAAACGGCATATCATTAGATTCTTT
18287102 CATGCAATGAAAACGC
66 CATGCAATGAAAACGC
* *
18287118 TAATCTGATCGAGGTAAA-CTCGAGCGTATGTCCTATTCCAAAAACTGCATATCATTAGATTCTT
1 TAATCTGATCGAGGTAAAGC-CAAGCGTATGTCCTATTCCAAAAACGGCATATCATTAGATTCTT
*
18287182 TCATGTAATGAAA
65 TCATGCAATGAAA
18287195 CAAGCGTTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 1 0.01
81 67 0.99
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (81 bp):
TAATCTGATCGAGGTAAAGCCAAGCGTATGTCCTATTCCAAAAACGGCATATCATTAGATTCTTT
CATGCAATGAAAACGC
Found at i:18301388 original size:13 final size:13
Alignment explanation
Indices: 18301372--18301407 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
18301362 TTTTTTTTCA
18301372 TTTCTCTTTTTTT
1 TTTCTCTTTTTTT
*
18301385 TTTCTTTTTTTTT
1 TTTCTCTTTTTTT
18301398 TCTTCTCTTT
1 T-TTCTCTTT
18301408 CTTTCTTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTCTCTTTTTTT
Found at i:18301390 original size:11 final size:11
Alignment explanation
Indices: 18301376--18301401 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18301366 TTTTCATTTC
18301376 TCTTTTTTTTT
1 TCTTTTTTTTT
18301387 TCTTTTTTTTT
1 TCTTTTTTTTT
18301398 TCTT
1 TCTT
18301402 CTCTTTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:18301412 original size:13 final size:13
Alignment explanation
Indices: 18301363--18301414 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
18301353 ACTATTTATT
18301363 TTTTTTTCATTTCTC
1 TTTTTTTC--TTCTC
* *
18301378 TTTTTTTTTTCTTT
1 TTTTTTTCTTC-TC
18301392 TTTTTTTCTTCTC
1 TTTTTTTCTTCTC
*
18301405 TTTCTTTCTT
1 TTTTTTTCTT
18301415 GGTCGGCAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
13 13 0.42
14 11 0.35
15 7 0.23
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTTCTTCTC
Found at i:18301447 original size:10 final size:10
Alignment explanation
Indices: 18301428--18301462 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
18301418 CGGCAACACC
*
18301428 TTCTTCTTTT
1 TTCTTTTTTT
18301438 TTCTTTTTTT
1 TTCTTTTTTT
*
18301448 TTCTTTTTTC
1 TTCTTTTTTT
18301458 TTCTT
1 TTCTT
18301463 CCTCTTTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:18301649 original size:19 final size:18
Alignment explanation
Indices: 18301627--18301697 Score: 54
Period size: 18 Copynumber: 3.8 Consensus size: 18
18301617 TCATTCTCTC
18301627 TTTTTCTTTACTTTCTTC-
1 TTTTTCTTT-CTTTCTTCT
**
18301645 TTTTTCTTTCCCTCATTCT
1 TTTTTCTTTCTTTC-TTCT
* * *
18301664 CTATTCTTTCCTTTCTCCT
1 TTTTTCTTT-CTTTCTTCT
*
18301683 TTTTTCTTTTTTTCT
1 TTTTTCTTTCTTTCT
18301698 CTTCTCGACT
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
17 3 0.08
18 17 0.43
19 17 0.43
20 3 0.08
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTCTTTCTTTCTTCT
Found at i:18301800 original size:18 final size:18
Alignment explanation
Indices: 18301779--18301821 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
18301769 CAGCTCTTCT
*
18301779 CTTCTTTTTTTTTTATTC
1 CTTCTTTCTTTTTTATTC
* *
18301797 CTTCCTTCTTTTTTATTT
1 CTTCTTTCTTTTTTATTC
18301815 CTTCTTT
1 CTTCTTT
18301822 GACCAGCCCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (18 bp):
CTTCTTTCTTTTTTATTC
Found at i:18302723 original size:16 final size:16
Alignment explanation
Indices: 18302687--18302725 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
18302677 AAGGTGGTGC
* *
18302687 ATGAAAGGAAATGCAT
1 ATGAAATGAAATGCAA
*
18302703 GTGAAATGAAATGCAA
1 ATGAAATGAAATGCAA
18302719 ATGAAAT
1 ATGAAAT
18302726 AAACCAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (16 bp):
ATGAAATGAAATGCAA
Found at i:18311708 original size:22 final size:23
Alignment explanation
Indices: 18311641--18311705 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
18311631 ACATGTGGGA
* *
18311641 GCCACGTGGCATGTTAAAAAGAT
1 GCCACGTGGTATGTTAAAAAGAC
*
18311664 GCCATGTGGTATGTTAAAAAGAC
1 GCCACGTGGTATGTTAAAAAGAC
18311687 GCCACGTGGTATGTTAAAA
1 GCCACGTGGTATGTTAAAA
18311706 GACTACGACA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (23 bp):
GCCACGTGGTATGTTAAAAAGAC
Found at i:18312092 original size:19 final size:19
Alignment explanation
Indices: 18312068--18312104 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
18312058 GTTTAATGAG
*
18312068 GTTGACTTGGGCTGTGAAT
1 GTTGACTTGGGCTATGAAT
18312087 GTTGACTTGGGCTATGAA
1 GTTGACTTGGGCTATGAA
18312105 GGATCTATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.35, T:0.35
Consensus pattern (19 bp):
GTTGACTTGGGCTATGAAT
Found at i:18312133 original size:29 final size:29
Alignment explanation
Indices: 18312087--18312143 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
18312077 GGCTGTGAAT
* *
18312087 GTTGACTTGGGCTATGAAGGATCTATGGA
1 GTTGACTTGGGCTATGAAGAATCCATGGA
*
18312116 GTTGACTTGGGCTGTGAAGAATCCATGG
1 GTTGACTTGGGCTATGAAGAATCCATGG
18312144 GCTAATAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.23, C:0.12, G:0.35, T:0.30
Consensus pattern (29 bp):
GTTGACTTGGGCTATGAAGAATCCATGGA
Done.