Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 131 of 160
Found at i:24617561 original size:5 final size:5
Alignment explanation
Indices: 24617543--24617643 Score: 72
Period size: 5 Copynumber: 20.6 Consensus size: 5
24617533 TAAAACTAAT
24617543 AAAT- AAAT- AAATA AAAT- -AATA AAATA AAATCTA AAATA AAATGA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAA--TA AAATA AAAT-A
** * *
24617587 AAATA AAATA GGA-A AAATA AAATCA AAATA AAATC AAA-A CAA-A AAATA
1 AAATA AAATA AAATA AAATA AAAT-A AAATA AAATA AAATA AAATA AAATA
24617635 AAATGA AAA
1 AAAT-A AAA
24617644 AGGAAAAGAA
Statistics
Matches: 79, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
3 3 0.04
4 15 0.19
5 42 0.53
6 14 0.18
7 5 0.06
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:24617591 original size:36 final size:35
Alignment explanation
Indices: 24617551--24617643 Score: 118
Period size: 36 Copynumber: 2.6 Consensus size: 35
24617541 ATAAATAAAT
*
24617551 AAATAAAATAATAAAATAAAATCTAAAATAAAATGA
1 AAATAAAATAATAAAATAAAATC-AAAATAAAATCA
24617587 AAATAAAATAGGA-AAAATAAAATCAAAATAAAATCA
1 AAATAAAATA--ATAAAATAAAATCAAAATAAAATCA
*
24617623 AAACAAAA-AATAAAATGAAAA
1 AAATAAAATAATAAAAT-AAAA
24617644 AGGAAAAGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
33 1 0.02
34 5 0.10
35 5 0.10
36 28 0.55
37 11 0.22
38 1 0.02
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (35 bp):
AAATAAAATAATAAAATAAAATCAAAATAAAATCA
Found at i:24617643 original size:11 final size:11
Alignment explanation
Indices: 24617563--24617630 Score: 73
Period size: 11 Copynumber: 5.8 Consensus size: 11
24617553 ATAAAATAAT
24617563 AAAATAAAATC
1 AAAATAAAATC
*
24617574 TAAAATAAAATG
1 -AAAATAAAATC
*
24617586 AAAATAAAATAGGA
1 AAAATAAAAT---C
24617600 AAAATAAAATC
1 AAAATAAAATC
24617611 AAAATAAAATC
1 AAAATAAAATC
*
24617622 AAAACAAAA
1 AAAATAAAA
24617631 AATAAAATGA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
11 29 0.59
12 10 0.20
14 10 0.20
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.16
Consensus pattern (11 bp):
AAAATAAAATC
Found at i:24619084 original size:66 final size:66
Alignment explanation
Indices: 24618980--24619273 Score: 230
Period size: 66 Copynumber: 4.5 Consensus size: 66
24618970 ATTGAACTAC
* * *** *
24618980 AAGTCTAAAAAATAAAATGACTTAGATC-AAGTTGAGGTCGAAA-ATGAGTAACCGAGATTGAAT
1 AAGTCTAAAAAATAAAATGACCTGGATCGAAGCCAAGGTC-AAAGATGAGTGACCGAGATTGAA-
24619043 CGT
64 CGT
* * * *
24619046 AAGTCTAAAAAATAAAATGATCTGGATCGAA-CCAAGGTC-AGGAATGAGTGACAGGGATTGAAC
1 AAGTCTAAAAAATAAAATGACCTGGATCGAAGCCAAGGTCAAAG-ATGAGTGACCGAGATTGAAC
24619109 TGT
65 -GT
* * * *
24619112 AGGT-TCAAAAAATAAAATGACCTCGA-CCAAGCCAAGGTCAAAGAT-AGGTGACCAAGATTGAA
1 AAGTCT-AAAAAATAAAATGACCTGGATCGAAGCCAAGGTCAAAGATGA-GTGACCGAGATTGAA
24619174 C-T
64 CGT
* * * * * *
24619176 GCAGATCTGAAAAATAAAATAACTTGGATCGAA-CCAAGGTCAAAGATG-GTTGATCGGGATTGA
1 -AAG-TCTAAAAAATAAAATGACCTGGATCGAAGCCAAGGTCAAAGATGAG-TGACCGAGATTGA
*
24619239 ATCGC
63 A-CGT
*
24619244 AAGTCAAAAAAATAAAATGACCTGGATCGA
1 AAGTCTAAAAAATAAAATGACCTGGATCGA
24619274 GCTAAAGTCG
Statistics
Matches: 178, Mismatches: 34, Indels: 32
0.73 0.14 0.13
Matches are distributed among these distances:
64 2 0.01
65 8 0.04
66 157 0.88
67 11 0.06
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (66 bp):
AAGTCTAAAAAATAAAATGACCTGGATCGAAGCCAAGGTCAAAGATGAGTGACCGAGATTGAACG
T
Found at i:24621678 original size:9 final size:8
Alignment explanation
Indices: 24621656--24621695 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
24621646 TAGGATTAAT
24621656 TAAAAAAA
1 TAAAAAAA
*
24621664 T-AAAAAG
1 TAAAAAAA
24621671 TAATAAAAA
1 TAA-AAAAA
24621680 TAAAAAAA
1 TAAAAAAA
24621688 TAAAAAAA
1 TAAAAAAA
24621696 GGTGGTTGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 6 0.21
8 15 0.54
9 7 0.25
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (8 bp):
TAAAAAAA
Found at i:24622800 original size:60 final size:59
Alignment explanation
Indices: 24622569--24622792 Score: 344
Period size: 60 Copynumber: 3.8 Consensus size: 59
24622559 AAAATATTTT
* * *
24622569 AAGTTGAAAGTATCAATTTTCTTTGAAAAATAAAAATTTCTAAAAAGTATTTTTGAGAAA
1 AAGTTGAAAGTATCAATTTTCCTT-AAAAATAAAAATTTCTAAAAAATATTTTTGAGGAA
* *
24622629 AAGTTGAAAGTATCAATTTTTCCTTGAAAATAAAAATTTCTAAAAGATATTTTTTGAGGAA
1 AAGTTGAAAGTATCAA-TTTTCCTTAAAAATAAAAATTTCTAAAAAATA-TTTTTGAGGAA
*
24622690 AAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTCTAAAAAATATTTTTGAGGAA
1 AAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAATTTCTAAAAAATATTTTTGAGGAA
24622749 AAGTTGAAAGTATCAAGTTTT-CTTAAAAAT-AAAATTTCTAAAAA
1 AAGTTGAAAGTATCAA-TTTTCCTTAAAAATAAAAATTTCTAAAAA
24622793 CAATATTTCC
Statistics
Matches: 154, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
58 14 0.09
59 35 0.23
60 72 0.47
61 33 0.21
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (59 bp):
AAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAATTTCTAAAAAATATTTTTGAGGAA
Found at i:24622847 original size:24 final size:24
Alignment explanation
Indices: 24622820--24622866 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
24622810 AAAAACGAAT
24622820 ATATGTTTTTGAGGAAAAGTTGAA
1 ATATGTTTTTGAGGAAAAGTTGAA
24622844 ATATGTTTTTGAGGAAAAGTTGA
1 ATATGTTTTTGAGGAAAAGTTGA
24622867 CAGTATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (24 bp):
ATATGTTTTTGAGGAAAAGTTGAA
Found at i:24633282 original size:8 final size:8
Alignment explanation
Indices: 24633269--24633305 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
24633259 CTATGCTTGA
24633269 AAAAAAAT
1 AAAAAAAT
24633277 -AAAAAA-
1 AAAAAAAT
*
24633283 AATAAAAT
1 AAAAAAAT
24633291 AAAAAAAT
1 AAAAAAAT
24633299 AAAAAAA
1 AAAAAAA
24633306 AGATTCAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
7 11 0.44
8 14 0.56
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:24634362 original size:42 final size:42
Alignment explanation
Indices: 24634303--24634386 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
24634293 GTCAAGAAGT
* * *
24634303 AATTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC
1 AATTTATTTTCTCAAAGTTGTGGTACCTCTATTTAGAGGAGC
24634345 AATTTATATTTCT-AAAGTTGTGGTACCTCTATTTAGAGGAGC
1 AATTTAT-TTTCTCAAAGTTGTGGTACCTCTATTTAGAGGAGC
24634387 TTTGTTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 34 0.89
43 4 0.11
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (42 bp):
AATTTATTTTCTCAAAGTTGTGGTACCTCTATTTAGAGGAGC
Found at i:24634424 original size:44 final size:44
Alignment explanation
Indices: 24634305--24634623 Score: 353
Period size: 44 Copynumber: 7.3 Consensus size: 44
24634295 CAAGAAGTAA
* * * **
24634305 TTTATTTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGGAGC--AA
1 TTTA-TTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
* * * * *
24634347 TTTATATTTCTAAAGTTGTGGTA-CCTCTATTTAGAGGAGCTTTG
1 TTTATTTTTCAAAAGTCGTTG-AGCCTCTGTTTAGAGGAGCTTTG
* *
24634391 TTTATTTTTCAAAAGTCATTGAGCCTTTGTTTAGAGGAGCTTTG
1 TTTATTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
* *
24634435 TTTATTTTTTAAAAGTCGTTGAGCCTCTGTTTAGAGAAGCTTTG
1 TTTATTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
* * * **
24634479 TTTATTTTCCAAAAGTCATTGAGCTTCTGTTTAGAATAGC-TTG
1 TTTATTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
* * * *
24634522 TTTATTTTTCAAAAGTTGTTAAGCCTCTGTTTAAATGAGCTTTG
1 TTTATTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
*
24634566 TTTATTTTTC-AAAGTCGTTGAGCCTCTGTTTAGAGGAGTTTTG
1 TTTATTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
24634609 TTTACTTTTTCAAAA
1 TTTA-TTTTTCAAAA
24634624 AAAAAAGAAA
Statistics
Matches: 234, Mismatches: 35, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
41 5 0.02
42 30 0.13
43 68 0.29
44 128 0.55
45 3 0.01
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (44 bp):
TTTATTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
Found at i:24634481 original size:88 final size:87
Alignment explanation
Indices: 24634370--24634623 Score: 343
Period size: 87 Copynumber: 2.9 Consensus size: 87
24634360 AGTTGTGGTA
*
24634370 CCTCTATTTAGAGGAGCTTTGTTTATTTTTCAAAAGTCATTGAGCCTTTGTTTAGAGGAGCTTTG
1 CCTCTGTTTAGA-GAGCTTTGTTTATTTTTCAAAAGTCATTGAGCCTTTGTTTAGAGGAGCTTTG
* *
24634435 TTTATTTTTTAAAAGTCGTTGAG
65 TTTATTTTTCAAAAGTCGTTAAG
* **
24634458 CCTCTGTTTAGAGAAGCTTTGTTTATTTTCCAAAAGTCATTGAG-CTTCTGTTTAGAATAGC-TT
1 CCTCTGTTTAGAG-AGCTTTGTTTATTTTTCAAAAGTCATTGAGCCTT-TGTTTAGAGGAGCTTT
*
24634521 GTTTATTTTTCAAAAGTTGTTAAG
64 GTTTATTTTTCAAAAGTCGTTAAG
* * * *
24634545 CCTCTGTTTAAATGAGCTTTGTTTATTTTTC-AAAGTCGTTGAGCCTCTGTTTAGAGGAGTTTTG
1 CCTCTGTTTAGA-GAGCTTTGTTTATTTTTCAAAAGTCATTGAGCCTTTGTTTAGAGGAGCTTTG
24634609 TTTACTTTTTCAAAA
65 TTTA-TTTTTCAAAA
24634624 AAAAAAGAAA
Statistics
Matches: 146, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
86 21 0.14
87 63 0.43
88 62 0.42
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (87 bp):
CCTCTGTTTAGAGAGCTTTGTTTATTTTTCAAAAGTCATTGAGCCTTTGTTTAGAGGAGCTTTGT
TTATTTTTCAAAAGTCGTTAAG
Found at i:24635821 original size:60 final size:59
Alignment explanation
Indices: 24635625--24636041 Score: 597
Period size: 60 Copynumber: 7.0 Consensus size: 59
24635615 TGATCTCTTC
* * *
24635625 AAAAT-AAAATTTCTAAAAAATATTTTTGAAGAAAAATTGAAAGTATCAATATTCCTTG
1 AAAATAAAAATTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
*
24635683 AAAATAAAAATTTCTAAAAAATATTTTTGA-GAAAACGTTGAAAGTATCAATTTTTCTTG
1 AAAATAAAAATTTCTAAAAAATATTTTTGAGGAAAA-GTTGAAAGTATCAATTTTCCTTG
* * *
24635742 AAAA-AAAAATTTTCTAAAAAATATTTTCGAGGAAAAGTTGGAAGTATCAATTTTTCTTG
1 AAAATAAAAA-TTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * *
24635801 AAAATAAAAATTTCTAAAAAAATATTTTCGAGGAAAAGTTAAAAGTATCAATTTTCCTTA
1 AAAATAAAAATTTCT-AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * *
24635861 AAAATAAAAATTTTTTAAAAAATATTTTTGAAGAAAAGTTGAAAGTATTAATTTTCCTTG
1 AAAATAAAAA-TTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * *
24635921 AAAATAAAATTTTCTAAAAAATAATTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAATAAAAATTTCTAAAAAAT-A-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
*
24635982 AAAATAAAAATTTCTAAAAGATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAAAATTTCTAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
24636042 TATAAAAACA
Statistics
Matches: 325, Mismatches: 25, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
58 15 0.05
59 109 0.34
60 145 0.45
61 56 0.17
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.37
Consensus pattern (59 bp):
AAAATAAAAATTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:24645659 original size:61 final size:61
Alignment explanation
Indices: 24645593--24645727 Score: 173
Period size: 61 Copynumber: 2.2 Consensus size: 61
24645583 AGTGAAGGGT
* * *
24645593 ATTATTTAAGGCTTTTTTTACTAAAAAAACCTTAAATAATCCCCTTTAAAAA-ATATTAGAG
1 ATTATTTAAGGC-GTTTTGACCAAAAAAACCTTAAATAATCCCCTTTAAAAATATATTAGAG
* * ** **
24645654 TTTATTTAAGGCGTTTTGACCAAAAACATTTTAAATAATCCTTTTTAAAAATATATTAGAG
1 ATTATTTAAGGCGTTTTGACCAAAAAAACCTTAAATAATCCCCTTTAAAAATATATTAGAG
24645715 ATTATTTAAGGCG
1 ATTATTTAAGGCG
24645728 ATGTCTTATA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 31 0.49
61 32 0.51
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (61 bp):
ATTATTTAAGGCGTTTTGACCAAAAAAACCTTAAATAATCCCCTTTAAAAATATATTAGAG
Found at i:24647598 original size:21 final size:20
Alignment explanation
Indices: 24647572--24647610 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
24647562 ATAATAAAGG
*
24647572 ATAAAAATAATAAATAAATAA
1 ATAAAAACAATAAA-AAATAA
24647593 ATAAAAACAATAAAAAAT
1 ATAAAAACAATAAAAAAT
24647611 CTAAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (20 bp):
ATAAAAACAATAAAAAATAA
Found at i:24647641 original size:20 final size:20
Alignment explanation
Indices: 24647613--24647667 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
24647603 TAAAAAATCT
* *
24647613 AAAATAAAATGAAAATAAAAT
1 AAAA-AAAATGAAAACAAAAC
** *
24647634 AGGAAAAATAAAAACAAAAC
1 AAAAAAAATGAAAACAAAAC
24647654 AAAAAAAATGAAAA
1 AAAAAAAATGAAAA
24647668 AAGGAAAGAA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (20 bp):
AAAAAAAATGAAAACAAAAC
Found at i:24649087 original size:2 final size:2
Alignment explanation
Indices: 24649076--24649129 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
24649066 TTTACCCTCA
*
24649076 TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC AC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
24649117 TC TC TC TC TC TC T
1 TC TC TC TC TC TC T
24649130 AACACACACA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.02, C:0.50, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:24649587 original size:2 final size:2
Alignment explanation
Indices: 24649580--24649605 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24649570 AAGTTAAAAT
24649580 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
24649606 CTCAGCGGTA
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):
TA
Found at i:24655218 original size:6 final size:6
Alignment explanation
Indices: 24655204--24655247 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
24655194 CTCCCAACGG
*
24655204 AAAAA- AAAAAC AAAAAC AAAAAC CAAAAC -AAAAC AAAAA- AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
24655248 AAATGATTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
5 15 0.42
6 21 0.58
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:24655224 original size:12 final size:11
Alignment explanation
Indices: 24655204--24655247 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
24655194 CTCCCAACGG
24655204 AAAAAAAAAAC
1 AAAAAAAAAAC
24655215 AAAAACAAAAAC
1 AAAAA-AAAAAC
* *
24655227 CAAAACAAAAC
1 AAAAAAAAAAC
24655238 AAAAAAAAAA
1 AAAAAAAAAA
24655248 AAATGATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:24655236 original size:23 final size:23
Alignment explanation
Indices: 24655205--24655248 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
24655195 TCCCAACGGA
*
24655205 AAAAAAAAACAAAAACAAAAACC
1 AAAAAAAAACAAAAAAAAAAACC
*
24655228 AAAACAAAACAAAAAAAAAAA
1 AAAAAAAAACAAAAAAAAAAA
24655249 AATGATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (23 bp):
AAAAAAAAACAAAAAAAAAAACC
Found at i:24657943 original size:2 final size:2
Alignment explanation
Indices: 24657936--24657963 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24657926 ACGATTTGAA
24657936 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
24657964 TTTCCCTGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24659362 original size:29 final size:30
Alignment explanation
Indices: 24659328--24659431 Score: 113
Period size: 30 Copynumber: 3.5 Consensus size: 30
24659318 CACTTTACAT
** *
24659328 AAATAAGCTCTTATTCTTTTATT-GCATCC
1 AAATAAGCTCTTAACCTTTAATTCGCATCC
* *
24659357 AAATAAGCCCTTAACCTTTAATTCGTATCC
1 AAATAAGCTCTTAACCTTTAATTCGCATCC
* *
24659387 AAATAAGCTCTTAACCTTTAATTTGTA-CC
1 AAATAAGCTCTTAACCTTTAATTCGCATCC
*
24659416 TAAATAAGCCCTTAAC
1 -AAATAAGCTCTTAAC
24659432 ATAACACATA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
29 21 0.32
30 44 0.68
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.37
Consensus pattern (30 bp):
AAATAAGCTCTTAACCTTTAATTCGCATCC
Found at i:24659389 original size:30 final size:30
Alignment explanation
Indices: 24659353--24659431 Score: 124
Period size: 30 Copynumber: 2.6 Consensus size: 30
24659343 CTTTTATTGC
24659353 ATCCAAATAAGCCCTTAACCTTTAATTCGT
1 ATCCAAATAAGCCCTTAACCTTTAATTCGT
* *
24659383 ATCCAAATAAGCTCTTAACCTTTAATTTGT
1 ATCCAAATAAGCCCTTAACCTTTAATTCGT
24659413 A-CCTAAATAAGCCCTTAAC
1 ATCC-AAATAAGCCCTTAAC
24659432 ATAACACATA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 2 0.04
30 43 0.96
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.33
Consensus pattern (30 bp):
ATCCAAATAAGCCCTTAACCTTTAATTCGT
Found at i:24661083 original size:2 final size:2
Alignment explanation
Indices: 24661076--24661140 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
24661066 TTTCCTTGAA
24661076 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC 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
24661118 TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC T
24661141 TTATGAATCA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:24666140 original size:2 final size:2
Alignment explanation
Indices: 24666133--24666162 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24666123 GACTGAGGTT
24666133 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
24666163 CACAATAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:24669709 original size:158 final size:158
Alignment explanation
Indices: 24669416--24669731 Score: 614
Period size: 158 Copynumber: 2.0 Consensus size: 158
24669406 TAGTAAACGG
*
24669416 GTGATAAATAAATTGTCAACTTATAGGTGCCCACAAGGATACTTGAAAGGAAATGTCATCTCCAA
1 GTGACAAATAAATTGTCAACTTATAGGTGCCCACAAGGATACTTGAAAGGAAATGTCATCTCCAA
24669481 TGATTTATAAGGCATTGCATTAAAAGAGAATCCTTTCTAGATTAGCCTTGAAGTCTTATCCAGTT
66 TGATTTATAAGGCATTGCATTAAAAGAGAATCCTTTCTAGATTAGCCTTGAAGTCTTATCCAGTT
24669546 CTTGAAAAAGAGACATTTCAATAATATC
131 CTTGAAAAAGAGACATTTCAATAATATC
24669574 GTGACAAATAAATTGTCAACTTATAGGTGCCCACAAGGATACTTGAAAGGAAATGTCATCTCCAA
1 GTGACAAATAAATTGTCAACTTATAGGTGCCCACAAGGATACTTGAAAGGAAATGTCATCTCCAA
*
24669639 TGCTTTATAAGGCATTGCATTAAAAGAGAATCCTTTCTAGATTAGCCTTGAAGTCTTATCCAGTT
66 TGATTTATAAGGCATTGCATTAAAAGAGAATCCTTTCTAGATTAGCCTTGAAGTCTTATCCAGTT
24669704 CTTGAAAAAGAGACATTTCAATAATATC
131 CTTGAAAAAGAGACATTTCAATAATATC
24669732 TACTGGAAAT
Statistics
Matches: 156, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
158 156 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (158 bp):
GTGACAAATAAATTGTCAACTTATAGGTGCCCACAAGGATACTTGAAAGGAAATGTCATCTCCAA
TGATTTATAAGGCATTGCATTAAAAGAGAATCCTTTCTAGATTAGCCTTGAAGTCTTATCCAGTT
CTTGAAAAAGAGACATTTCAATAATATC
Found at i:24682487 original size:2 final size:2
Alignment explanation
Indices: 24682480--24682520 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
24682470 GTTGACCAGG
*
24682480 AT AT AT AT AT AT -T AT AT AT GT 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
24682521 CAATCAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:24687955 original size:22 final size:22
Alignment explanation
Indices: 24687903--24687961 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
24687893 ATTCATTCAC
* *
24687903 TTTTAAAT-TTATTTTTTATAT
1 TTTTAAATATAATTTTTAATAT
*
24687924 TATTTTAATATAATTTTTAATAT
1 T-TTTAAATATAATTTTTAATAT
24687947 TTTTAAATA-AATTTT
1 TTTTAAATATAATTTT
24687962 GATATAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 7 0.22
22 13 0.41
23 12 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTAAATATAATTTTTAATAT
Found at i:24687956 original size:20 final size:21
Alignment explanation
Indices: 24687903--24687967 Score: 60
Period size: 23 Copynumber: 3.0 Consensus size: 21
24687893 ATTCATTCAC
* *
24687903 TTTTAAATTTATTTTTTATATTA
1 TTTTAAA-TAATTTTTAATA-TA
24687926 TTTTAATATAATTTTTAATAT-
1 TTTTAA-ATAATTTTTAATATA
* *
24687947 TTTTAAATAAATTTTGATATA
1 TTTTAAATAATTTTTAATATA
24687968 AAATAATGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 12 0.33
21 6 0.17
22 1 0.03
23 16 0.44
24 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTTAAATAATTTTTAATATA
Found at i:24688920 original size:11 final size:11
Alignment explanation
Indices: 24688904--24688955 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
24688894 TAAATTATAA
*
24688904 TTTTATTTATC
1 TTTTATTTATT
24688915 TTTTATTTATT
1 TTTTATTTATT
*
24688926 TTATTTTTTATT
1 TT-TTATTTATT
* *
24688938 TTTT-GTTAAT
1 TTTTATTTATT
24688948 TTTTATTT
1 TTTTATTT
24688956 TTAATATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
10 8 0.24
11 16 0.47
12 10 0.29
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTATTTATT
Found at i:24688928 original size:16 final size:15
Alignment explanation
Indices: 24688905--24688938 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
24688895 AAATTATAAT
24688905 TTTATTTATCTTTTA
1 TTTATTTATCTTTTA
*
24688920 TTTATTTTATTTTTTA
1 TTTA-TTTATCTTTTA
24688936 TTT
1 TTT
24688939 TTTGTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTATTTATCTTTTA
Found at i:24688935 original size:23 final size:24
Alignment explanation
Indices: 24688909--24688957 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
24688899 TATAATTTTA
*
24688909 TTTATCTTTTATTTA-TTTTATTT
1 TTTATCTTTTATTAATTTTTATTT
* *
24688932 TTTATTTTTTGTTAATTTTTATTT
1 TTTATCTTTTATTAATTTTTATTT
24688956 TT
1 TT
24688958 AATATTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (24 bp):
TTTATCTTTTATTAATTTTTATTT
Found at i:24688952 original size:17 final size:16
Alignment explanation
Indices: 24688915--24688957 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
24688905 TTTATTTATC
* *
24688915 TTTTATTTATTTTATT
1 TTTTATTTTTTTTAAT
24688931 TTTTATTTTTTGTTAAT
1 TTTTATTTTTT-TTAAT
24688948 TTTTATTTTT
1 TTTTATTTTT
24688958 AATATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.81
Consensus pattern (16 bp):
TTTTATTTTTTTTAAT
Found at i:24689261 original size:13 final size:15
Alignment explanation
Indices: 24689228--24689264 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
24689218 TCAAAAGTAT
24689228 TTTATTTATAATTTTA
1 TTTATTTAT-ATTTTA
24689244 TTTATTTAT-TTTTA
1 TTTATTTATATTTTA
24689258 -TTATTTA
1 TTTATTTA
24689265 GTTAGTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.33
14 5 0.24
16 9 0.43
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTATTTATATTTTA
Found at i:24692819 original size:101 final size:102
Alignment explanation
Indices: 24692567--24692863 Score: 360
Period size: 100 Copynumber: 3.0 Consensus size: 102
24692557 AGAATTTCAT
* * * *
24692567 AATGAATTTTTTG-AAAAAAT-ATAATAAAATTTTTAATCA-TACCAAATTATTAGAGAATTTAA
1 AATGAATTTTTTGTAAAAAATAATAATAAAATTTTCAATCATTACCAAACTATTAAAGGATTTAA
* * *
24692629 ATCTTGAATTAAGTCTTACCAAACTATTGGAAGACTC
66 ATATTGAATTAAGTCTTACCAAAATATTGGAAAACTC
* *
24692666 AATGGA-TTTTT-TAAATTAATAATAATAAAATTTTCAATCATT-CCAAACTATTAAAGGATTTA
1 AATGAATTTTTTGTAAA-AAATAATAATAAAATTTTCAATCATTACCAAACTATTAAAGGATTTA
* * *
24692728 AATATAGAATTAAGTCTTATCAAAATATTGGAAAACTT
65 AATATTGAATTAAGTCTTACCAAAATATTGGAAAACTC
* *
24692766 TATGAATTTTTTGTAAAAAATAATAATAAAATTTTCAAT-ATTATCAAACTATTAGAA-GATTTA
1 AATGAATTTTTTGTAAAAAATAATAATAAAATTTTCAATCATTACCAAACTATTA-AAGGATTTA
*
24692829 AATACTTGAATT-AGATCTTACCAAATTATTGGAAA
65 AATA-TTGAATTAAG-TCTTACCAAAATATTGGAAA
24692864 GTTTAATAAA
Statistics
Matches: 169, Mismatches: 19, Indels: 17
0.82 0.09 0.08
Matches are distributed among these distances:
98 8 0.05
99 8 0.05
100 74 0.44
101 49 0.29
102 30 0.18
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.38
Consensus pattern (102 bp):
AATGAATTTTTTGTAAAAAATAATAATAAAATTTTCAATCATTACCAAACTATTAAAGGATTTAA
ATATTGAATTAAGTCTTACCAAAATATTGGAAAACTC
Found at i:24697820 original size:47 final size:46
Alignment explanation
Indices: 24697733--24697825 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 46
24697723 TGTTGCTACT
* *
24697733 AGTTTGTGTTTATGGACTTTATGGATTGTCAATGCTAGATAAATTA
1 AGTTTGTATTTATGGACTTTATGAATTGTCAATGCTAGATAAATTA
*
24697779 AGTTTGTATTTATGGACTGTTATGAATTG-CTAGTGCTAGATAAATTA
1 AGTTTGTATTTATGGACT-TTATGAATTGTC-AATGCTAGATAAATTA
24697826 TGGACTGTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
46 18 0.43
47 24 0.57
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (46 bp):
AGTTTGTATTTATGGACTTTATGAATTGTCAATGCTAGATAAATTA
Found at i:24701869 original size:50 final size:50
Alignment explanation
Indices: 24701802--24701902 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
24701792 TGAAACAAAG
24701802 ATACACCACCCTTGATTTCTATCAGAGCATGATAAAAAATAAAAAGAAAA
1 ATACACCACCCTTGATTTCTATCAGAGCATGATAAAAAATAAAAAGAAAA
24701852 ATACACCACCCTTGATTTCTATCAGAGCATGATAAAAAATAAAAAGAAAA
1 ATACACCACCCTTGATTTCTATCAGAGCATGATAAAAAATAAAAAGAAAA
24701902 A
1 A
24701903 GAAGAAAGAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.50, C:0.18, G:0.10, T:0.22
Consensus pattern (50 bp):
ATACACCACCCTTGATTTCTATCAGAGCATGATAAAAAATAAAAAGAAAA
Found at i:24703982 original size:21 final size:22
Alignment explanation
Indices: 24703958--24704006 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
24703948 ATATTTTTTT
*
24703958 ATTTTATTAAATTTATA-TATA
1 ATTTTATTAAATTTATATTAAA
* *
24703979 ATTTTATTAGATTTTTATTAAA
1 ATTTTATTAAATTTATATTAAA
24704001 ATTTTA
1 ATTTTA
24704007 AACTACATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTTTATTAAATTTATATTAAA
Found at i:24708846 original size:16 final size:16
Alignment explanation
Indices: 24708802--24708847 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
24708792 ATATTTTCAT
24708802 TCCTTCCACTTTTCTA
1 TCCTTCCACTTTTCTA
* *
24708818 TTC-TCTCAATTTTCTA
1 TCCTTC-CACTTTTCTA
24708834 TCCTTCCACTTTTC
1 TCCTTCCACTTTTC
24708848 CATACGTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
15 2 0.08
16 20 0.83
17 2 0.08
ACGTcount: A:0.13, C:0.35, G:0.00, T:0.52
Consensus pattern (16 bp):
TCCTTCCACTTTTCTA
Found at i:24716732 original size:108 final size:108
Alignment explanation
Indices: 24716584--24716791 Score: 319
Period size: 108 Copynumber: 1.9 Consensus size: 108
24716574 TTTTTTGATA
* * * *
24716584 TTTTGTAAAGATTCTGGAAATAGTATCAAATAAGGTATTTGTTCAAAGGAAACACCTTAATTGAT
1 TTTTGTAAAGATTCTAGAAAAAGCATCAAATAAGGCATTTGTTCAAAGGAAACACCTTAATTGAT
* *
24716649 -ATCAATTAAGTCGTTTCTTTCCTTGAAACGCCTTATTTAATGC
66 AATCAATTAAGGCGTTTC-TTCCTTGAAACACCTTATTTAATGC
* **
24716692 TTTTGTAAAGATTTTAGAAAAAGCATCAAATAAGGCATTTGTTCAAAGGAAATGCCTTAATTGAT
1 TTTTGTAAAGATTCTAGAAAAAGCATCAAATAAGGCATTTGTTCAAAGGAAACACCTTAATTGAT
24716757 AATCAATTAAGGCGTTTCTTCCTTGAAACACCTTA
66 AATCAATTAAGGCGTTTCTTCCTTGAAACACCTTA
24716792 ATTGCCACAT
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
108 74 0.82
109 16 0.18
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (108 bp):
TTTTGTAAAGATTCTAGAAAAAGCATCAAATAAGGCATTTGTTCAAAGGAAACACCTTAATTGAT
AATCAATTAAGGCGTTTCTTCCTTGAAACACCTTATTTAATGC
Found at i:24724377 original size:2 final size:2
Alignment explanation
Indices: 24724370--24724404 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
24724360 TTCTATTTGT
*
24724370 TA TA TA TA TA TA GA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24724405 TTCAAGTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:24732832 original size:41 final size:42
Alignment explanation
Indices: 24732782--24732868 Score: 106
Period size: 43 Copynumber: 2.1 Consensus size: 42
24732772 AGTGAATAAT
24732782 TAATAATTGAAAACTTA-AATATAATTAGT-ATAACTTAATAG
1 TAATAATTGAAAACTTAGAATA-AATTAGTAATAACTTAATAG
* * * *
24732823 TAATCATTGATAATTTAGTAATAAATTAGTAATTACTTAATAG
1 TAATAATTGAAAACTTAG-AATAAATTAGTAATAACTTAATAG
24732866 TAA
1 TAA
24732869 ATAAATGATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 14 0.36
42 7 0.18
43 18 0.46
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (42 bp):
TAATAATTGAAAACTTAGAATAAATTAGTAATAACTTAATAG
Found at i:24732885 original size:44 final size:42
Alignment explanation
Indices: 24732799--24732894 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 42
24732789 TGAAAACTTA
* *
24732799 AATATAATTAGTATAACTTAATAGTAATCATTGATAATTTAGT
1 AATA-AATTAGTATAACTTAATAGTAATAAATGATAATTTAGT
*
24732842 AATAAATTAGTAATTACTTAATAGTAAATAAATGATAATTTAGT
1 AATAAATTAGT-ATAACTTAATAGT-AATAAATGATAATTTAGT
*
24732886 AGTAAATTA
1 AATAAATTA
24732895 AAAATTCATT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
42 7 0.15
43 16 0.34
44 24 0.51
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.40
Consensus pattern (42 bp):
AATAAATTAGTATAACTTAATAGTAATAAATGATAATTTAGT
Found at i:24732888 original size:22 final size:22
Alignment explanation
Indices: 24732830--24732892 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 22
24732820 TAGTAATCAT
* * *
24732830 TGATAATTTAGTAATAAATTAG
1 TGATAATTTAGTAGTAAATAAA
* * * *
24732852 TAATTACTTAATAGTAAATAAA
1 TGATAATTTAGTAGTAAATAAA
24732874 TGATAATTTAGTAGTAAAT
1 TGATAATTTAGTAGTAAAT
24732893 TAAAAATTCA
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.40
Consensus pattern (22 bp):
TGATAATTTAGTAGTAAATAAA
Found at i:24733001 original size:21 final size:20
Alignment explanation
Indices: 24732966--24733062 Score: 90
Period size: 21 Copynumber: 4.7 Consensus size: 20
24732956 AAGTTATCAA
*
24732966 AAGATTA-CTAAAATTGTATT
1 AAGATTATC-AAAATTGTATC
* * *
24732986 AACGGTTATCAAAATTATATT
1 AA-GATTATCAAAATTGTATC
24733007 ATA-AGTTATCAAAATTGTATC
1 A-AGA-TTATCAAAATTGTATC
*
24733028 AAGATTATCAAAATTTTATC
1 AAGATTATCAAAATTGTATC
24733048 AAAGATTATCAAAAT
1 -AAGATTATCAAAAT
24733063 CAAAATTATA
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
20 18 0.28
21 45 0.69
22 2 0.03
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.37
Consensus pattern (20 bp):
AAGATTATCAAAATTGTATC
Found at i:24733029 original size:11 final size:10
Alignment explanation
Indices: 24732991--24733062 Score: 58
Period size: 11 Copynumber: 7.0 Consensus size: 10
24732981 GTATTAACGG
24732991 TTATCAAAAT
1 TTATCAAAAT
* * *
24733001 TATATTATAAG
1 T-TATCAAAAT
24733012 TTATCAAAAT
1 TTATCAAAAT
*
24733022 TGTATCAAGA-
1 T-TATCAAAAT
24733032 TTATCAAAATT
1 TTATCAAAA-T
24733043 TTATCAAAGA-
1 TTATCAAA-AT
24733053 TTATCAAAAT
1 TTATCAAAAT
24733063 CAAAATTATA
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
9 8 0.17
10 17 0.35
11 22 0.46
12 1 0.02
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (10 bp):
TTATCAAAAT
Found at i:24733041 original size:41 final size:42
Alignment explanation
Indices: 24732960--24733062 Score: 122
Period size: 41 Copynumber: 2.5 Consensus size: 42
24732950 TATCATAAGT
* *
24732960 TATCAAAAGATTA-CTAAAATTGTATTAACGGTTATCAAAATTA
1 TATC-AAAGATTATC-AAAATTGTATCAACGATTATCAAAATTA
* *
24733003 TATTATAAG-TTATCAAAATTGTATCAA-GATTATCAAAATTT
1 TATCA-AAGATTATCAAAATTGTATCAACGATTATCAAAATTA
24733044 TATCAAAGATTATCAAAAT
1 TATCAAAGATTATCAAAAT
24733063 CAAAATTATA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
40 3 0.06
41 26 0.50
42 16 0.31
43 7 0.13
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.37
Consensus pattern (42 bp):
TATCAAAGATTATCAAAATTGTATCAACGATTATCAAAATTA
Found at i:24733066 original size:27 final size:27
Alignment explanation
Indices: 24733034--24733087 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
24733024 TATCAAGATT
* * *
24733034 ATCAAAATTTTATCAAAGATTATCAAA
1 ATCAAAATTATATAAAAAATTATCAAA
24733061 ATCAAAATTATATAAAAAATTATCAAA
1 ATCAAAATTATATAAAAAATTATCAAA
24733088 TTGTACTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.31
Consensus pattern (27 bp):
ATCAAAATTATATAAAAAATTATCAAA
Found at i:24735654 original size:34 final size:34
Alignment explanation
Indices: 24735615--24735683 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
24735605 TTCAAGAAAC
**
24735615 TTTATTTTTAAAAATACAACATAAATTTTAAAAA
1 TTTATTTACAAAAATACAACATAAATTTTAAAAA
* * * *
24735649 TTTATTTACAAAAATATATCATAATTTTTAGAAA
1 TTTATTTACAAAAATACAACATAAATTTTAAAAA
24735683 T
1 T
24735684 AAAATTTTGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.43
Consensus pattern (34 bp):
TTTATTTACAAAAATACAACATAAATTTTAAAAA
Found at i:24736812 original size:16 final size:17
Alignment explanation
Indices: 24736782--24736820 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
24736772 TAATTATTTA
24736782 TTAATA-AAAATATTAT
1 TTAATATAAAATATTAT
*
24736798 TTGATATAAAA-ATTAT
1 TTAATATAAAATATTAT
24736814 TTAATAT
1 TTAATAT
24736821 TTTTATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TTAATATAAAATATTAT
Found at i:24736846 original size:19 final size:19
Alignment explanation
Indices: 24736808--24736851 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
24736798 TTGATATAAA
* *
24736808 AATTATTTAATATTTTTAT
1 AATTATTTAATAATTATAT
*
24736827 AATTATTTATTAATTATAT
1 AATTATTTAATAATTATAT
24736846 ATATTA
1 A-ATTA
24736852 AATCATTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AATTATTTAATAATTATAT
Found at i:24737913 original size:23 final size:23
Alignment explanation
Indices: 24737882--24737926 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
24737872 GGGGTGTAAA
24737882 AAAAGTAAAATT-GTAATTTATT
1 AAAAGTAAAATTGGTAATTTATT
*
24737904 AAAAGATAAAATTGGTATTTTAT
1 AAAAG-TAAAATTGGTAATTTAT
24737927 ATATGAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 7 0.35
24 8 0.40
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (23 bp):
AAAAGTAAAATTGGTAATTTATT
Found at i:24739221 original size:2 final size:2
Alignment explanation
Indices: 24739216--24739251 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
24739206 GAGAGCAATG
24739216 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
24739252 TCTATTAGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:24741879 original size:18 final size:19
Alignment explanation
Indices: 24741842--24741879 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
24741832 TACCAATCCA
*
24741842 GTTGAACCGATCCTAAATC
1 GTTGAACCGACCCTAAATC
*
24741861 GTTGAACC-ACCCTAGATC
1 GTTGAACCGACCCTAAATC
24741879 G
1 G
24741880 CACCAGATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (19 bp):
GTTGAACCGACCCTAAATC
Found at i:24742256 original size:109 final size:108
Alignment explanation
Indices: 24742143--24742488 Score: 278
Period size: 109 Copynumber: 3.1 Consensus size: 108
24742133 ATAAAATCAC
* *
24742143 AAAT-AGTGATTTTATTAAAAATATTTGTATGAAGAAAATTCTTAAATATTCTAAAAGTGTTAGA
1 AAATAAGTGATTTTATTTAAAATATTTGTAT-AA-AAAATTCTAAAATATTCTAAAAGTGTTAGA
*
24742207 AATATTTTAGAAATATTTTCAAACATAAAAAATAATATTAGTAAAAAATA
64 AATATTTTAGAAATATTTTCAAACATAAAAAATAATA-T--T-AATAA-A
** *
24742257 AAATCACAAGTGGTAATTTTATTTAAAATATTTACATAAAAAATTCTAAAATATTGTAAAAGTGT
1 AAAT---AAGT-G--ATTTTATTTAAAATATTTGTATAAAAAATTCTAAAATATTCTAAAAGTGT
* * * * *
24742322 TAGAAATATTTT-CAAACA---T-AAA-A-AAAATAATATTGTTAAAAAA
60 TAGAAATATTTTAGAAATATTTTCAAACATAAAA-AATAATATTAATAAA
* * *
24742365 AAATCACAAATGGTGGTTTTATTTAAAATATTTACGTA-AAAAAATTCTCAAATATTCTAAAAAT
1 AAAT----AA--GTGATTTTATTTAAAATATTT--GTATAAAAAATTCTAAAATATTCTAAAAGT
24742429 GTTAGAAATATTTTAGAAATATTTTCAAACATAAAAAAATATATTATTAATAAA
58 GTTAGAAATATTTTAGAAATATTTTCAAACAT-AAAAAATA-A-TATTAATAAA
24742483 AAATAA
1 AAATAA
24742489 AGTCACGAGT
Statistics
Matches: 186, Mismatches: 23, Indels: 46
0.73 0.09 0.18
Matches are distributed among these distances:
108 22 0.12
109 44 0.24
110 7 0.04
111 2 0.01
112 5 0.03
113 7 0.04
114 12 0.06
115 2 0.01
116 4 0.02
117 4 0.02
118 19 0.10
119 37 0.20
120 2 0.01
121 19 0.10
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.36
Consensus pattern (108 bp):
AAATAAGTGATTTTATTTAAAATATTTGTATAAAAAATTCTAAAATATTCTAAAAGTGTTAGAAA
TATTTTAGAAATATTTTCAAACATAAAAAATAATATTAATAAA
Found at i:24742340 original size:108 final size:108
Alignment explanation
Indices: 24742213--24742442 Score: 347
Period size: 108 Copynumber: 2.1 Consensus size: 108
24742203 TAGAAATATT
*
24742213 TTAGAAATATTTTCAAACAT-AAAAAATAATATTAGTAAAAAATAAAATCACAAGTGGTAATTTT
1 TTAGAAATATTTTCAAACATAAAAAAATAATATT-GTAAAAAA-AAAATCACAAATGGTAATTTT
* *
24742277 ATTTAAAATATTTACAT-AAAAAATTCTAAAATATTGTAAAAGTG
64 ATTTAAAATATTTACATAAAAAAATTCTAAAATATTCTAAAAATG
* **
24742321 TTAGAAATATTTTCAAACATAAAAAAAATAATATTGTTAAAAAAAAATCACAAATGGTGGTTTTA
1 TTAGAAATATTTTCAAACAT-AAAAAAATAATATTGTAAAAAAAAAATCACAAATGGTAATTTTA
* *
24742386 TTTAAAATATTTACGTAAAAAAATTCTCAAATATTCTAAAAATG
65 TTTAAAATATTTACATAAAAAAATTCTAAAATATTCTAAAAATG
24742430 TTAGAAATATTTT
1 TTAGAAATATTTT
24742443 AGAAATATTT
Statistics
Matches: 111, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
108 54 0.49
109 44 0.40
110 13 0.12
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.35
Consensus pattern (108 bp):
TTAGAAATATTTTCAAACATAAAAAAATAATATTGTAAAAAAAAAATCACAAATGGTAATTTTAT
TTAAAATATTTACATAAAAAAATTCTAAAATATTCTAAAAATG
Found at i:24744058 original size:21 final size:21
Alignment explanation
Indices: 24744034--24744086 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
24744024 TATTTAGGAA
24744034 TAACAAAAAAAGGCAACAAAG
1 TAACAAAAAAAGGCAACAAAG
24744055 TAACAAAAAAAGGCAACAAAG
1 TAACAAAAAAAGGCAACAAAG
24744076 TAACAAAAAAA
1 TAACAAAAAAA
24744087 AGAATCATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.70, C:0.13, G:0.11, T:0.06
Consensus pattern (21 bp):
TAACAAAAAAAGGCAACAAAG
Found at i:24747042 original size:16 final size:17
Alignment explanation
Indices: 24747003--24747045 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
24746993 TGTTTTGAGA
24747003 AGGAAAATAAAATTTTG
1 AGGAAAATAAAATTTTG
*
24747020 A--AAAAAAACAATTTTG
1 AGGAAAATAA-AATTTTG
24747036 AGGAAAATAA
1 AGGAAAATAA
24747046 GCGGCATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
15 6 0.29
16 8 0.38
17 1 0.05
18 6 0.29
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.23
Consensus pattern (17 bp):
AGGAAAATAAAATTTTG
Found at i:24747907 original size:42 final size:41
Alignment explanation
Indices: 24747861--24748112 Score: 171
Period size: 42 Copynumber: 6.2 Consensus size: 41
24747851 TTCTCGATAA
24747861 TGATATCCGAGTGTTAAAGCTTAAATTTCATCTTCTTAGTGG
1 TGATATCCGAGTGTTAAAGCTTAAATTTCAT-TTCTTAGTGG
* * * *
24747903 TGATATCCAAGTGTTAAAGC-TAGAATTGCATTTTTTCGGTGG
1 TGATATCCGAGTGTTAAAGCTTA-AATTTCATTTCTT-AGTGG
* *
24747945 TGATATCCGAATGTTAAAGCTTAAATTTTATTTTCTTAGTGG
1 TGATATCCGAGTGTTAAAGCTTAAATTTCA-TTTCTTAGTGG
** * ** * *
24747987 TGATATTTGA--G--ACATTTTCAAA-ATCA-TTC--GGTGG
1 TGATATCCGAGTGTTAAAGCTT-AAATTTCATTTCTTAGTGG
* * ** * *
24748021 TGACATTCGAGTGTTAAAGCTGGAATTACATTTTCTTAATGG
1 TGATATCCGAGTGTTAAAGCTTAAATTTCA-TTTCTTAGTGG
* * * *
24748063 TGATATTCGAGTGTTAAGGCTTGAATTTCATTTTCTTGGTGG
1 TGATATCCGAGTGTTAAAGCTTAAATTTCA-TTTCTTAGTGG
24748105 TGATATCC
1 TGATATCC
24748113 AAGACATTTT
Statistics
Matches: 160, Mismatches: 36, Indels: 28
0.71 0.16 0.12
Matches are distributed among these distances:
34 12 0.08
36 4 0.03
37 2 0.01
38 11 0.07
39 3 0.02
40 4 0.03
41 6 0.04
42 111 0.69
43 7 0.04
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (41 bp):
TGATATCCGAGTGTTAAAGCTTAAATTTCATTTCTTAGTGG
Found at i:24747929 original size:84 final size:84
Alignment explanation
Indices: 24747816--24747992 Score: 230
Period size: 84 Copynumber: 2.1 Consensus size: 84
24747806 GAGTATTCAA
* *
24747816 TGGTGATATCCAAATATTAAAATATGAATTTCATCTTCTCGATAATGATATCCGAGTGTTAAAGC
1 TGGTGATATCCAAATATTAAAATATGAATTGCATCTTCTCGATAATGATATCCGAATGTTAAAGC
24747881 TTAAATTTCATCTTCTTAG
66 TTAAATTTCATCTTCTTAG
* * * * * * **
24747900 TGGTGATATCCAAGTGTTAAAGCTA-GAATTGCATTTTTTCGGTGGTGATATCCGAATGTTAAAG
1 TGGTGATATCCAAATATTAAA-ATATGAATTGCATCTTCTCGATAATGATATCCGAATGTTAAAG
* *
24747964 CTTAAATTTTATTTTCTTAG
65 CTTAAATTTCATCTTCTTAG
24747984 TGGTGATAT
1 TGGTGATAT
24747993 TTGAGACATT
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 78 0.98
85 2 0.03
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.41
Consensus pattern (84 bp):
TGGTGATATCCAAATATTAAAATATGAATTGCATCTTCTCGATAATGATATCCGAATGTTAAAGC
TTAAATTTCATCTTCTTAG
Found at i:24748172 original size:118 final size:118
Alignment explanation
Indices: 24747898--24748156 Score: 308
Period size: 118 Copynumber: 2.2 Consensus size: 118
24747888 TCATCTTCTT
* * **
24747898 AGTGGTGATATCCAAGTGTTAAAGCT-AGAATTGCATTTT-TTCGGTGGTGATATCCGAATGTTA
1 AGTGGTGACATCCAAGTGTTAAAGCTGA-AATTACATTTTCTT-AATGGTGATATCCGAATGTTA
* *** *
24747961 AAGCTTAAATTTTATTTTCTTAGTGGTGATATTTGAGACATTTTCAAAATCATTC
64 AAGCTTAAATTTCATTTTCTTAGTGGTGATATCCAAGACATTTTCAAAATCACTC
* * * * * * *
24748016 GGTGGTGACATTCGAGTGTTAAAGCTGGAATTACATTTTCTTAATGGTGATATTCGAGTGTTAAG
1 AGTGGTGACATCCAAGTGTTAAAGCTGAAATTACATTTTCTTAATGGTGATATCCGAATGTTAAA
* * *
24748081 GCTTGAATTTCATTTTCTTGGTGGTGATATCCAAGACATTTTCAACATCACTC
66 GCTTAAATTTCATTTTCTTAGTGGTGATATCCAAGACATTTTCAAAATCACTC
24748134 AGTGGTGACATCCAAGT-TTAAAG
1 AGTGGTGACATCCAAGTGTTAAAG
24748157 TTTAAATTTG
Statistics
Matches: 117, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
117 6 0.05
118 109 0.93
119 2 0.02
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (118 bp):
AGTGGTGACATCCAAGTGTTAAAGCTGAAATTACATTTTCTTAATGGTGATATCCGAATGTTAAA
GCTTAAATTTCATTTTCTTAGTGGTGATATCCAAGACATTTTCAAAATCACTC
Found at i:24750373 original size:20 final size:20
Alignment explanation
Indices: 24750350--24750387 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24750340 AAAAATTCTA
*
24750350 AAATATTCTAAAAGTATTAG
1 AAATATTCTAAAAATATTAG
*
24750370 AAATATTTTAAAAATATT
1 AAATATTCTAAAAATATT
24750388 TTCAACATAA
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:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (20 bp):
AAATATTCTAAAAATATTAG
Found at i:24750388 original size:119 final size:119
Alignment explanation
Indices: 24750179--24750661 Score: 570
Period size: 118 Copynumber: 4.1 Consensus size: 119
24750169 TAAAATAACT
* * * *
24750179 ATAAAATCACAAATAGTGATTTTATTAAAAATATTTACACAAAAAAATTCTAAATTATTCTAAAA
1 ATAAAATCACAAATAATGATTTTATTTAAAATATTTACA-TAAAAAATTCTAAAATATTCTAAAA
*
24750244 GTATTAGAAATATTTTAGAAATATTTTCAAACATAAAAAATAATATTAGTAAAAA
65 GTATTAGAAATATTTTAGAAATATTTTCAAACATAAAAAATAATATTAATAAAAA
*
24750299 ATAAAATCACAAATAATGATTTTATTTAAAATATTTACGTAAAAAATTCTAAAATATTCTAAAAG
1 ATAAAATCACAAATAATGATTTTATTTAAAATATTTACATAAAAAATTCTAAAATATTCTAAAAG
* *
24750364 TATTAGAAATATTTTAAAAATATTTTC-AACATAAAAAATAATATTATTAAAAA
66 TATTAGAAATATTTTAGAAATATTTTCAAACATAAAAAATAATATTAATAAAAA
* * * * *
24750417 ACAAAATTACAAGTGATGATTTTCTTTAAAATATTTACATAAAAAATTCTAAAATATTCTAAAAG
1 ATAAAATCACAAATAATGATTTTATTTAAAATATTTACATAAAAAATTCTAAAATATTCTAAAAG
* *
24750482 TATTAAAAATATTTTAGAAATATTTTCAAACATAAAAACAATATTATTAATAAAAA
66 TATTAGAAATATTTTAGAAATATTTTCAAACAT-AAAA-AATAATATTAATAAAAA
* * * * * * * * *
24750538 ATAAAGTCACAAGTAGTAATTTT-GTT--AATATTCATATAAAAAAATTTTCTAAAGTATTATAA
1 ATAAAATCACAAATAATGATTTTATTTAAAATATTTACAT-AAAAAA--TTCTAAAATATTCTAA
* * * * * *
24750600 AAATGTTAGAAATA-TTTAG-AAT-TTTTTAAAAATACAAAATAATA--AATAAAATG
63 AAGTATTAGAAATATTTTAGAAATATTTTCAAACATAAAAAATAATATTAATAAAA-A
24750653 ATAAAATCA
1 ATAAAATCA
24750662 ACAATAAATA
Statistics
Matches: 319, Mismatches: 37, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
114 7 0.02
115 8 0.03
116 6 0.02
117 3 0.01
118 127 0.40
119 64 0.20
120 47 0.15
121 57 0.18
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.35
Consensus pattern (119 bp):
ATAAAATCACAAATAATGATTTTATTTAAAATATTTACATAAAAAATTCTAAAATATTCTAAAAG
TATTAGAAATATTTTAGAAATATTTTCAAACATAAAAAATAATATTAATAAAAA
Found at i:24750641 original size:237 final size:237
Alignment explanation
Indices: 24750195--24750643 Score: 593
Period size: 237 Copynumber: 1.9 Consensus size: 237
24750185 TCACAAATAG
* *
24750195 TGATTTTATTAAAAATATTTACACAAAAAAATTCTAAATTATTCTAAAAGTATTAGAAATATTTT
1 TGATTTTATTAAAAATATTTACACAAAAAAATTCTAAAATATTCTAAAAGTATTAAAAATATTTT
* * *
24750260 AGAAATATTTTCAAACATAAAAAATAATATTAGTAAAAAATAAAATCACAAATAATGATTTTATT
66 AGAAATATTTTCAAACATAAAAAATAATATTAATAAAAAATAAAATCACAAATAATAATTTTAGT
* * * *
24750325 TAAAATATTTACGTAAAAAATTCTAAAATATTCTAAAAGTATTAGAAATATTTTAAAAATATTTT
131 T-AAATATTCACATAAAAAATTCTAAAATATTATAAAAATATTAGAAATATTTTAAAAATATTTT
* *
24750390 CAACATAAAAAATAATATTATTAAAAAACAAAATTACAAGTGA
195 AAAAATAAAAAATAATATTATTAAAAAACAAAATTACAAGTGA
* * *
24750433 TGATTTTCTTTAAAATATTTACA-TAAAAAATTCTAAAATATTCTAAAAGTATTAAAAATATTTT
1 TGATTTTATTAAAAATATTTACACAAAAAAATTCTAAAATATTCTAAAAGTATTAAAAATATTTT
* * * *
24750497 AGAAATATTTTCAAACATAAAAACAATATTATTAATAAAAAATAAAGTCACAAGTAGTAATTTT-
66 AGAAATATTTTCAAACAT-AAAA-AATAATATTAATAAAAAATAAAATCACAAATAATAATTTTA
* * * * *
24750561 GTT-AATATTCATATAAAAAAATTTTCTAAAGTATTATAAAAATGTTAGAAATA-TTT-AGAATT
129 GTTAAATATTCACAT-AAAAAA--TTCTAAAATATTATAAAAATATTAGAAATATTTTAAAAATA
*
24750623 TTTTAAAAATACAAAATAATA
191 TTTTAAAAATAAAAAATAATA
24750644 AATAAAATGA
Statistics
Matches: 182, Mismatches: 24, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
236 8 0.04
237 84 0.46
238 30 0.16
239 60 0.33
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.37
Consensus pattern (237 bp):
TGATTTTATTAAAAATATTTACACAAAAAAATTCTAAAATATTCTAAAAGTATTAAAAATATTTT
AGAAATATTTTCAAACATAAAAAATAATATTAATAAAAAATAAAATCACAAATAATAATTTTAGT
TAAATATTCACATAAAAAATTCTAAAATATTATAAAAATATTAGAAATATTTTAAAAATATTTTA
AAAATAAAAAATAATATTATTAAAAAACAAAATTACAAGTGA
Found at i:24752450 original size:21 final size:21
Alignment explanation
Indices: 24752425--24752465 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
24752415 AATCTTACTA
24752425 TATGTGAAATTAATGTAATTT
1 TATGTGAAATTAATGTAATTT
* * *
24752446 TATGTTAAATTTATTTAATT
1 TATGTGAAATTAATGTAATT
24752466 AAATTCTACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.54
Consensus pattern (21 bp):
TATGTGAAATTAATGTAATTT
Found at i:24752521 original size:17 final size:18
Alignment explanation
Indices: 24752501--24752536 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
24752491 TTTATTTGAT
24752501 TATTTAATGATG-TAATA
1 TATTTAATGATGATAATA
*
24752518 TATTTAATTATGATAATA
1 TATTTAATGATGATAATA
24752536 T
1 T
24752537 TTTTTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (18 bp):
TATTTAATGATGATAATA
Found at i:24755680 original size:2 final size:2
Alignment explanation
Indices: 24755673--24755723 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
24755663 TAAAAACCAA
* * * *
24755673 AT AT AT AT AT AT AT AT AC AT AT AT CT AT AT AC AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24755715 AT AT AT AT A
1 AT AT AT AT A
24755724 GGAAAGCGTA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:24760700 original size:21 final size:23
Alignment explanation
Indices: 24760642--24760701 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 23
24760632 GAGAGTATAT
* *
24760642 AGGTGGCGGTGGCGAATTAGTTGG
1 AGGTGGCGGTGGTG-ATTAGTCGG
* *
24760666 AGGTGGAGGAGGTGATT-GTCGG
1 AGGTGGCGGTGGTGATTAGTCGG
24760688 -GGTGGCGGTGGTGA
1 AGGTGGCGGTGGTGA
24760702 AGTGAAGTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 12 0.40
22 4 0.13
23 3 0.10
24 11 0.37
ACGTcount: A:0.15, C:0.07, G:0.55, T:0.23
Consensus pattern (23 bp):
AGGTGGCGGTGGTGATTAGTCGG
Found at i:24763636 original size:17 final size:16
Alignment explanation
Indices: 24763605--24763654 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
24763595 AATAAAATAA
*
24763605 AAATATAAAACAAAAG
1 AAATATAAAAAAAAAG
*
24763621 AAATAGTAAAAAAAAAT
1 AAATA-TAAAAAAAAAG
24763638 AAA-A-AAATAAAAAAG
1 AAATATAAA-AAAAAAG
24763653 AA
1 AA
24763655 GTCCATAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 3 0.10
15 8 0.28
16 6 0.21
17 12 0.41
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.12
Consensus pattern (16 bp):
AAATATAAAAAAAAAG
Found at i:24763761 original size:41 final size:41
Alignment explanation
Indices: 24763716--24763798 Score: 96
Period size: 41 Copynumber: 2.0 Consensus size: 41
24763706 TTTTAAATTA
* * * *
24763716 AAATATCAAATAATAATT-TTATTAATATAAGATATATATAT
1 AAATATAAAATAA-AATTAATAATAAAATAAGATATATATAT
* *
24763757 AAATATAAAATTAAATTAATAATAAAATAATATATATATAT
1 AAATATAAAATAAAATTAATAATAAAATAAGATATATATAT
24763798 A
1 A
24763799 TCCCAAAATG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
40 4 0.11
41 31 0.89
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (41 bp):
AAATATAAAATAAAATTAATAATAAAATAAGATATATATAT
Found at i:24764551 original size:20 final size:20
Alignment explanation
Indices: 24764504--24764555 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
24764494 GAAAAATCTA
*
24764504 AAAAGTTTTTAAAAATTTTC
1 AAAATTTTTTAAAAATTTTC
*
24764524 AAAATTTTTTTAAAATTTAT-
1 AAAATTTTTTAAAAATTT-TC
*
24764544 AAATTTTTTTAA
1 AAAATTTTTTAA
24764556 TCATACAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
AAAATTTTTTAAAAATTTTC
Found at i:24764606 original size:20 final size:19
Alignment explanation
Indices: 24764564--24764605 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
24764554 AATCATACAA
**
24764564 TTTTAATTTTTTGAAATAT
1 TTTTAATTTTTCAAAATAT
24764583 TTTTGAATTTTTCAAAAT-T
1 TTTT-AATTTTTCAAAATAT
24764602 TTTT
1 TTTT
24764606 TTTAATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTTAATTTTTCAAAATAT
Found at i:24764750 original size:35 final size:36
Alignment explanation
Indices: 24764677--24764765 Score: 108
Period size: 35 Copynumber: 2.4 Consensus size: 36
24764667 ATTTTAAAAT
* *
24764677 TTTTCATATTATTTTCAAAATAATTTAGGTTTTATTTAA
1 TTTTCA-ATT-TTTT-AAAAAAATTTAGATTTTATTTAA
24764716 TTTTCAATTTTTTAAAAAAATTTAGATTTT-TTTAA
1 TTTTCAATTTTTTAAAAAAATTTAGATTTTATTTAA
* *
24764751 TTTTTAGTTTTTTAA
1 TTTTCAATTTTTTAA
24764766 GTTTTTGTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
35 18 0.39
36 15 0.33
37 4 0.09
38 3 0.07
39 6 0.13
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (36 bp):
TTTTCAATTTTTTAAAAAAATTTAGATTTTATTTAA
Found at i:24764755 original size:9 final size:9
Alignment explanation
Indices: 24764736--24764948 Score: 56
Period size: 9 Copynumber: 22.6 Consensus size: 9
24764726 TTTAAAAAAA
24764736 TTTAGATTTT
1 TTTA-ATTTT
24764746 TTTAA--TT
1 TTTAATTTT
*
24764753 TTT-AGTTT
1 TTTAATTTT
24764761 TTTAAGTTTT
1 TTTAA-TTTT
*
24764771 TGTGAATTTT
1 T-TTAATTTT
*
24764781 TTTTATTTT
1 TTTAATTTT
*
24764790 AAAATTTTATTTT
1 ----TTTAATTTT
**
24764803 TATTAAAATT
1 T-TTAATTTT
24764813 TTT-ATTTT
1 TTTAATTTT
24764821 TTTAATTTTT
1 TTTAA-TTTT
*
24764831 TATTAAAATTT
1 T-TT-AATTTT
* *
24764842 TTGAGTTTT
1 TTTAATTTT
*
24764851 TTTAAATTT
1 TTTAATTTT
* *
24764860 TATAATTCT
1 TTTAATTTT
** * *
24764869 TCAAAATAT
1 TTTAATTTT
24764878 TTTAGATTTT
1 TTTA-ATTTT
24764888 TTTAATTTT
1 TTTAATTTT
*
24764897 TATAATTTT
1 TTTAATTTT
** * *
24764906 TAAAAATAT
1 TTTAATTTT
*
24764915 TTCAATTTT
1 TTTAATTTT
*
24764924 TTTAGAATTT
1 TTTA-ATTTT
*
24764934 TTAACATTTT
1 TTTA-ATTTT
24764944 TTTAA
1 TTTAA
24764949 AATTGTCTTT
Statistics
Matches: 146, Mismatches: 41, Indels: 33
0.66 0.19 0.15
Matches are distributed among these distances:
6 1 0.01
7 5 0.03
8 11 0.08
9 63 0.43
10 46 0.32
11 9 0.06
12 2 0.01
13 9 0.06
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (9 bp):
TTTAATTTT
Found at i:24764795 original size:17 final size:16
Alignment explanation
Indices: 24764775--24764825 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 16
24764765 AGTTTTTGTG
24764775 AATTTTTTTTATTTTAA
1 AATTTTTTTT-TTTTAA
*
24764792 AATTTTATTTTTATTAA
1 AATTTT-TTTTTTTTAA
24764809 AATTTTTATTTTTTTAA
1 AATTTTT-TTTTTTTAA
24764826 TTTTTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 1 0.03
17 25 0.83
18 4 0.13
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
AATTTTTTTTTTTTAA
Found at i:24764831 original size:17 final size:18
Alignment explanation
Indices: 24764775--24764834 Score: 67
Period size: 16 Copynumber: 3.6 Consensus size: 18
24764765 AGTTTTTGTG
24764775 AATTTTT-TTTATT-TTAA
1 AATTTTTATTT-TTATTAA
24764792 AA-TTTTATTTTTATTAA
1 AATTTTTATTTTTATTAA
24764809 AATTTTTATTTTT-TT-A
1 AATTTTTATTTTTATTAA
*
24764825 ATTTTTTATT
1 AATTTTTATT
24764835 AAAATTTTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
16 16 0.41
17 13 0.33
18 10 0.26
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
AATTTTTATTTTTATTAA
Found at i:24764839 original size:28 final size:30
Alignment explanation
Indices: 24764798--24764860 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
24764788 TTAAAATTTT
24764798 ATTTTTATTAAAATTTTT-A-TTTTTTTAA
1 ATTTTTATTAAAATTTTTGAGTTTTTTTAA
*
24764826 TTTTTTATTAAAATTTTTGAGTTTTTTTAA
1 ATTTTTATTAAAATTTTTGAGTTTTTTTAA
24764856 ATTTT
1 ATTTT
24764861 ATAATTCTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 17 0.55
29 1 0.03
30 13 0.42
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (30 bp):
ATTTTTATTAAAATTTTTGAGTTTTTTTAA
Found at i:24764888 original size:37 final size:37
Alignment explanation
Indices: 24764835--24764934 Score: 125
Period size: 37 Copynumber: 2.7 Consensus size: 37
24764825 ATTTTTTATT
*
24764835 AAAAT-TTTT-GAGTTTTTTTAAATTTTATAATTCTTC
1 AAAATATTTTAGA-TTTTTTTAAATTTTATAATTCTTA
* *
24764871 AAAATATTTTAGATTTTTTTAATTTTTATAATTTTTA
1 AAAATATTTTAGATTTTTTTAAATTTTATAATTCTTA
*
24764908 AAAATATTTCA-ATTTTTTTAGAATTTT
1 AAAATATTTTAGATTTTTTTA-AATTTT
24764935 TAACATTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
36 14 0.25
37 40 0.71
38 2 0.04
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (37 bp):
AAAATATTTTAGATTTTTTTAAATTTTATAATTCTTA
Found at i:24764927 original size:20 final size:21
Alignment explanation
Indices: 24764902--24764950 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
24764892 ATTTTTATAA
*
24764902 TTTTTAAAAATATTTCA-ATT
1 TTTTTAAAAATATTTAACATT
* *
24764922 TTTTT-AGAATTTTTAACATT
1 TTTTTAAAAATATTTAACATT
24764942 TTTTTAAAA
1 TTTTTAAAA
24764951 TTGTCTTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 8 0.35
20 13 0.57
21 2 0.09
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTTTAAAAATATTTAACATT
Found at i:24765601 original size:12 final size:11
Alignment explanation
Indices: 24765570--24765619 Score: 57
Period size: 12 Copynumber: 4.5 Consensus size: 11
24765560 AACTTTATTA
*
24765570 ATATAATACAT
1 ATATAATAAAT
24765581 ATAT-ATAAAT
1 ATATAATAAAT
24765591 ATATAATTAAAT
1 ATATAA-TAAAT
*
24765603 AGATAATAAAAT
1 ATATAAT-AAAT
24765615 ATATA
1 ATATA
24765620 CTTTTGAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
10 9 0.27
11 6 0.18
12 18 0.55
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (11 bp):
ATATAATAAAT
Found at i:24765879 original size:15 final size:14
Alignment explanation
Indices: 24765861--24765899 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
24765851 TAAAAAATAT
24765861 AAAAAACAAAAGCAA
1 AAAAAACAAAAG-AA
**
24765876 AAAAAATGAAAGAA
1 AAAAAACAAAAGAA
24765890 AAAAAACAAA
1 AAAAAACAAA
24765900 TATGGGTACT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.82, C:0.08, G:0.08, T:0.03
Consensus pattern (14 bp):
AAAAAACAAAAGAA
Found at i:24765894 original size:23 final size:22
Alignment explanation
Indices: 24765852--24765899 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
24765842 ATTTAATTTT
* *
24765852 AAAAAATATAAAAAACAAAAGC
1 AAAAAAAATAAAAAACAAAAAC
24765874 AAAAAAAATGAAAGAAA-AAAAAC
1 AAAAAAAAT-AAA-AAACAAAAAC
24765897 AAA
1 AAA
24765900 TATGGGTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 8 0.36
23 11 0.50
24 3 0.14
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.06
Consensus pattern (22 bp):
AAAAAAAATAAAAAACAAAAAC
Found at i:24766342 original size:3 final size:3
Alignment explanation
Indices: 24766327--24766418 Score: 76
Period size: 3 Copynumber: 33.3 Consensus size: 3
24766317 GACTCTGTTT
* * *
24766327 TTA TTA CTA TTA TTA TTA TT- TTA TTA GTA -TA TTA TTA -TA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
24766372 TTA -TA TTA TT- TATA TTA -TA TTA -TA TTA TTA TTA -TG TTA -TA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24766412 TTA TTA T
1 TTA TTA T
24766419 ATATATTAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
2 16 0.22
3 55 0.76
4 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:24766361 original size:16 final size:15
Alignment explanation
Indices: 24766334--24766425 Score: 66
Period size: 16 Copynumber: 5.9 Consensus size: 15
24766324 TTTTTATTAC
24766334 TATTAT-TATTATTT
1 TATTATATATTATTT
*
24766348 TATTAGTATATTATTA
1 TATTA-TATATTATTT
* *
24766364 TATTGT-TATTATAT
1 TATTATATATTATTT
24766378 TATT-TATATTATATT
1 TATTATATATTAT-TT
24766393 ATATTAT-TATTATGTT
1 -TATTATATATTAT-TT
24766409 ATATTATTATATATATT
1 -TATTA-TATAT-TATT
24766426 AAAGTATAGT
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
13 1 0.02
14 21 0.33
15 3 0.05
16 29 0.46
17 2 0.03
18 4 0.06
19 3 0.05
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTATATATTATTT
Found at i:24766361 original size:19 final size:19
Alignment explanation
Indices: 24766325--24766426 Score: 89
Period size: 19 Copynumber: 5.0 Consensus size: 19
24766315 AAGACTCTGT
*
24766325 TTTTATTACTATTATTATTA
1 TTTTATTATTA-TATTATTA
*
24766345 TTTTATTAGTATATTATTA
1 TTTTATTATTATATTATTA
* *
24766364 TATTGTTATTATATTATTTA
1 TTTTATTATTATATTA-TTA
24766384 TATTATATTA-TATTATTATTA
1 T-TT-TATTATTA-TATTATTA
24766405 TGTTATATTATTATATATATTA
1 T-TT-TATTATTATAT-TATTA
24766427 AAGTATAGTA
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
19 21 0.30
20 14 0.20
21 18 0.26
22 16 0.23
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTATTATTATATTATTA
Found at i:24766396 original size:38 final size:39
Alignment explanation
Indices: 24766334--24766441 Score: 122
Period size: 38 Copynumber: 2.9 Consensus size: 39
24766324 TTTTTATTAC
24766334 TATTATTATTATTT-TA-T-TAGTATATTATTA-TATTGT
1 TATTATTATTATTTATATTATAGTATATTATTATTA-TGT
*
24766370 TATTA-TATTATTTATATTATATTATATTATTATTATGT
1 TATTATTATTATTTATATTATAGTATATTATTATTATGT
* * *
24766408 TA-TATTATTATATATATTAAAGTATAGTA-TATTA
1 TATTATTATTATTTATATTATAGTATATTATTATTA
24766442 ACATAGTACA
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
35 8 0.13
36 7 0.11
37 8 0.13
38 37 0.60
39 2 0.03
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (39 bp):
TATTATTATTATTTATATTATAGTATATTATTATTATGT
Found at i:24766479 original size:3 final size:3
Alignment explanation
Indices: 24766464--24766496 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
24766454 ATATTATATT
*
24766464 ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
24766497 TATTATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:24766549 original size:10 final size:9
Alignment explanation
Indices: 24766497--24766553 Score: 62
Period size: 9 Copynumber: 6.1 Consensus size: 9
24766487 AATAATAATA
*
24766497 TATTATTAT
1 TATTATTTT
*
24766506 TATTATTAT
1 TATTATTTT
24766515 TATTATCCTTT
1 TATTAT--TTT
24766526 TATTATTTT
1 TATTATTTT
24766535 T-TTATTTT
1 TATTATTTT
24766543 TCATTATTTT
1 T-ATTATTTT
24766553 T
1 T
24766554 TTTTTAATCT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
8 8 0.19
9 19 0.44
10 8 0.19
11 8 0.19
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (9 bp):
TATTATTTT
Found at i:24767338 original size:91 final size:91
Alignment explanation
Indices: 24767183--24767364 Score: 319
Period size: 91 Copynumber: 2.0 Consensus size: 91
24767173 AAAGAGAGAG
* * *
24767183 CAGGGTGTTTTTGAAACCAAAACGCAAGATGTGACTTTTATACTAACCCAACACGACGTCATTTT
1 CAGGGTGTTTTTGAAACCAAAACACAAGATGTAACTTTTATACTAACCAAACACGACGTCATTTT
24767248 GGACAATCTAAGGTCCACGCATAACC
66 GGACAATCTAAGGTCCACGCATAACC
24767274 CAGGGTGTTTTTGAAACCAAAACACAAGATGTAACTTTTATACTAACCAAACACGACGTCATTTT
1 CAGGGTGTTTTTGAAACCAAAACACAAGATGTAACTTTTATACTAACCAAACACGACGTCATTTT
* *
24767339 GGACAGTTTAAGGTCCACGCATAACC
66 GGACAATCTAAGGTCCACGCATAACC
24767365 TGTTCACCTG
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 86 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (91 bp):
CAGGGTGTTTTTGAAACCAAAACACAAGATGTAACTTTTATACTAACCAAACACGACGTCATTTT
GGACAATCTAAGGTCCACGCATAACC
Found at i:24767435 original size:17 final size:18
Alignment explanation
Indices: 24767413--24767456 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
24767403 TTTTTTATTT
*
24767413 TTTATTTTCTAATTTT-A
1 TTTATTTTATAATTTTAA
*
24767430 TTTATTTTATATTTTTAA
1 TTTATTTTATAATTTTAA
24767448 TTTATTTTA
1 TTTATTTTA
24767457 ATTTATTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTATTTTATAATTTTAA
Found at i:24767437 original size:23 final size:23
Alignment explanation
Indices: 24767401--24767471 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 23
24767391 CGAATTGTAG
*
24767401 TTTTTTTTATTTTTTATTTTCTAA
1 TTTTATTTA-TTTTTATTTTCTAA
24767425 TTTTATTTATTTTATATTTT-TAA
1 TTTTATTTATTTT-TATTTTCTAA
*
24767448 -TTTATTT-TAATTTATTTTC-AA
1 TTTTATTTAT-TTTTATTTTCTAA
24767469 TTT
1 TTT
24767472 CTTTTAGTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
21 9 0.22
22 11 0.27
23 7 0.17
24 14 0.34
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTATTTATTTTTATTTTCTAA
Found at i:24767453 original size:11 final size:11
Alignment explanation
Indices: 24767413--24767476 Score: 53
Period size: 11 Copynumber: 5.7 Consensus size: 11
24767403 TTTTTTATTT
24767413 TTTATTTTCTAA
1 TTTATTTT-TAA
24767425 TTTTATTTATT--
1 -TTTATTT-TTAA
24767436 TTATATTTTTAA
1 TT-TATTTTTAA
24767448 TTTA-TTTTAA
1 TTTATTTTTAA
*
24767458 TTTATTTTCAA
1 TTTATTTTTAA
*
24767469 TTTCTTTT
1 TTTATTTT
24767477 AGTTATTTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
10 14 0.32
11 19 0.43
12 2 0.05
13 8 0.18
14 1 0.02
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTATTTTTAA
Found at i:24767457 original size:10 final size:10
Alignment explanation
Indices: 24767424--24767477 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
24767414 TTATTTTCTA
24767424 ATTTT-ATTT
1 ATTTTAATTT
*
24767433 ATTTT-ATAT
1 ATTTTAATTT
24767442 -TTTTAATTT
1 ATTTTAATTT
24767451 ATTTTAATTT
1 ATTTTAATTT
24767461 ATTTTCAATTT
1 ATTTT-AATTT
*
24767472 CTTTTA
1 ATTTTA
24767478 GTTATTTCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
8 4 0.10
9 11 0.28
10 15 0.38
11 9 0.23
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (10 bp):
ATTTTAATTT
Found at i:24767510 original size:17 final size:18
Alignment explanation
Indices: 24767424--24767515 Score: 73
Period size: 18 Copynumber: 5.0 Consensus size: 18
24767414 TTATTTTCTA
*
24767424 ATTTTATTTATTTTATATT
1 ATTTAATTTATTTT-TATT
*
24767443 -TTTAATTTATTTTAATTT
1 ATTTAATTTATTTTTA-TT
*
24767461 ATTTTCAATTT-CTTTTAGTT
1 A-TTT-AATTTATTTTTA-TT
* *
24767481 ATTTCACTTATTTTTATT
1 ATTTAATTTATTTTTATT
24767499 ATTT-ATTTATTTTTATT
1 ATTTAATTTATTTTTATT
24767516 GAATATTTCA
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
17 13 0.22
18 23 0.39
19 8 0.14
20 10 0.17
21 5 0.08
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (18 bp):
ATTTAATTTATTTTTATT
Found at i:24769094 original size:15 final size:15
Alignment explanation
Indices: 24769074--24769108 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
24769064 GAAGAAAAAC
*
24769074 AAAAAAGTAAATA-G
1 AAAAAAATAAATATG
24769088 AAAAAAATAAATATG
1 AAAAAAATAAATATG
24769103 AAAAAA
1 AAAAAA
24769109 TGAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (15 bp):
AAAAAAATAAATATG
Found at i:24769233 original size:11 final size:10
Alignment explanation
Indices: 24769210--24769243 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
24769200 AAAAAAATAT
24769210 AAGAAAGAAAA
1 AAGAAA-AAAA
24769221 AAGTAAAAAAA
1 AAG-AAAAAAA
24769232 AAGAAAAAAA
1 AAGAAAAAAA
24769242 AA
1 AA
24769244 CACATGATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 10 0.45
12 3 0.14
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:24769235 original size:22 final size:23
Alignment explanation
Indices: 24769201--24769243 Score: 63
Period size: 21 Copynumber: 1.9 Consensus size: 23
24769191 ATTAAATATA
24769201 AAAAAATATAAGAAAGAAAAAAGT
1 AAAAAATATAAGAAA-AAAAAAGT
24769225 AAAAAA-A-AAGAAAAAAAAA
1 AAAAAATATAAGAAAAAAAAA
24769244 CACATGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
23 1 0.05
24 6 0.32
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (23 bp):
AAAAAATATAAGAAAAAAAAAGT
Found at i:24769424 original size:12 final size:13
Alignment explanation
Indices: 24769401--24769431 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
24769391 ATTAAATATT
24769401 TAAAAAAGTAAAA
1 TAAAAAAGTAAAA
24769414 TAAAAAA-TAAAA
1 TAAAAAAGTAAAA
24769426 TAAAAA
1 TAAAAA
24769432 CGCTAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (13 bp):
TAAAAAAGTAAAA
Found at i:24774244 original size:14 final size:16
Alignment explanation
Indices: 24774221--24774253 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
24774211 GCTCAATTTA
24774221 TTTTGCAAAAATAA-T
1 TTTTGCAAAAATAAGT
24774236 TTTTG-AAAAATAAGT
1 TTTTGCAAAAATAAGT
24774251 TTT
1 TTT
24774254 ACATTTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.45
Consensus pattern (16 bp):
TTTTGCAAAAATAAGT
Found at i:24774253 original size:15 final size:15
Alignment explanation
Indices: 24774221--24774253 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
24774211 GCTCAATTTA
24774221 TTTTGCAAAAATAAT
1 TTTTGCAAAAATAAT
*
24774236 TTTTG-AAAAATAAG
1 TTTTGCAAAAATAAT
24774250 TTTT
1 TTTT
24774254 ACATTTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.45
Consensus pattern (15 bp):
TTTTGCAAAAATAAT
Found at i:24774503 original size:18 final size:17
Alignment explanation
Indices: 24774438--24774848 Score: 187
Period size: 18 Copynumber: 24.6 Consensus size: 17
24774428 AATTTTGCTT
24774438 ATAAATAATATTAT-TA
1 ATAAATAATATTATATA
*
24774454 ATAAATAA-A-TAAATA
1 ATAAATAATATTATATA
* *
24774469 AT--ATTATATGAT-TA
1 ATAAATAATATTATATA
24774483 ATAAATAATATTATATGA
1 ATAAATAATATTATAT-A
*
24774501 ATAAATAATACTAT-TA
1 ATAAATAATATTATATA
24774517 ATAAATAATATTATAATATA
1 ATAAATAATA-T-T-ATATA
24774537 TTCATAAATAATATTATATTA
1 ---ATAAATAATATTATA-TA
* *
24774558 ATAAATCATA-TGT-TA
1 ATAAATAATATTATATA
*
24774573 ATAAATATTATTATA-A
1 ATAAATAATATTATATA
24774589 AT--A-AATATTATACTA
1 ATAAATAATATTATA-TA
* *
24774604 AT--ATATTAATAT-TA
1 ATAAATAATATTATATA
24774618 ATAAATAATATTATATAA
1 ATAAATAATATTATAT-A
*
24774636 ATAAATAATACTATAT-
1 ATAAATAATATTATATA
* *
24774652 -T-AATAA-ATCATATT
1 ATAAATAATATTATATA
24774666 AT-AAT-ATATTAT-TA
1 ATAAATAATATTATATA
*
24774680 ATAAATAGTATTATATTA
1 ATAAATAATATTATA-TA
24774698 A-AAATAATA-TA-ATA
1 ATAAATAATATTATATA
* *
24774712 ATAAATATTATTAATTTA
1 ATAAATAATATT-ATATA
*
24774730 ATTAATAAATATTATAATA
1 ATAAAT-AATATTAT-ATA
* * *
24774749 ATATATAAATAATATATT
1 ATAAAT-AATATTATATA
* * *
24774767 ATTAATGAATAATATACA
1 ATAAAT-AATATTATATA
24774785 ATTAATATAATA-TAT-TA
1 A-TAA-ATAATATTATATA
* * *
24774802 ATAAATATTGTTA-ACAA
1 ATAAATAATATTATA-TA
* *
24774819 ATAATATTATAATATATTA
1 ATAA-ATAATATTATA-TA
24774838 ATAAATAATAT
1 ATAAATAATAT
24774849 AAAGAATAAT
Statistics
Matches: 299, Mismatches: 52, Indels: 86
0.68 0.12 0.20
Matches are distributed among these distances:
13 16 0.05
14 24 0.08
15 44 0.15
16 60 0.20
17 20 0.07
18 81 0.27
19 33 0.11
20 7 0.02
21 3 0.01
22 1 0.00
23 10 0.03
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (17 bp):
ATAAATAATATTATATA
Found at i:24774547 original size:15 final size:14
Alignment explanation
Indices: 24774436--24774849 Score: 109
Period size: 15 Copynumber: 28.0 Consensus size: 14
24774426 ATAATTTTGC
24774436 TTATAAATAATATTA
1 TTATAAATAATA-TA
24774451 TTAATAAATAA-ATA
1 TT-ATAAATAATATA
* *
24774465 -AATAATATTATATGA
1 TTATAA-ATAATAT-A
24774480 TTAATAAATAATATTA
1 TT-ATAAATAATA-TA
24774496 TATGAATAAATAATACTA
1 T-T--ATAAATAATA-TA
24774514 TTAATAAAT-A-ATA
1 TT-ATAAATAATATA
24774527 TTAT-AAT-ATAT-
1 TTATAAATAATATA
*
24774538 TCATAAATAATATTATA
1 TTATAAAT-A-A-TATA
* *
24774555 TTAATAAATCATATG
1 TT-ATAAATAATATA
24774570 TTAATAAAT-AT-TA
1 TT-ATAAATAATATA
24774583 TTATAAATAA-ATA
1 TTATAAATAATATA
24774596 TTATACTAATATATTAATA
1 TTATA--AATA-A-T-ATA
24774615 TTAATAAATAATAT-
1 TT-ATAAATAATATA
24774629 TATATAAATAAATAATA
1 T-TATAAAT-AAT-ATA
*
24774646 CTATATTAATAAATCATA
1 -T-TATAAAT-AAT-ATA
24774664 TTAT-AAT-ATATTA
1 TTATAAATAATA-TA
24774677 TTAATAAATAGTATTATA
1 TT-ATAAATA--A-TATA
*
24774695 TTAAAAATAATATAA
1 TTATAAATAATAT-A
* *
24774710 TAATAAATATTATTAA
1 TTATAAATAATA-T-A
*
24774726 TT-TAATTAATAAATA
1 TTATAAATAAT--ATA
24774741 TTAT-AAT-A-ATA
1 TTATAAATAATATA
24774752 -TATAAATAATATA
1 TTATAAATAATATA
*
24774765 TTATTAATGAATA-A
1 TTATAAAT-AATATA
24774779 -TATACAATTAATATAA
1 TTATA-AA-TAATAT-A
*
24774795 TATATTAATAA-ATA
1 T-TATAAATAATATA
* * *
24774809 TTGTTAACAA-ATA
1 TTATAAATAATATA
* *
24774822 ATAT-TATAATATA
1 TTATAAATAATATA
24774835 TTAATAAATAATATA
1 TT-ATAAATAATATA
24774850 AAGAATAATA
Statistics
Matches: 311, Mismatches: 31, Indels: 114
0.68 0.07 0.25
Matches are distributed among these distances:
10 3 0.01
11 13 0.04
12 22 0.07
13 46 0.15
14 37 0.12
15 71 0.23
16 43 0.14
17 19 0.06
18 47 0.15
19 7 0.02
20 3 0.01
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (14 bp):
TTATAAATAATATA
Found at i:24774592 original size:135 final size:135
Alignment explanation
Indices: 24774438--24774829 Score: 444
Period size: 135 Copynumber: 2.9 Consensus size: 135
24774428 AATTTTGCTT
*
24774438 ATAAATAATATTATTAATAAATAAATA-AATAATATTATATGATTAATAAATAATATTATATGAA
1 ATAAATATTATTATTAATAAATAAATATAATAATATTATAT-ATTAATAAATAATATTATATGAA
* *
24774502 TAAATAATACTATTAATAAATAATATTAT-AATA-TATTCATAAATAATATTATATTAATAAATC
65 TAAATAATACTATTAATAAAT-ATATTATAAATATTATTAATAAATAATATTATATTAA-AAATA
**
24774565 ATATGTTA
128 ATATAATA
* * *
24774573 ATAAATATTATTATAAATAAATATTATACTAAT-ATATTA-ATATTAATAAATAATATTATATAA
1 ATAAATATTATTATTAATAAATA-AATA-TAATAATATTATATATTAATAAATAATATTATATGA
*
24774636 ATAAATAATACTATATTAATAAATCATATTATAATATATTATTAATAAATAGTATTATATTAAAA
64 ATAAATAATAC--TATTAATAAAT-ATATTATAA-ATATTATTAATAAATAATATTATATTAAAA
24774701 ATAATATAATA
125 ATAATATAATA
* * * *
24774712 ATAAATATTATTAATTTAATTAATAAATATTATAATA--ATATATAAATAATATATTATTA-ATG
1 ATAAATATTATT-A-TTAATAAATAAATATAATAATATTATATATTAATAA-ATAATATTATATG
* * *
24774774 AAT-AAT-ATACAATTAATATAATATATTAATAAATATTGTTAACAAATAATATTATA
63 AATAAATAATACTATTAATA-AATATATT-ATAAATATTATTAATAAATAATATTATA
24774830 ATATATTAAT
Statistics
Matches: 221, Mismatches: 21, Indels: 30
0.81 0.08 0.11
Matches are distributed among these distances:
135 86 0.39
136 12 0.05
137 28 0.13
138 8 0.04
139 42 0.19
140 37 0.17
141 8 0.04
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (135 bp):
ATAAATATTATTATTAATAAATAAATATAATAATATTATATATTAATAAATAATATTATATGAAT
AAATAATACTATTAATAAATATATTATAAATATTATTAATAAATAATATTATATTAAAAATAATA
TAATA
Found at i:24774622 original size:78 final size:79
Alignment explanation
Indices: 24774533--24774718 Score: 206
Period size: 81 Copynumber: 2.4 Consensus size: 79
24774523 AATATTATAA
* * * *
24774533 TATATTCATAAATAATATTATATTAATAAAT-CA-TATGTTAATAAAT-ATTATTATAA-ATAAA
1 TATATTAATAAATAATATTATATAAATAAATACACTATATTAATAAATCA-TATTATAATAT-AT
24774594 TATT-ATACTAATA-TAT
64 TATTAATA--AATAGTAT
*
24774610 TAATATTAATAAATAATATTATATAAATAAATAATACTATATTAATAAATCATATTATAATATAT
1 T-ATATTAATAAATAATATTATATAAATAAAT-ACACTATATTAATAAATCATATTATAATATAT
24774675 TATTAATAAATAGTAT
64 TATTAATAAATAGTAT
*
24774691 TATATTAA-AAATAATATAATAATAAATA
1 TATATTAATAAATAATATTAT-ATAAATA
24774719 TTATTAATTT
Statistics
Matches: 94, Mismatches: 6, Indels: 15
0.82 0.05 0.13
Matches are distributed among these distances:
77 1 0.01
78 28 0.30
79 11 0.12
80 19 0.20
81 29 0.31
82 6 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (79 bp):
TATATTAATAAATAATATTATATAAATAAATACACTATATTAATAAATCATATTATAATATATTA
TTAATAAATAGTAT
Found at i:24774740 original size:29 final size:32
Alignment explanation
Indices: 24774678--24774751 Score: 85
Period size: 37 Copynumber: 2.2 Consensus size: 32
24774668 AATATATTAT
24774678 TAATAAATAGTATTATATTAAAAATAATATAA
1 TAATAAATAGTATTATATTAAAAATAATATAA
* *
24774710 TAATAAATATTATTAATTTAATTAATAAATATTATAA
1 TAATAAATAGTATT-A--T-ATTAA-AAATAATATAA
24774747 TAATA
1 TAATA
24774752 TATAAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 13 0.37
33 1 0.03
35 1 0.03
36 5 0.14
37 15 0.43
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (32 bp):
TAATAAATAGTATTATATTAAAAATAATATAA
Found at i:24774802 original size:77 final size:77
Alignment explanation
Indices: 24774661--24774803 Score: 177
Period size: 77 Copynumber: 1.9 Consensus size: 77
24774651 TTAATAAATC
* * *
24774661 ATATTATAATATATTATTAATAAATAGTATTATATTAAAAATAATATAATAATAAATATTATTAA
1 ATATTATAATATATTATAAATAAATAGTATTATATGAAAAATAATACAATAATAAATATTATTAA
24774726 TTTAATTAATAA
66 TTTAATTAATAA
* *
24774738 ATATTATAATA-ATATATAAATAATATATTATTA-ATGAATAAT-ATACAATTAATATAATA-TA
1 ATATTATAATATAT-TATAAATAA-ATAGTATTATATGAAAAATAATACAA-TAATA-AATATTA
24774799 TTAAT
62 TTAAT
24774804 AAATATTGTT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
76 7 0.12
77 38 0.67
78 12 0.21
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (77 bp):
ATATTATAATATATTATAAATAAATAGTATTATATGAAAAATAATACAATAATAAATATTATTAA
TTTAATTAATAA
Found at i:24774843 original size:85 final size:88
Alignment explanation
Indices: 24774444--24774849 Score: 231
Period size: 94 Copynumber: 4.5 Consensus size: 88
24774434 GCTTATAAAT
* * *
24774444 AATATTATTAATAAATAAATAAATAATATTAT-ATGATTAATAAATAATAT-TATATGAATAAAT
1 AATATTATTAAT-AAT-AATAAATATTATAATAAT-A-T-ATAAATAATATAT-TATTAATAAAT
* *
24774507 AATACT--ATTAATAAATAATATTATAAT-
60 AATATTAAATTAA-AAATAATATAATAATA
* * * * *
24774534 -ATATTCATAAATAAT-AT-TATATTAATAAATCATATGTTAATAA-ATATTATT-ATAAATAAA
1 AATATT-ATTAATAATAATAAATATT-AT-AATAATATATAAATAATATATTATTAATAAAT-AA
* * *
24774594 TATTATACTAATATATTAATAT--TAATA
62 TATTAAATTAA-A-AATAATATAATAATA
* *
24774621 AATAATATTATATAAATAA-ATAATACTATATTAATAA-ATCATATTATAATATATTATTAATAA
1 AATATTATTA-AT-AATAATA-AATA-T-TA-TAATAATAT-ATA-AATAATATATTATTAATAA
* *
24774684 ATAGTATTATATTAAAAATAATATAATAATA
58 ATAATATTAAATTAAAAATAATATAATAATA
*
24774715 AATATTATTAATTTAATTAATAAATATTATAATAATATATAAATAATATATTATTAATGAATAAT
1 AATATTATTAA--TAA-TAATAAATATTATAATAATATATAAATAATATATTATTAATAAATAAT
* *
24774780 A-TACAATT-AATATAATATATTAATA
63 ATTA-AATTAAAAATAATATAATAATA
* *
24774805 AATATTGTTAA-CA-AAT-AATATTATAAT-ATATTAATAAATAATATA
1 AATATTATTAATAATAATAAATATTATAATAATA-T-ATAAATAATATA
24774850 AAGAATAATA
Statistics
Matches: 254, Mismatches: 29, Indels: 71
0.72 0.08 0.20
Matches are distributed among these distances:
83 3 0.01
84 18 0.07
85 25 0.10
86 15 0.06
87 15 0.06
88 16 0.06
89 13 0.05
90 33 0.13
91 30 0.12
92 23 0.09
93 12 0.05
94 36 0.14
95 14 0.06
96 1 0.00
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (88 bp):
AATATTATTAATAATAATAAATATTATAATAATATATAAATAATATATTATTAATAAATAATATT
AAATTAAAAATAATATAATAATA
Found at i:24774934 original size:17 final size:16
Alignment explanation
Indices: 24774896--24774970 Score: 62
Period size: 17 Copynumber: 4.6 Consensus size: 16
24774886 TAACATAATA
*
24774896 TTTTAATATTAAATAT
1 TTTTAATATTAATTAT
* *
24774912 TATTAAAATATAATTAT
1 TTTTAATAT-TAATTAT
*
24774929 TTTTAATATTAA-TAA
1 TTTTAATATTAATTAT
* * *
24774944 TTTTAATAATAAATAAA
1 TTTTAAT-ATTAATTAT
24774961 TTTTAATATT
1 TTTTAATATT
24774971 TTAATAGTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
15 9 0.19
16 16 0.34
17 22 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAATATTAATTAT
Found at i:24774934 original size:33 final size:32
Alignment explanation
Indices: 24774890--24774970 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 32
24774880 TTTCATTAAC
24774890 ATAATATTTTAATATTAA-ATATTATTAA-AATATA
1 ATAA-ATTTTAATATTAATA-ATT-TTAATAATA-A
* *
24774924 ATTATTTTTAATATTAATAATTTTAATAATAA
1 ATAAATTTTAATATTAATAATTTTAATAATAA
24774956 ATAAATTTTAATATT
1 ATAAATTTTAATATT
24774971 TTAATAGTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
32 18 0.44
33 19 0.46
34 4 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (32 bp):
ATAAATTTTAATATTAATAATTTTAATAATAA
Found at i:24776542 original size:67 final size:68
Alignment explanation
Indices: 24776433--24776564 Score: 221
Period size: 67 Copynumber: 2.0 Consensus size: 68
24776423 TTGCTTTGAA
* *
24776433 TAATTTTATTTATAAACTTTTTTTAGACATTGCTTGAGAAAGT-TTATTATTATTATTATTATTA
1 TAATTTTATTAATAAACTTTTTTTAGACATTGCTTAAGAAAGTATTATTATTATTATTATTATTA
24776497 GAC
66 GAC
* *
24776500 TAATTTTATTAATAAACTTTTTTTAGATATTGCTTAATAAAGTATTATTATTATTATTATTATTA
1 TAATTTTATTAATAAACTTTTTTTAGACATTGCTTAAGAAAGTATTATTATTATTATTATTATTA
24776565 TTATTATTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
67 39 0.65
68 21 0.35
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.54
Consensus pattern (68 bp):
TAATTTTATTAATAAACTTTTTTTAGACATTGCTTAAGAAAGTATTATTATTATTATTATTATTA
GAC
Found at i:24776550 original size:3 final size:3
Alignment explanation
Indices: 24776542--24776595 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
24776532 CTTAATAAAG
24776542 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
24776590 TAT TAT
1 TAT TAT
24776596 AGTTAAGCCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:24778848 original size:22 final size:21
Alignment explanation
Indices: 24778807--24778861 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
24778797 TGTGGATGTC
24778807 ATTTGTGTATTTATAATGTTT
1 ATTTGTGTATTTATAATGTTT
* *
24778828 ATTTGTGTCATTTGTAGTGTTT
1 ATTTGTGT-ATTTATAATGTTT
* *
24778850 ATTAGAGTATTT
1 ATTTGTGTATTT
24778862 CCTCACTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.22, C:0.02, G:0.18, T:0.58
Consensus pattern (21 bp):
ATTTGTGTATTTATAATGTTT
Found at i:24792270 original size:17 final size:16
Alignment explanation
Indices: 24792239--24792276 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
24792229 ATTCAACTAC
24792239 AATAAAAAATAAAATA
1 AATAAAAAATAAAATA
24792255 TAATACAAAAAT-AAATA
1 -AATA-AAAAATAAAATA
24792272 AATAA
1 AATAA
24792277 TTACTACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.05
16 4 0.20
17 9 0.45
18 6 0.30
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (16 bp):
AATAAAAAATAAAATA
Found at i:24809373 original size:2 final size:2
Alignment explanation
Indices: 24809366--24809415 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
24809356 CTTTTCGGTC
24809366 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
24809408 AG GG AG AG
1 AG AG AG AG
24809416 TAAGCAACAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24813090 original size:7 final size:8
Alignment explanation
Indices: 24813063--24813088 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
24813053 TAATTGTAAA
24813063 TTTATTTT
1 TTTATTTT
24813071 TTTATTTT
1 TTTATTTT
24813079 TTTATTTT
1 TTTATTTT
24813087 TT
1 TT
24813089 ATGTGTGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTATTTT
Found at i:24813136 original size:17 final size:18
Alignment explanation
Indices: 24813104--24813140 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
24813094 TGTGATTGTA
24813104 TTATAATTTTTGAAAATT
1 TTATAATTTTTGAAAATT
*
24813122 TTATGATTTTT-AAAATT
1 TTATAATTTTTGAAAATT
24813139 TT
1 TT
24813141 CTTGCTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TTATAATTTTTGAAAATT
Found at i:24815955 original size:23 final size:25
Alignment explanation
Indices: 24815929--24815979 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
24815919 TTAAGTTAAC
*
24815929 TATAATATGA-AT-ATTTTCGTAAT
1 TATAATAAGAGATCATTTTCGTAAT
*
24815952 TATAGTAAGAGATCATTTTCGTAAT
1 TATAATAAGAGATCATTTTCGTAAT
24815977 TAT
1 TAT
24815980 GGTTAGAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 8 0.33
24 2 0.08
25 14 0.58
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (25 bp):
TATAATAAGAGATCATTTTCGTAAT
Found at i:24816508 original size:25 final size:24
Alignment explanation
Indices: 24816474--24816520 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
24816464 ATATAATGGT
24816474 AATTTTATAATTATGGTGAGAGAA
1 AATTTTATAATTATGGTGAGAGAA
*
24816498 AATTTTCATAATTATGGTTAGAG
1 AATTTT-ATAATTATGGTGAGAG
24816521 GATATTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.40
Consensus pattern (24 bp):
AATTTTATAATTATGGTGAGAGAA
Found at i:24817017 original size:34 final size:34
Alignment explanation
Indices: 24816942--24817018 Score: 82
Period size: 34 Copynumber: 2.3 Consensus size: 34
24816932 AATTAAAAGT
* ** *
24816942 TACCAAAAATTTATTTTTGAACGCTTCTTCAATG
1 TACCAAAAATTCATTTTTGAAAACTTCTTCAATA
* * * *
24816976 TATCAAAAATTCATTTTTGAAAACTTTTTTACTA
1 TACCAAAAATTCATTTTTGAAAACTTCTTCAATA
24817010 TACCAAAAA
1 TACCAAAAA
24817019 AACATATTTT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.40
Consensus pattern (34 bp):
TACCAAAAATTCATTTTTGAAAACTTCTTCAATA
Found at i:24818284 original size:20 final size:21
Alignment explanation
Indices: 24818245--24818289 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
24818235 TTACATTATG
24818245 AAATAAAAAATAAAACTAAAA
1 AAATAAAAAATAAAACTAAAA
* *
24818266 AAATTAAAAAT-AAATTAAAA
1 AAATAAAAAATAAAACTAAAA
24818286 AAAT
1 AAAT
24818290 CAAATTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (21 bp):
AAATAAAAAATAAAACTAAAA
Done.