Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 307 of 343
Found at i:99890089 original size:11 final size:11
Alignment explanation
Indices: 99890073--99890097 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
99890063 AATATAGCTT
99890073 CTGAGGTTTGA
1 CTGAGGTTTGA
99890084 CTGAGGTTTGA
1 CTGAGGTTTGA
99890095 CTG
1 CTG
99890098 GTTGCTCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.12, G:0.36, T:0.36
Consensus pattern (11 bp):
CTGAGGTTTGA
Found at i:99896703 original size:25 final size:24
Alignment explanation
Indices: 99896667--99896714 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
99896657 AACTTCACAA
*
99896667 TTTTTCTTAATTTGGTATCTTAAT
1 TTTTTCTTAATTTAGTATCTTAAT
* *
99896691 TTTTTTTTCAATTTAGTATGTTAA
1 TTTTTCTT-AATTTAGTATCTTAA
99896715 CTTGATGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.23, C:0.06, G:0.08, T:0.62
Consensus pattern (24 bp):
TTTTTCTTAATTTAGTATCTTAAT
Found at i:99898350 original size:41 final size:41
Alignment explanation
Indices: 99898287--99898367 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
99898277 GATGGGGAGT
*
99898287 TTATTGTAATATCTTTCTATTT-AAGATTT-AGAGTTTTTGGG
1 TTATTGTAATATCTTTCAATTTAAAG-TTTAAGA-TTTTTGGG
* *
99898328 TTATTGTAATTTTTTTCAATTTAAAGTTTAAGATTTTTGG
1 TTATTGTAATATCTTTCAATTTAAAGTTTAAGATTTTTGG
99898368 TCGAATCTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 29 0.83
42 6 0.17
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.56
Consensus pattern (41 bp):
TTATTGTAATATCTTTCAATTTAAAGTTTAAGATTTTTGGG
Found at i:99898731 original size:28 final size:27
Alignment explanation
Indices: 99898667--99898731 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
99898657 ACACAAATTG
* *
99898667 AAAATATAATAAAAAGTGATTATATTA
1 AAAATAAAATAAAAAGTGAATATATTA
* *
99898694 AAATTGAAAATAAAATGTGAATATGATTA
1 AAAAT-AAAATAAAAAGTGAATAT-ATTA
99898723 AAAATAAAA
1 AAAATAAAA
99898732 AATATATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 4 0.13
28 19 0.61
29 8 0.26
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (27 bp):
AAAATAAAATAAAAAGTGAATATATTA
Found at i:99911056 original size:4 final size:4
Alignment explanation
Indices: 99911047--99911079 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
99911037 GTTTACACAT
99911047 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA T
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA T
99911080 ATCTTTGACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCTA
Found at i:99911314 original size:22 final size:22
Alignment explanation
Indices: 99911262--99911314 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
99911252 ATTGTTCTTG
* *
99911262 TGTTGTTGTTTTGCTATCATTT
1 TGTTGTTATATTGCTATCATTT
* *
99911284 TGCTATTATATTGCTA-CTATTT
1 TGTTGTTATATTGCTATC-ATTT
99911306 TGTTGTTAT
1 TGTTGTTAT
99911315 TGTTTAGATA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.15, C:0.09, G:0.15, T:0.60
Consensus pattern (22 bp):
TGTTGTTATATTGCTATCATTT
Found at i:99913683 original size:39 final size:39
Alignment explanation
Indices: 99913629--99913709 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
99913619 AAAAGGAAAA
99913629 ACTTAGAAGAAAGGTGAGATTCTTTGAAACCATAATAAT
1 ACTTAGAAGAAAGGTGAGATTCTTTGAAACCATAATAAT
99913668 ACTTAGAAGAAAGGTGAGATTCTTTGAAACCATAATAAT
1 ACTTAGAAGAAAGGTGAGATTCTTTGAAACCATAATAAT
99913707 ACT
1 ACT
99913710 AAAAATTGCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.28
Consensus pattern (39 bp):
ACTTAGAAGAAAGGTGAGATTCTTTGAAACCATAATAAT
Found at i:99918524 original size:13 final size:13
Alignment explanation
Indices: 99918506--99918531 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
99918496 AATATCTTTG
99918506 GTTTTTGTTGTTT
1 GTTTTTGTTGTTT
99918519 GTTTTTGTTGTTT
1 GTTTTTGTTGTTT
99918532 TTAATGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (13 bp):
GTTTTTGTTGTTT
Found at i:99920673 original size:11 final size:11
Alignment explanation
Indices: 99920659--99920699 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
99920649 TATTTTCTCC
99920659 CTATTTTGCTA
1 CTATTTTGCTA
*
99920670 CTATTTTACTA
1 CTATTTTGCTA
* *
99920681 TTATGTTGCTA
1 CTATTTTGCTA
99920692 CTATTTTG
1 CTATTTTG
99920700 TTGTTATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:99920924 original size:12 final size:12
Alignment explanation
Indices: 99920903--99920937 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
99920893 TATATATTTT
*
99920903 AAAATTATATAA
1 AAAATAATATAA
99920915 AAAATAATATAA
1 AAAATAATATAA
*
99920927 AAATTAATATA
1 AAAATAATATA
99920938 GGCAGGCCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:99926358 original size:20 final size:20
Alignment explanation
Indices: 99926320--99926390 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
99926310 CATGTTTACT
99926320 TTTCGTTTAACTC-TCATGAG
1 TTTCGTTTAACTCAT-ATGAG
99926340 CTTTCG-TTAACTCATATGAG
1 -TTTCGTTTAACTCATATGAG
*
99926360 TTTCAGTTTAAC-CATATTGGG
1 TTTC-GTTTAACTCATA-TGAG
99926381 TTTTCGTTTA
1 -TTTCGTTTA
99926391 GCTCTTTTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
19 4 0.09
20 17 0.39
21 19 0.43
22 4 0.09
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.46
Consensus pattern (20 bp):
TTTCGTTTAACTCATATGAG
Found at i:99926446 original size:42 final size:44
Alignment explanation
Indices: 99926364--99926460 Score: 103
Period size: 42 Copynumber: 2.3 Consensus size: 44
99926354 TATGAGTTTC
* * **
99926364 AGTTTAA-CCATATTGGGTTTTCGTTTAGCTCTTTTAAGCTT-T
1 AGTTTAACCCTTATTGGGTTTTCGTTTAGCCCTTACAAGCTTCT
* *
99926406 AGTTTAACCCTTA-TGGGTTTTTGTTTAGCCCTTACGAGCTTCT
1 AGTTTAACCCTTATTGGGTTTTCGTTTAGCCCTTACAAGCTTCT
*
99926449 A-TTCAACCCTTA
1 AGTTTAACCCTTA
99926461 CTGTTTTTCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 40 0.87
43 6 0.13
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (44 bp):
AGTTTAACCCTTATTGGGTTTTCGTTTAGCCCTTACAAGCTTCT
Found at i:99927813 original size:16 final size:14
Alignment explanation
Indices: 99927784--99927858 Score: 53
Period size: 16 Copynumber: 5.1 Consensus size: 14
99927774 GTTCATAATT
99927784 AAAGTTTTAAGGAG
1 AAAGTTTTAAGGAG
99927798 AAAGCTTTTGAAGGAG
1 AAAG-TTTT-AAGGAG
** * **
99927814 AGTGATCTT-AGTTG
1 AAAG-TTTTAAGGAG
99927828 AAAGTTTTAAGGAG
1 AAAGTTTTAAGGAG
99927842 AAAGCTTTTGAAGGAG
1 AAAG-TTTT-AAGGAG
99927858 A
1 A
99927859 GTGATCTTAG
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
13 3 0.07
14 16 0.36
15 8 0.18
16 18 0.40
ACGTcount: A:0.37, C:0.04, G:0.29, T:0.29
Consensus pattern (14 bp):
AAAGTTTTAAGGAG
Found at i:99927847 original size:44 final size:44
Alignment explanation
Indices: 99927784--99927873 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
99927774 GTTCATAATT
99927784 AAAGTTTTAAGGAGAAAGCTTTTGAAGGAGAGTGATCTTAGTTG
1 AAAGTTTTAAGGAGAAAGCTTTTGAAGGAGAGTGATCTTAGTTG
99927828 AAAGTTTTAAGGAGAAAGCTTTTGAAGGAGAGTGATCTTAGTTG
1 AAAGTTTTAAGGAGAAAGCTTTTGAAGGAGAGTGATCTTAGTTG
99927872 AA
1 AA
99927874 GTATAAGAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.31
Consensus pattern (44 bp):
AAAGTTTTAAGGAGAAAGCTTTTGAAGGAGAGTGATCTTAGTTG
Found at i:99942134 original size:3 final size:3
Alignment explanation
Indices: 99942126--99942166 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
99942116 AATTGAGTCT
99942126 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TT
99942167 TGAAATGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:99942830 original size:50 final size:50
Alignment explanation
Indices: 99942755--99942852 Score: 169
Period size: 50 Copynumber: 2.0 Consensus size: 50
99942745 AACCTAAAAA
*
99942755 TTTAAATACCCTAAAGCATATGATATCTTCTACTTTGGAGATTGAAGGAG
1 TTTAAATACCCTAAAGCATATGATATCTTCCACTTTGGAGATTGAAGGAG
**
99942805 TTTAAATATGCTAAAGCATATGATATCTTCCACTTTGGAGATTGAAGG
1 TTTAAATACCCTAAAGCATATGATATCTTCCACTTTGGAGATTGAAGG
99942853 GTTATGTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (50 bp):
TTTAAATACCCTAAAGCATATGATATCTTCCACTTTGGAGATTGAAGGAG
Found at i:99946263 original size:32 final size:29
Alignment explanation
Indices: 99946200--99946274 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
99946190 TTCATACTGT
* *
99946200 TTTATGTAAATATTGTTCTTTTAAATGTA
1 TTTATGTATATATTCTTCTTTTAAATGTA
* *
99946229 TTTATATGTATATATATCTTCTTTTGAATTTA
1 -TT-TATGTATATAT-TCTTCTTTTAAATGTA
99946261 TTTATGTATATATT
1 TTTATGTATATATT
99946275 ATTGTCATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 13 0.33
31 12 0.31
32 13 0.33
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.59
Consensus pattern (29 bp):
TTTATGTATATATTCTTCTTTTAAATGTA
Found at i:99952569 original size:24 final size:24
Alignment explanation
Indices: 99952541--99952589 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
99952531 CAAAGTTAAT
99952541 GAATGATTGGAGATTAATGGATGA
1 GAATGATTGGAGATTAATGGATGA
99952565 GAATGATTGGAGATTAATGGATGA
1 GAATGATTGGAGATTAATGGATGA
99952589 G
1 G
99952590 CTTGCAGTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.35, T:0.29
Consensus pattern (24 bp):
GAATGATTGGAGATTAATGGATGA
Found at i:99957293 original size:14 final size:14
Alignment explanation
Indices: 99957274--99957306 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
99957264 GCACGTTAAA
99957274 AAAAATATAAAA-AT
1 AAAAATA-AAAATAT
99957288 AAAAATAAAAATAT
1 AAAAATAAAAATAT
99957302 AAAAA
1 AAAAA
99957307 GTTCAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAAATAAAAATAT
Found at i:99959641 original size:5 final size:5
Alignment explanation
Indices: 99959616--99959663 Score: 52
Period size: 5 Copynumber: 10.6 Consensus size: 5
99959606 TTATTTGTCG
*
99959616 AATTG AATTA AA--A AATT- AATTA AATT- AATTA AATT- AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA AATTA AATTA AATTA AATTA AATTA
99959661 AAT
1 AAT
99959664 AAAAAATAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
3 3 0.08
4 12 0.32
5 22 0.59
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (5 bp):
AATTA
Found at i:99959642 original size:9 final size:9
Alignment explanation
Indices: 99959628--99959666 Score: 69
Period size: 9 Copynumber: 4.3 Consensus size: 9
99959618 TTGAATTAAA
99959628 AAATTAATT
1 AAATTAATT
99959637 AAATTAATT
1 AAATTAATT
99959646 AAATTAATT
1 AAATTAATT
*
99959655 AAATTAAAT
1 AAATTAATT
99959664 AAA
1 AAA
99959667 AAATAGATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
AAATTAATT
Found at i:99959651 original size:18 final size:18
Alignment explanation
Indices: 99959616--99959666 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
99959606 TTATTTGTCG
*
99959616 AATTGAATTAAA-AAATT
1 AATTAAATTAAATAAATT
*
99959633 AATTAAATTAATTAAATT
1 AATTAAATTAAATAAATT
99959651 AATTAAATTAAATAAA
1 AATTAAATTAAATAAA
99959667 AAATAGATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 10 0.33
18 20 0.67
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
AATTAAATTAAATAAATT
Found at i:99973276 original size:4 final size:4
Alignment explanation
Indices: 99973267--99973303 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
99973257 GATCATGCTG
99973267 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
99973304 TGCACGTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:99988575 original size:15 final size:15
Alignment explanation
Indices: 99988557--99988586 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
99988547 TATCTATTAT
99988557 CTATTTATTTTAAAA
1 CTATTTATTTTAAAA
99988572 CTATTTATTTTAAAA
1 CTATTTATTTTAAAA
99988587 TTTCGGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (15 bp):
CTATTTATTTTAAAA
Found at i:99988765 original size:22 final size:25
Alignment explanation
Indices: 99988716--99988763 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
99988706 TATATTATCT
99988716 TAAATATTTAATTAGATAATAAAAAA
1 TAAATATTTAATTA-ATAATAAAAAA
99988742 TAAATATTTAATT-A-AATAAAAA
1 TAAATATTTAATTAATAATAAAAA
99988764 TAGATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.36
24 1 0.05
26 13 0.59
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (25 bp):
TAAATATTTAATTAATAATAAAAAA
Found at i:99996680 original size:126 final size:126
Alignment explanation
Indices: 99996454--99996682 Score: 370
Period size: 126 Copynumber: 1.8 Consensus size: 126
99996444 GTTTTAGCCT
* *
99996454 TAAGAGGATATTCGAATATTCAATACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATCCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
* *
99996519 CTTCGAATTCTTTAAATACCGACTATTGCCTTTATTTTGAAATTTTTTTAGAGTGAACTGG
66 CTTCGAAGTCTTTAAATACCGACTATTGCCATTATTTTGAAATTTTTTTAGAGTGAACTGG
* * * *
99996580 TAAGAGGATATCCGAATATTCAAGACAAACAAAGAAAGTGAAACCCGGTACGTTAGGGTAGGATT
1 TAAGAGGATATCCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
99996645 CTTCGAAGTCTTTAAATACCGAAC-ATTGCCATTATTTT
66 CTTCGAAGTCTTTAAATACCG-ACTATTGCCATTATTTT
99996683 AAAAACAATT
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
126 92 0.98
127 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (126 bp):
TAAGAGGATATCCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAAGTCTTTAAATACCGACTATTGCCATTATTTTGAAATTTTTTTAGAGTGAACTGG
Found at i:99997231 original size:18 final size:18
Alignment explanation
Indices: 99997208--99997249 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
99997198 ATAATGCTAC
99997208 AATAACCA-TAAACATAAT
1 AATAACCATTAAA-ATAAT
*
99997226 AATAACGATTAAAATAAT
1 AATAACCATTAAAATAAT
99997244 AATAAC
1 AATAAC
99997250 AACAACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.24
Consensus pattern (18 bp):
AATAACCATTAAAATAAT
Found at i:99997274 original size:3 final size:3
Alignment explanation
Indices: 99997268--99997389 Score: 97
Period size: 3 Copynumber: 40.3 Consensus size: 3
99997258 AATAGAAGAC
* * *
99997268 AAT AAT AAT AAT -AT ATT AAT AAA AAT AAT AAT -AT AAA AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** ** *
99997314 AAT AAA AAT -AT GTT TCT AAT AAT AAT AAT AAAT CAAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT
*
99997360 AAAT ATAT AAA AAT AAT AAT AAT AAT AAT A
1 -AAT A-AT AAT AAT AAT AAT AAT AAT AAT A
99997390 TTATTATTAT
Statistics
Matches: 95, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
2 6 0.06
3 77 0.81
4 12 0.13
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:99997294 original size:17 final size:16
Alignment explanation
Indices: 99997268--99997389 Score: 83
Period size: 17 Copynumber: 7.6 Consensus size: 16
99997258 AATAGAAGAC
*
99997268 AATAATAATAATATATT
1 AATAAAAATAATA-ATT
99997285 AATAAAAATAATAA-T
1 AATAAAAATAATAATT
99997300 -ATAAAAATAATAA-T
1 AATAAAAATAATAATT
**
99997314 AATAAAAAT-ATGTTTCT
1 AATAAAAATAAT-AAT-T
* *
99997331 AATAATAATAATAAATC
1 AATAAAAATAAT-AATT
** *
99997348 AATAATGATAATAAAT
1 AATAAAAATAATAATT
99997364 ATATAAAAATAATAA-T
1 A-ATAAAAATAATAATT
*
99997380 AATAATAATA
1 AATAAAAATA
99997390 TTATTATTAT
Statistics
Matches: 85, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
14 16 0.19
15 17 0.20
16 6 0.07
17 43 0.51
18 3 0.04
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
AATAAAAATAATAATT
Found at i:99997296 original size:20 final size:20
Alignment explanation
Indices: 99997268--99997383 Score: 99
Period size: 20 Copynumber: 5.7 Consensus size: 20
99997258 AATAGAAGAC
99997268 AATAATAATAATATATTAAT
1 AATAATAATAATATATTAAT
* *
99997288 AAAAATAATAATATAAAAATAAT
1 AATAATAATAATAT---ATTAAT
* * **
99997311 AATAATAAAAATATGTTTCT
1 AATAATAATAATATATTAAT
* *
99997331 AATAATAATAATAAATCAAT
1 AATAATAATAATATATTAAT
* *
99997351 AATGATAATAA-ATATATAAA
1 AATAATAATAATATAT-TAAT
99997371 AATAATAATAATA
1 AATAATAATAATA
99997384 ATAATATTAT
Statistics
Matches: 72, Mismatches: 19, Indels: 9
0.72 0.19 0.09
Matches are distributed among these distances:
19 3 0.04
20 51 0.71
21 1 0.01
23 17 0.24
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AATAATAATAATATATTAAT
Found at i:99997377 original size:43 final size:43
Alignment explanation
Indices: 99997267--99997387 Score: 130
Period size: 40 Copynumber: 3.0 Consensus size: 43
99997257 AAATAGAAGA
*
99997267 CAATAATAATAATATAT-TAATAAAAATAATAAT-ATAA-AAAT
1 CAATAATAATAATAAATAT-ATAAAAATAATAATAATAATAAAT
* ***
99997308 -AATAATAATAA-AAATATGT--TTCTAATAATAATAATAAAT
1 CAATAATAATAATAAATATATAAAAATAATAATAATAATAAAT
*
99997347 CAATAATGATAATAAATATATAAAAATAATAATAATAATAA
1 CAATAATAATAATAAATATATAAAAATAATAATAATAATAA
99997388 TATTATTATT
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
37 7 0.11
38 4 0.06
39 8 0.13
40 22 0.35
41 7 0.11
43 15 0.24
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (43 bp):
CAATAATAATAATAAATATATAAAAATAATAATAATAATAAAT
Found at i:99997802 original size:24 final size:24
Alignment explanation
Indices: 99997770--99997819 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
99997760 TCTTTTTGTA
*
99997770 GGCAAGTGGGGTGATGGAGTTAGT
1 GGCAAGTGGGGTAATGGAGTTAGT
99997794 GGCAAGTGGGGTAATGGAGTTAGT
1 GGCAAGTGGGGTAATGGAGTTAGT
99997818 GG
1 GG
99997820 GATGGTTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.04, G:0.50, T:0.24
Consensus pattern (24 bp):
GGCAAGTGGGGTAATGGAGTTAGT
Found at i:99997831 original size:13 final size:13
Alignment explanation
Indices: 99997813--99997879 Score: 53
Period size: 13 Copynumber: 4.8 Consensus size: 13
99997803 GGTAATGGAG
*
99997813 TTAGTGGGATGGT
1 TTAGTGGGATGAT
*
99997826 TTAGTGGGGTGATGGAG
1 TTAGT--GG-GAT-GAT
*
99997843 TTAGTGGGGTGAT
1 TTAGTGGGATGAT
*
99997856 TTAGTGGGGTGAT
1 TTAGTGGGATGAT
*
99997869 TTAGTAGGATG
1 TTAGTGGGATG
99997880 TGGGGGTGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
13 29 0.66
14 2 0.05
15 4 0.09
16 3 0.07
17 6 0.14
ACGTcount: A:0.18, C:0.00, G:0.46, T:0.36
Consensus pattern (13 bp):
TTAGTGGGATGAT
Found at i:99997853 original size:17 final size:17
Alignment explanation
Indices: 99997798--99997855 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
99997788 GTTAGTGGCA
*
99997798 AGTGGGGTAATGGAGTT
1 AGTGGGGTGATGGAGTT
*
99997815 AGT--GG-GATGG-TTT
1 AGTGGGGTGATGGAGTT
99997828 AGTGGGGTGATGGAGTT
1 AGTGGGGTGATGGAGTT
99997845 AGTGGGGTGAT
1 AGTGGGGTGAT
99997856 TTAGTGGGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
13 5 0.15
14 4 0.12
15 4 0.12
16 5 0.15
17 16 0.47
ACGTcount: A:0.19, C:0.00, G:0.50, T:0.31
Consensus pattern (17 bp):
AGTGGGGTGATGGAGTT
Found at i:99997866 original size:30 final size:30
Alignment explanation
Indices: 99997798--99997868 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
99997788 GTTAGTGGCA
* *
99997798 AGTGGGGTAATGGAGTTAGTGGGATGGTTT
1 AGTGGGGTGATGGAGTTAGTGGGATGATTT
*
99997828 AGTGGGGTGATGGAGTTAGTGGGGTGATTT
1 AGTGGGGTGATGGAGTTAGTGGGATGATTT
99997858 AGTGGGGTGAT
1 AGTGGGGTGAT
99997869 TTAGTAGGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.18, C:0.00, G:0.49, T:0.32
Consensus pattern (30 bp):
AGTGGGGTGATGGAGTTAGTGGGATGATTT
Found at i:99998406 original size:133 final size:134
Alignment explanation
Indices: 99998166--99998474 Score: 428
Period size: 133 Copynumber: 2.3 Consensus size: 134
99998156 GATCTGTTGT
* *
99998166 AATTTGATCTGCTTTACTCCTGCTCAGTAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTAAAGATAAGATCTAGTA-GTTTAGCCTGCTCCACTCC
* * ** *
99998231 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGGTCCATTGTCGATACATGGAGATAAGA-TT
65 TGCTCAGTGAAGATAAGGCTGATGACTGAAATCTACTCCATTGCCGATACATGGAGATAAGACTT
99998295 -CATCAA
130 GC--CAA
* * **
99998301 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTA-TTTAGCCTGCTCCACTCCT
1 AATTTGATCTGCTTCACTCCTGCTCAGTAAAGATAAGATCTAGTAGTTTAGCCTGCTCCACTCCT
* *
99998365 GCTCAGTGAAGATAAGGCT-AGTGGCTGAAATCTACTCCATTGCCGTTACATGGAGATAAGACTT
66 GCTCAGTGAAGATAAGGCTGA-TGACTGAAATCTACTCCATTGCCGATACATGGAGATAAGACTT
99998429 GCCAA
130 GCCAA
*
99998434 AATTTGATTTGCTTCACTCCTGCTCAGTAAAGATAAGATCT
1 AATTTGATCTGCTTCACTCCTGCTCAGTAAAGATAAGATCT
99998475 GTCGAAATTT
Statistics
Matches: 153, Mismatches: 18, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
132 1 0.01
133 110 0.72
134 2 0.01
135 40 0.26
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (134 bp):
AATTTGATCTGCTTCACTCCTGCTCAGTAAAGATAAGATCTAGTAGTTTAGCCTGCTCCACTCCT
GCTCAGTGAAGATAAGGCTGATGACTGAAATCTACTCCATTGCCGATACATGGAGATAAGACTTG
CCAA
Found at i:99998621 original size:85 final size:85
Alignment explanation
Indices: 99998514--99999322 Score: 1394
Period size: 85 Copynumber: 9.6 Consensus size: 85
99998504 CAGTGGCATG
* * * *
99998514 AGATCTG-CAATTTTAGCTTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGACCTACTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
99998578 CACCACTGCTCGGCGAGCCC
66 CACCACTGCTCGGCGAGCCC
* *
99998598 AAATCTGTAAACTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
99998663 CACCACTGCTCGGCGAGCCC
66 CACCACTGCTCGGCGAGCCC
99998683 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
* *
99998748 CACCACTACTCGGTGAGCCC
66 CACCACTGCTCGGCGAGCCC
99998768 AGATCTGTAAATTTTAGCCTGTTA-CCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
* * *
99998832 CAGCACCGCTCGGTGAGCCC
66 CACCACTGCTCGGCGAGCCC
* * *
99998852 AAATCTGTAAATTTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTACTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
*
99998917 CACCACTGCTCGGTGAGCCC
66 CACCACTGCTCGGCGAGCCC
* *
99998937 AGATCTGTAAATTTTAGCCTGTTATCCTATTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
* *
99999002 TACCACTGCTCGGTGAGCCC
66 CACCACTGCTCGGCGAGCCC
*
99999022 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGTTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
99999087 CACCACTGCTCGGCGAGCCC
66 CACCACTGCTCGGCGAGCCC
*
99999107 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACTTGCTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
99999172 CACCACTGCTCGGCGAGCCC
66 CACCACTGCTCGGCGAGCCC
99999192 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
99999257 CACCACTGCTCGGCGAGCCC
66 CACCACTGCTCGGCGAGCCC
99999277 AGATCTGTAAATTTTAG-C--TTACCCTACTGCTTAGGGGGTTAAGGCG
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCG
99999323 TGTGGATTCA
Statistics
Matches: 691, Mismatches: 32, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
82 28 0.04
84 86 0.12
85 577 0.84
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (85 bp):
AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
CACCACTGCTCGGCGAGCCC
Found at i:100003647 original size:19 final size:20
Alignment explanation
Indices: 100003623--100003669 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
100003613 ATTTTTGAAT
* *
100003623 TAATGCACATG-ATGTGATG
1 TAATGCAAATGCATGGGATG
100003642 TAATGCAAATGCATGGGATG
1 TAATGCAAATGCATGGGATG
100003662 -AATGCAAA
1 TAATGCAAA
100003670 AGAAGACGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGGGATG
Found at i:100005219 original size:126 final size:126
Alignment explanation
Indices: 100004993--100005226 Score: 405
Period size: 126 Copynumber: 1.9 Consensus size: 126
100004983 GTTTTAGCCT
*
100004993 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATCCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
* * * *
100005058 CTTCGAATTCTTTAAATACCGACCATTGCCTTTATTTTGAAAATTTTTTAGAGTGAACTGG
66 CTTCGAAGTCTTTAAATACCGAACATTGCCATTATTTTAAAAATTTTTTAGAGTGAACTGG
* *
100005119 TAAGAGGATATCCGAATATTCAAGACAAATAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATCCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
100005184 CTTCGAAGTCTTTAAATACCGAACATTGCCATTATTTTAAAAA
66 CTTCGAAGTCTTTAAATACCGAACATTGCCATTATTTTAAAAA
100005227 CAATTGAGAA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 101 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.27
Consensus pattern (126 bp):
TAAGAGGATATCCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAAGTCTTTAAATACCGAACATTGCCATTATTTTAAAAATTTTTTAGAGTGAACTGG
Found at i:100005590 original size:2 final size:2
Alignment explanation
Indices: 100005580--100005611 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
100005570 ATATATGAAA
100005580 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
100005612 GATAAAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:100005780 original size:18 final size:18
Alignment explanation
Indices: 100005757--100005798 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
100005747 ATAATGCTAC
*
100005757 AATAACCA-TAAACATAGT
1 AATAACCATTAAA-ATAAT
*
100005775 AATAACGATTAAAATAAT
1 AATAACCATTAAAATAAT
100005793 AATAAC
1 AATAAC
100005799 AACAACAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.24
Consensus pattern (18 bp):
AATAACCATTAAAATAAT
Found at i:100005823 original size:3 final size:3
Alignment explanation
Indices: 100005817--100005968 Score: 82
Period size: 3 Copynumber: 50.7 Consensus size: 3
100005807 AATAGAAGAC
* * * *
100005817 AAT AAT AAT -AT ATT AAT AAA AAT AAT AAT -AT AAA AAT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** ** *
100005863 AAA AAT -AT GTT TCT AAT AAT AAT AAAT CAAT AAT GAT AAT AAAT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT -AAT A-AT
* * * *
100005911 ACAA AAT AAT AGT AAC AGT AAT AA- AAT AAGT -AT AAT AAT -AT AAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
100005955 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
100005969 CACTCTCCCC
Statistics
Matches: 112, Mismatches: 27, Indels: 20
0.70 0.17 0.13
Matches are distributed among these distances:
2 11 0.10
3 86 0.77
4 15 0.13
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:100005840 original size:14 final size:14
Alignment explanation
Indices: 100005817--100005870 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
100005807 AATAGAAGAC
* *
100005817 AATAATAATATATT
1 AATAAAAATATATA
100005831 AATAAAAATA-ATA
1 AATAAAAATATATA
*
100005844 ATATAAAAATAATAAA
1 A-ATAAAAAT-ATATA
100005860 AATAAAAATAT
1 AATAAAAATAT
100005871 GTTTCTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.09
14 19 0.56
15 9 0.26
16 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAAAAATATATA
Found at i:100005854 original size:20 final size:21
Alignment explanation
Indices: 100005817--100005864 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
100005807 AATAGAAGAC
**
100005817 AATAATAATATATTAATAA-A
1 AATAATAATATAAAAATAATA
100005837 AATAATAATATAAAAATAATA
1 AATAATAATATAAAAATAATA
100005858 AA-AATAA
1 AATAATAA
100005865 AAATATGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AATAATAATATAAAAATAATA
Found at i:100005896 original size:17 final size:16
Alignment explanation
Indices: 100005876--100005968 Score: 68
Period size: 17 Copynumber: 5.8 Consensus size: 16
100005866 AATATGTTTC
100005876 TAATAATAATAAATCAA
1 TAATAATAATAAAT-AA
*
100005893 TAATGATAATAAAT-A
1 TAATAATAATAAATAA
* *
100005908 T-ATACAAAAT-AATAG
1 TAATA-ATAATAAATAA
* *
100005923 TAACAGTAATAAAATAA
1 TAATAATAAT-AAATAA
100005940 GT-ATAATAATATAATAA
1 -TAATAATAATA-AATAA
100005957 TAATAATAATAA
1 TAATAATAATAA
100005969 CACTCTCCCC
Statistics
Matches: 58, Mismatches: 10, Indels: 17
0.68 0.12 0.20
Matches are distributed among these distances:
14 5 0.09
15 10 0.17
16 5 0.09
17 37 0.64
18 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (16 bp):
TAATAATAATAAATAA
Found at i:100006357 original size:24 final size:24
Alignment explanation
Indices: 100006325--100006374 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
100006315 TCTTTTTATA
*
100006325 GGCAAGTGGGGTGATGGAGTTAGT
1 GGCAAGTGGGGTAATGGAGTTAGT
100006349 GGCAAGTGGGGTAATGGAGTTAGT
1 GGCAAGTGGGGTAATGGAGTTAGT
100006373 GG
1 GG
100006375 GATGGTTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.04, G:0.50, T:0.24
Consensus pattern (24 bp):
GGCAAGTGGGGTAATGGAGTTAGT
Found at i:100006408 original size:17 final size:17
Alignment explanation
Indices: 100006353--100006410 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
100006343 GTTAGTGGCA
*
100006353 AGTGGGGTAATGGAGTT
1 AGTGGGGTGATGGAGTT
*
100006370 AGT--GG-GATGG-TTT
1 AGTGGGGTGATGGAGTT
*
100006383 ACTGGGGTGATGGAGTT
1 AGTGGGGTGATGGAGTT
100006400 AGTGGGGTGAT
1 AGTGGGGTGAT
100006411 TTAGTAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
13 4 0.12
14 4 0.12
15 4 0.12
16 5 0.16
17 15 0.47
ACGTcount: A:0.19, C:0.02, G:0.48, T:0.31
Consensus pattern (17 bp):
AGTGGGGTGATGGAGTT
Found at i:100006421 original size:30 final size:30
Alignment explanation
Indices: 100006357--100006421 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
100006347 GTGGCAAGTG
* * *
100006357 GGGTAATGGAGTTAGTGGGATGGTTTACTG
1 GGGTGATGGAGTTAGTGGGATGATTTACTA
* *
100006387 GGGTGATGGAGTTAGTGGGGTGATTTAGTA
1 GGGTGATGGAGTTAGTGGGATGATTTACTA
100006417 GGGTG
1 GGGTG
100006422 TGGGGGTGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.18, C:0.02, G:0.48, T:0.32
Consensus pattern (30 bp):
GGGTGATGGAGTTAGTGGGATGATTTACTA
Found at i:100007678 original size:41 final size:41
Alignment explanation
Indices: 100007617--100007708 Score: 175
Period size: 41 Copynumber: 2.2 Consensus size: 41
100007607 AAAATTTATA
100007617 TTTAATATAATAAAATATTTATTATATTTATGGTAGTGTTT
1 TTTAATATAATAAAATATTTATTATATTTATGGTAGTGTTT
*
100007658 TTTGATATAATAAAATATTTATTATATTTATGGTAGTGTTT
1 TTTAATATAATAAAATATTTATTATATTTATGGTAGTGTTT
100007699 TTTAATATAA
1 TTTAATATAA
100007709 ATATTATTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (41 bp):
TTTAATATAATAAAATATTTATTATATTTATGGTAGTGTTT
Found at i:100009840 original size:3 final size:3
Alignment explanation
Indices: 100009832--100010245 Score: 133
Period size: 3 Copynumber: 133.7 Consensus size: 3
100009822 GACAATAATT
* * ** *
100009832 TAA TAA TAA TAA TAA TAA CAA CAA TAA T-A TGT TGA TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
* * * ** * * * *
100009877 TAA -AA GGAA TAA AAA TAA TAG TAA CGA GAA TAT TAA CAA TAG TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * *
100009922 TAA TAA CGA TAA T-A TAAA TAC TAA TATA TACA TTAA AAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TA-A TA-A -TAA TAA TAA TAA TAA
* ** * *
100009970 TAG TAA TCG TAA TAA TGA TAA TAA TAA TACA TTAA TGA TAA TAA TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TA-A
** ** * * * * * *
100010018 TGT TAA TAA CGA TGA TAA T-A TAA AAA AAA TAA GAAA TAA TGA TACGC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TA--A
* * * * * * *
100010065 TAA CAA GAA TAG TAA TAA GTTAC TAGA -AGA TAG TAG TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA --TAA TA-A TA-A TAA TAA TAA TAA TAA TAA
100010113 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * *
100010161 TACA TTAA GTTA CAA TAG TAA -AG TAA TAA CAG TGA TAA TGA TAA T-A
1 TA-A -TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
100010207 TAT TAGA TAA TAA TAG TAA -AA TAA TAA GTAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TA
100010246 GATTAAATTG
Statistics
Matches: 299, Mismatches: 86, Indels: 52
0.68 0.20 0.12
Matches are distributed among these distances:
2 13 0.04
3 248 0.83
4 28 0.09
5 10 0.03
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:100013210 original size:47 final size:48
Alignment explanation
Indices: 100013107--100013229 Score: 158
Period size: 47 Copynumber: 2.6 Consensus size: 48
100013097 TTTTACTAAA
* * **
100013107 ATGCCATAACCCAGCTATGGTCTTACATCTTATACACATATCACACCG
1 ATGCCATATCCCAGATATGGTCTTACATCAAATACACATATCACACCG
* * *
100013155 ATGCCATATCCCAGATATGGTCTTACA-CAAATGCACTTATCACTCCG
1 ATGCCATATCCCAGATATGGTCTTACATCAAATACACATATCACACCG
* *
100013202 ATGCCATATCCCAGATATGATTTTACAT
1 ATGCCATATCCCAGATATGGTCTTACAT
100013230 GGAAATCACT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
47 40 0.62
48 25 0.38
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.29
Consensus pattern (48 bp):
ATGCCATATCCCAGATATGGTCTTACATCAAATACACATATCACACCG
Found at i:100013283 original size:31 final size:31
Alignment explanation
Indices: 100013248--100013400 Score: 245
Period size: 31 Copynumber: 5.0 Consensus size: 31
100013238 CTTGTCACTT
*
100013248 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
100013279 GTAGCCGAAGCTACCATTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
100013310 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
100013341 GTAGCCAAAGCTACCAC-TTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
100013371 GTAGCCAAAGCTACCACTTTTCACTTATCA
1 GTAGCCGAAGCTACCACTTTTCACTGATCA
100013401 TTTGTCCTTG
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
30 30 0.26
31 84 0.74
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:100013474 original size:57 final size:50
Alignment explanation
Indices: 100013440--100013601 Score: 233
Period size: 50 Copynumber: 3.3 Consensus size: 50
100013430 AGCTATCACT
* *
100013440 TATCACTT-TCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTT-TCACTTGTTCTTGATCAGATAAGTGTAGCCGAAGC
* *
100013490 TATCACTTATCACTTTCACTTGTTC---ATCAGTTAAGTGTAGCCGGAGC
1 TATCACTTATCACTTTCACTTGTTCTTGATCAGATAAGTGTAGCCGAAGC
* *
100013537 TATCACTTATCACTTTCACTTGTTCTTGATCAGATAAATGTAGCTGAAGC
1 TATCACTTATCACTTTCACTTGTTCTTGATCAGATAAGTGTAGCCGAAGC
100013587 TATCACTTATCACTT
1 TATCACTTATCACTT
100013602 GTTGCCATGG
Statistics
Matches: 100, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
47 45 0.45
50 49 0.49
51 6 0.06
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (50 bp):
TATCACTTATCACTTTCACTTGTTCTTGATCAGATAAGTGTAGCCGAAGC
Found at i:100013594 original size:97 final size:100
Alignment explanation
Indices: 100013411--100013601 Score: 280
Period size: 104 Copynumber: 1.9 Consensus size: 100
100013401 TTTGTCCTTG
*
100013411 ATCAGATAAGTGTAGTCGAAGCTATCACTTATCACTTTCACTTGTCATTTGTCCTTGATCAGATA
1 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTG----TTGTCCTTGATCAGATA
*
100013476 AGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTTC
62 AATGTAGCCGAAGCTATCACTTATCACTTTCACTTGTTC
* *
100013515 ATCAGTTAAGTGTAGCCGGAGCTATCACTTATCACTTTCACTTG-T-T-CTTGATCAGATAAATG
1 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTTGTCCTTGATCAGATAAATG
*
100013577 TAGCTGAAGCTATCACTTATCACTT
66 TAGCCGAAGCTATCACTTATCACTT
100013602 GTTGCCATGG
Statistics
Matches: 82, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
97 39 0.48
98 1 0.01
99 1 0.01
104 41 0.50
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (100 bp):
ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTTGTCCTTGATCAGATAAATG
TAGCCGAAGCTATCACTTATCACTTTCACTTGTTC
Found at i:100016795 original size:29 final size:28
Alignment explanation
Indices: 100016746--100016800 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
100016736 ACAATATATT
*
100016746 AAAAACATATGTAAAGCATA-TAAAACG
1 AAAAACATATGTAAAGAATATTAAAACG
*
100016773 AAAATACATATGTTAAATAATATTAAAA
1 AAAA-ACATATG-TAAAGAATATTAAAA
100016801 TATTTACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
28 7 0.30
29 7 0.30
30 5 0.22
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.25
Consensus pattern (28 bp):
AAAAACATATGTAAAGAATATTAAAACG
Found at i:100017268 original size:3 final size:3
Alignment explanation
Indices: 100017249--100017292 Score: 61
Period size: 3 Copynumber: 14.0 Consensus size: 3
100017239 GTATATGCAT
*
100017249 ATA ATA AAA ATA TATA ATA ATA TATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
100017293 TGAAAATACA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 31 0.84
4 6 0.16
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:100017270 original size:10 final size:10
Alignment explanation
Indices: 100017247--100017289 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
100017237 ATGTATATGC
*
100017247 ATATAATAAAA
1 ATAT-ATAATA
100017258 ATATATAATA
1 ATATATAATA
100017268 ATATATAATA
1 ATATATAATA
100017278 ATA-ATAATA
1 ATATATAATA
100017287 ATA
1 ATA
100017290 ATATGAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
9 9 0.29
10 18 0.58
11 4 0.13
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
ATATATAATA
Found at i:100017779 original size:24 final size:23
Alignment explanation
Indices: 100017750--100017801 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
100017740 TTTGTACCGT
*
100017750 GGAGAGAAAAAAAAGGAGAGAAGG
1 GGAGAGAAAAAAAAGAAGAG-AGG
** *
100017774 GGAGAGGGAAGAAAGAAGAGAGG
1 GGAGAGAAAAAAAAGAAGAGAGG
100017797 GGAGA
1 GGAGA
100017802 AGAGGGAGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (23 bp):
GGAGAGAAAAAAAAGAAGAGAGG
Found at i:100019284 original size:72 final size:72
Alignment explanation
Indices: 100019186--100019351 Score: 187
Period size: 72 Copynumber: 2.3 Consensus size: 72
100019176 TGAAACTTAA
** * ** *
100019186 TTTGAAAAGCAGATTTTGAAAATACCTTAAT-G-AGTCTTGAGGCTCAACTCATTTCTCGCAATA
1 TTTGAAAAGCAGAAATTGAAAATACC-TAATCGTA-TCCTGAGGCTCAACTCACCTCTAGCAATA
100019249 TGAGTTGAAT
64 TGAGTTG-AT
* *
100019259 TTTGAAAA-CAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATG
1 TTTGAAAAGCAGAAATTGAAAATACCTAATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATG
100019323 AGTTGAT
66 AGTTGAT
*
100019330 TTTGAAAAAGCAGGAATT-AAAA
1 TTTG-AAAAGCAGAAATTGAAAA
100019352 GGTTCAACCC
Statistics
Matches: 79, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
71 9 0.11
72 54 0.68
73 16 0.20
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (72 bp):
TTTGAAAAGCAGAAATTGAAAATACCTAATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATG
AGTTGAT
Found at i:100019426 original size:127 final size:127
Alignment explanation
Indices: 100019239--100020139 Score: 1623
Period size: 127 Copynumber: 7.1 Consensus size: 127
100019229 TCAACTCATT
100019239 TCTCGCAATATGAGTTGAATT-TTGA-AAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCT
1 TCTCGCAATATGAGTTG-ATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCT
*
100019302 CAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGCAGGAATTAAAAGGTTCAACCCACC
65 CAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
*
100019365 TCTCGCAATATGAGTTGATTCTTGACAGACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
1 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
100019430 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
66 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
100019492 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
1 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
*
100019557 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAA-CAGGAATTAAAAGGTTCAACCCACC
66 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
* *
100019618 TCTCGTAATATGAGTTGATTCTTGACAGACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
1 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
100019683 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
66 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
*
100019745 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCTTGAGGCTC
1 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
100019810 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
66 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
*
100019872 TCTCCCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
1 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
100019937 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
66 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
* *
100019999 TCTCCCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCTTGAGGCTC
1 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
* ** * *
100020064 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAA-CAAAAATGAAAAGGCTT-AACTCACC
66 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGG-TTCAACCCACC
100020125 TCTCGCAATATGAGT
1 TCTCGCAATATGAGT
100020140 CAATTTAAAA
Statistics
Matches: 752, Mismatches: 19, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
125 3 0.00
126 175 0.23
127 574 0.76
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (127 bp):
TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
Found at i:100019967 original size:380 final size:381
Alignment explanation
Indices: 100019239--100020139 Score: 1632
Period size: 380 Copynumber: 2.4 Consensus size: 381
100019229 TCAACTCATT
100019239 TCTCGCAATATGAGTTGAATT-TTGA-AAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCT
1 TCTCGCAATATGAGTTG-ATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCT
100019302 CAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGCAGGAATTAAAAGGTTCAACCCACCTC
65 CAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGCAGGAATTAAAAGGTTCAACCCACCTC
*
100019367 TCGCAATATGAGTTGATTCTTGACAGACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAA
130 TCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAA
*
100019432 CTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACCTCTCG
195 CTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACCTCTCC
100019497 CAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAACTC
260 CAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAACTC
100019562 ACCTCTAGCAATATGAGTTGATTTTGAAAAA-CAGGAATTAAAAGGTTCAACCCACC
325 ACCTCTAGCAATATGAGTTGATTTTGAAAAAGCAGGAATTAAAAGGTTCAACCCACC
* *
100019618 TCTCGTAATATGAGTTGATTCTTGACAGACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
1 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
*
100019683 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACCTCT
66 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGCAGGAATTAAAAGGTTCAACCCACCTCT
*
100019748 CGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCTTGAGGCTCAAC
131 CGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAAC
100019813 TCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACCTCTCCC
196 TCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACCTCTCCC
100019878 AATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAACTCA
261 AATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAACTCA
*
100019943 CCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
326 CCTCTAGCAATATGAGTTGATTTTGAAAAAGCAGGAATTAAAAGGTTCAACCCACC
* *
100019999 TCTCCCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCTTGAGGCTC
1 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
** * *
100020064 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAA-CAAAAATGAAAAGGCTT-AACTCACCTC
66 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGCAGGAATTAAAAGG-TTCAACCCACCTC
100020127 TCGCAATATGAGT
130 TCGCAATATGAGT
100020140 CAATTTAAAA
Statistics
Matches: 502, Mismatches: 16, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
378 3 0.01
379 20 0.04
380 356 0.71
381 123 0.25
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (381 bp):
TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGCAGGAATTAAAAGGTTCAACCCACCTCT
CGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAAC
TCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACCTCTCCC
AATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAACTCA
CCTCTAGCAATATGAGTTGATTTTGAAAAAGCAGGAATTAAAAGGTTCAACCCACC
Found at i:100030850 original size:22 final size:22
Alignment explanation
Indices: 100030822--100030867 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
100030812 ATGTATATGC
100030822 ATATAATAAAAATATATAA-AAT
1 ATATAATAAAAATA-ATAATAAT
*
100030844 ATATAATAATAATAATAATAAT
1 ATATAATAAAAATAATAATAAT
100030866 AT
1 AT
100030868 GAAAATACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
ATATAATAAAAATAATAATAAT
Found at i:100030854 original size:3 final size:3
Alignment explanation
Indices: 100030824--100030866 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
100030814 GTATATGCAT
*
100030824 ATA ATA AAA ATA TATA A-A ATA TATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
100030867 TGAAAATACA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 27 0.77
4 6 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:100031352 original size:24 final size:23
Alignment explanation
Indices: 100031323--100031374 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
100031313 TTTGTACCGT
*
100031323 GGAGAGAAAAAAAAGGAGAGAAGG
1 GGAGAGAAAAAAAAGAAGAG-AGG
** *
100031347 GGAGAGGGAAGAAAGAAGAGAGG
1 GGAGAGAAAAAAAAGAAGAGAGG
100031370 GGAGA
1 GGAGA
100031375 AGAGGGAGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (23 bp):
GGAGAGAAAAAAAAGAAGAGAGG
Found at i:100032083 original size:17 final size:17
Alignment explanation
Indices: 100032061--100032094 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
100032051 GACGGGTTAT
100032061 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTGGTTTAG
100032078 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTGGTTTAG
100032095 GGCCCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.41, T:0.53
Consensus pattern (17 bp):
TGGGTTGTTTGGTTTAG
Found at i:100034263 original size:14 final size:14
Alignment explanation
Indices: 100034232--100034275 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
100034222 TAATAGGGTG
100034232 TATTATAATTTAAA
1 TATTATAATTTAAA
* **
100034246 TATTTTAATTTATC
1 TATTATAATTTAAA
100034260 TATTATAATTTTAAA
1 TATTATAA-TTTAAA
100034275 T
1 T
100034276 TATCTTTATA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTATAATTTAAA
Found at i:100034291 original size:19 final size:19
Alignment explanation
Indices: 100034245--100034293 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
100034235 TATAATTTAA
*
100034245 ATATTTTAATTTATCTATT
1 ATATTTTAAATTATCTATT
100034264 ATAATTTTAAATTATCT-TT
1 AT-ATTTTAAATTATCTATT
100034283 ATATCTTTAAA
1 ATAT-TTTAAA
100034294 AAAAAAGCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 12 0.44
20 13 0.48
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATTTTAAATTATCTATT
Found at i:100040296 original size:14 final size:16
Alignment explanation
Indices: 100040265--100040299 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
100040255 TGAATTGATG
100040265 TTATTTTTACTATTTT
1 TTATTTTTACTATTTT
100040281 TTATTTTTA-T-TTTT
1 TTATTTTTACTATTTT
100040295 TTATT
1 TTATT
100040300 ATTCTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 1 0.05
16 9 0.47
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (16 bp):
TTATTTTTACTATTTT
Found at i:100047703 original size:18 final size:18
Alignment explanation
Indices: 100047680--100047731 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
100047670 TAAGTAAACC
*
100047680 ATTAATACAAATGATACA
1 ATTAATATAAATGATACA
*
100047698 ATTAATATAAA-CATTACA
1 ATTAATATAAATGA-TACA
*
100047716 AATAATATAAATGATA
1 ATTAATATAAATGATA
100047732 TGATAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.04
18 26 0.93
19 1 0.04
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.31
Consensus pattern (18 bp):
ATTAATATAAATGATACA
Found at i:100049603 original size:176 final size:176
Alignment explanation
Indices: 100049363--100050275 Score: 1459
Period size: 176 Copynumber: 5.2 Consensus size: 176
100049353 CTTCGATCTG
* ** * *
100049363 CTGCAACTTCAGGGAAATAAGATCTTCAATCTTCAGTCTGCTCCCTTGTTACCTCAGGAAGATAA
1 CTGCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAA
* * * * *
100049428 GACTCATTCTTCAACCTGTTCTCTTGCTACCTTAGAAAGATAAGGCTGGTGGTAAAATCTGCTCC
66 GACTTATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGTAAAATCTGCTCC
100049493 ATTGCCGATACATGGAGATAAGATTCACCATTTTCGATCTGCTCCA
131 ATTGCCGATACATGGAGATAAGATTCACCATTTTCGATCTGCTCCA
* *
100049539 CTGCAACTTCAGGGAGATAAGATCTTCAATCTTCAATCGGCTTTCTTGCTACCTCAGAAAGATAA
1 CTGCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAA
* * *
100049604 GACTCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGG-TGGGTGGTAAAATTTACTC
66 GACTTATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCT-GGTGGTAAAATCTGCTC
* *
100049668 CATTGTCGATACATGGAGATGAGATTCACCATTTTCGATCTGCTCCA
130 CATTGCCGATACATGGAGATAAGATTCACCATTTTCGATCTGCTCCA
* *
100049715 CTGTAACTTCAGGGAGATAAGATCTTCAATCTTCAGTTTGCTTTCTTGCTACCTCAGAAAGATAA
1 CTGCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAA
*
100049780 GACTTATTCTTCAACCTGCTCTCTTGCTACTTCAGAGAGATGAGGCTGGTGGTAAAATCTGCTCC
66 GACTTATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGTAAAATCTGCTCC
* * *
100049845 ATTGCTGATACATGAAGATAAGATTCACCATTTTCGATCTGCTTCA
131 ATTGCCGATACATGGAGATAAGATTCACCATTTTCGATCTGCTCCA
100049891 CTGCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAA
1 CTGCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAA
*
100049956 GACTTATTCTTCAACCTGCTCTCTTGCTACCTCAAAGAGATGAGGCTGGTGGTAAAATCTGCTCC
66 GACTTATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGTAAAATCTGCTCC
* **
100050021 ATTGCGGATACATGGAGATAAGATTCACCATTTTTTATCTGCTCCA
131 ATTGCCGATACATGGAGATAAGATTCACCATTTTCGATCTGCTCCA
* *
100050067 TTGCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGTTTTCTTGCTACCTCAGAAAGATAA
1 CTGCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAA
* * * *
100050132 GACTTATTCTTCAACTTGCTTTCTTGCTACCTCAGAGAGATGAGGCTAGTGGTAAAATTTGCTCC
66 GACTTATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGTAAAATCTGCTCC
* * * *
100050197 ATTGTCGATACATGGGGATAAGATTCACCATTTTTGATCTACTCCA
131 ATTGCCGATACATGGAGATAAGATTCACCATTTTCGATCTGCTCCA
* *
100050243 CTACAACTTCAGGGAGATAAAATCTTCAATCTT
1 CTGCAACTTCAGGGAGATAAGATCTTCAATCTT
100050276 TACTAATGTC
Statistics
Matches: 683, Mismatches: 52, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
175 1 0.00
176 681 1.00
177 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (176 bp):
CTGCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAA
GACTTATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGTAAAATCTGCTCC
ATTGCCGATACATGGAGATAAGATTCACCATTTTCGATCTGCTCCA
Found at i:100049629 original size:43 final size:45
Alignment explanation
Indices: 100049553--100049644 Score: 125
Period size: 43 Copynumber: 2.1 Consensus size: 45
100049543 AACTTCAGGG
* *
100049553 AGATAAGATCTTCAATCTTCAATCGGCTTTCTTGCTACCTCAGAA
1 AGATAAGATCTTCAATCTTCAACCGGCTCTCTTGCTACCTCAGAA
* * *
100049598 AGATAAGA-C-TCATTCTTCAACCTGCTCTCTTGCTACCTCAGAG
1 AGATAAGATCTTCAATCTTCAACCGGCTCTCTTGCTACCTCAGAA
100049641 AGAT
1 AGAT
100049645 GAGGTGGGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 33 0.79
44 1 0.02
45 8 0.19
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCGGCTCTCTTGCTACCTCAGAA
Found at i:100049805 original size:43 final size:43
Alignment explanation
Indices: 100049729--100049989 Score: 131
Period size: 43 Copynumber: 5.9 Consensus size: 43
100049719 AACTTCAGGG
* * * *
100049729 AGATAAGATCTTCAATCTTCAGTTTGCTTTCTTGCTACCTCAGAA
1 AGATAAGA-CTT-ATTCTTCAATCTGCTCTCTTGCTACCTCAGAA
* * *
100049774 AGATAAGACTTATTCTTCAACCTGCTCTCTTGCTACTTCAGAG
1 AGATAAGACTTATTCTTCAATCTGCTCTCTTGCTACCTCAGAA
* * ** ** **
100049817 AGATGAGGCTGGTGGTAAAATCTGCTC-CATTGCTGA--TACATG-A
1 AGATAAGACTTATTCTTCAATCTGCTCTC-TTGCT-ACCT-CA-GAA
* * * * **
100049860 AGATAAGA-TTCACCATT-TTCGATCTGCT-TCACTGCAACTTCAGGG
1 AGATAAGACTT----ATTCTTCAATCTGCTCTC-TTGCTACCTCAGAA
* * *
100049905 AGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAA
1 AGATAAGA-CTT-ATTCTTCAATCTGCTCTCTTGCTACCTCAGAA
*
100049950 AGATAAGACTTATTCTTCAACCTGCTCTCTTGCTACCTCA
1 AGATAAGACTTATTCTTCAATCTGCTCTCTTGCTACCTCA
100049990 AAGAGATGAG
Statistics
Matches: 160, Mismatches: 40, Indels: 34
0.68 0.17 0.15
Matches are distributed among these distances:
42 3 0.02
43 81 0.51
44 13 0.08
45 57 0.36
46 4 0.03
47 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (43 bp):
AGATAAGACTTATTCTTCAATCTGCTCTCTTGCTACCTCAGAA
Found at i:100050321 original size:16 final size:16
Alignment explanation
Indices: 100050292--100050330 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
100050282 TGTCGCTACA
*
100050292 CTGTCTTCTAGGGAAC
1 CTGTCCTCTAGGGAAC
* *
100050308 CTGTCCTCTGGGGATC
1 CTGTCCTCTAGGGAAC
100050324 CTGTCCT
1 CTGTCCT
100050331 GTAGACTCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.10, C:0.31, G:0.26, T:0.33
Consensus pattern (16 bp):
CTGTCCTCTAGGGAAC
Found at i:100056293 original size:43 final size:43
Alignment explanation
Indices: 100056232--100056319 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
100056222 CATCATTGAA
100056232 AAAGATGAAGTTGTCTGCACTTATGTTATCAACCAATCGATCC
1 AAAGATGAAGTTGTCTGCACTTATGTTATCAACCAATCGATCC
* *
100056275 AAAGATGAAGTTGTCTGCACTTATGTTGTCAGCCAATCGATCC
1 AAAGATGAAGTTGTCTGCACTTATGTTATCAACCAATCGATCC
100056318 AA
1 AA
100056320 CTTATTAACG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (43 bp):
AAAGATGAAGTTGTCTGCACTTATGTTATCAACCAATCGATCC
Found at i:100058797 original size:19 final size:19
Alignment explanation
Indices: 100058773--100058812 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
100058763 TATGATCTTT
*
100058773 AATGCATATG-ATGTAATGC
1 AATGCAAATGCATG-AATGC
100058792 AATGCAAATGCATGAATGC
1 AATGCAAATGCATGAATGC
100058811 AA
1 AA
100058813 AGGAGGCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (19 bp):
AATGCAAATGCATGAATGC
Found at i:100061433 original size:22 final size:22
Alignment explanation
Indices: 100061405--100061448 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
100061395 ACAGGTATAG
100061405 CCACAGCGGTCATGCAATGTAA
1 CCACAGCGGTCATGCAATGTAA
100061427 CCACAGCGGTCATGCAATGTAA
1 CCACAGCGGTCATGCAATGTAA
100061449 TACAGTACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.18
Consensus pattern (22 bp):
CCACAGCGGTCATGCAATGTAA
Found at i:100062815 original size:41 final size:41
Alignment explanation
Indices: 100062759--100062892 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
100062749 CGTTTGCAAT
* *
100062759 AAAACGCCGCAAAAAACTGAGCAATAGCGGCGCTTTTGATC
1 AAAACGCCGCTAAAAACTGAGCAATAGCGGCGCTTTTGATA
* * * *
100062800 CAAACGCCGCTAAAAA-TAGAGTAATAGTGGCG-TTTTTAGTA
1 AAAACGCCGCTAAAAACT-GAGCAATAGCGGCGCTTTTGA-TA
* * *
100062841 AAAACGCAGCTAAAATCTGAACAATAGCGGCGCTTTTGA-A
1 AAAACGCCGCTAAAAACTGAGCAATAGCGGCGCTTTTGATA
100062881 AAAACGCCGCTA
1 AAAACGCCGCTA
100062893 TAGGTCGAGC
Statistics
Matches: 75, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
40 18 0.24
41 51 0.68
42 6 0.08
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACTGAGCAATAGCGGCGCTTTTGATA
Found at i:100062884 original size:40 final size:40
Alignment explanation
Indices: 100062743--100062892 Score: 135
Period size: 41 Copynumber: 3.7 Consensus size: 40
100062733 TATTATACAT
* *
100062743 TAGCGGCG--TTTGCAATAAAACGCCGCAAAAAACTGAGCAA
1 TAGCGGCGCTTTTG-AA-AAAACGCCGCTAAAATCTGAGCAA
** * *
100062783 TAGCGGCGCTTTTGATCCAAACGCCGCTAAAAAT-AGAGTAA
1 TAGCGGCGCTTTTGA-AAAAACGCCGCT-AAAATCTGAGCAA
* * * * *
100062824 TAGTGGCGTTTTTAGTAAAAACGCAGCTAAAATCTGAACAA
1 TAGCGGCGCTTTT-GAAAAAACGCCGCTAAAATCTGAGCAA
100062865 TAGCGGCGCTTTTGAAAAAACGCCGCTA
1 TAGCGGCGCTTTTGAAAAAACGCCGCTA
100062893 TAGGTCGAGC
Statistics
Matches: 85, Mismatches: 19, Indels: 12
0.73 0.16 0.10
Matches are distributed among these distances:
40 26 0.31
41 50 0.59
42 9 0.11
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (40 bp):
TAGCGGCGCTTTTGAAAAAACGCCGCTAAAATCTGAGCAA
Found at i:100063011 original size:36 final size:37
Alignment explanation
Indices: 100062963--100063075 Score: 156
Period size: 36 Copynumber: 3.0 Consensus size: 37
100062953 GCTTTTGGAA
* *
100062963 AAACGCCACTATAGATCGAGGTTTTAGCGGCGCTTTT
1 AAACGCCGCTATAGATCGAGGTTTTAGAGGCGCTTTT
100063000 -AACGCCGCTATAGATCGAGGTTTTAGAGGCGCTTTT
1 AAACGCCGCTATAGATCGAGGTTTTAGAGGCGCTTTT
* *
100063036 AAAAAACGCCGCTATAGATCTAGGTTTTAGTGGCGCTTTT
1 ---AAACGCCGCTATAGATCGAGGTTTTAGAGGCGCTTTT
100063076 GGGAAAACGT
Statistics
Matches: 68, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
36 34 0.50
40 34 0.50
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (37 bp):
AAACGCCGCTATAGATCGAGGTTTTAGAGGCGCTTTT
Found at i:100063052 original size:76 final size:78
Alignment explanation
Indices: 100062869--100063075 Score: 233
Period size: 76 Copynumber: 2.6 Consensus size: 78
100062859 GAACAATAGC
* * *
100062869 GGCGCTTTTGAAAAAACGCCGCTATAGGTCGAGCTTTTAGCGACGCTTTTTGAAAAACGCCGCTA
1 GGCGCTTTTGAAAAAACGCCGCTATAGATCGAGGTTTTAGCGGCGC-TTTT---AAACGCCGCTA
* * *
100062934 TTGCTCAATTTTTATCA
62 TAGATCAAGTTTTATCA
* *
100062951 -GCGCTTTTGGAAAAACGCCACTATAGATCGAGGTTTTAGCGGCGCTTTT-AACGCCGCTATAGA
1 GGCGCTTTTGAAAAAACGCCGCTATAGATCGAGGTTTTAGCGGCGCTTTTAAACGCCGCTATAGA
* *
100063014 TCGAGGTTTTA-GA
66 TC-AAGTTTTATCA
* *
100063027 GGCGCTTTT-AAAAAACGCCGCTATAGATCTAGGTTTTAGTGGCGCTTTT
1 GGCGCTTTTGAAAAAACGCCGCTATAGATCGAGGTTTTAGCGGCGCTTTT
100063076 GGGAAAACGT
Statistics
Matches: 109, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
76 51 0.47
77 14 0.13
80 4 0.04
81 40 0.37
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (78 bp):
GGCGCTTTTGAAAAAACGCCGCTATAGATCGAGGTTTTAGCGGCGCTTTTAAACGCCGCTATAGA
TCAAGTTTTATCA
Found at i:100063055 original size:40 final size:40
Alignment explanation
Indices: 100062869--100063075 Score: 201
Period size: 40 Copynumber: 5.2 Consensus size: 40
100062859 GAACAATAGC
* * *
100062869 GGCGCTTTTGAAAAAACGCCGCTATAGGTCGAGCTTTTAGC
1 GGCGCTTTT-AAAAAACGCCGCTATAGATCGAGGTTTTAGA
* * * * ** *
100062910 GACGCTTTTTGAAAAACGCCGCTATTGCTC-AATTTTTATCA
1 GGCGC-TTTTAAAAAACGCCGCTATAGATCGAGGTTTTA-GA
* * *
100062951 -GCGCTTTTGGAAAAACGCCACTATAGATCGAGGTTTTAGC
1 GGCGCTTTT-AAAAAACGCCGCTATAGATCGAGGTTTTAGA
100062991 GGCGCTTTT----AACGCCGCTATAGATCGAGGTTTTAGA
1 GGCGCTTTTAAAAAACGCCGCTATAGATCGAGGTTTTAGA
* *
100063027 GGCGCTTTTAAAAAACGCCGCTATAGATCTAGGTTTTAGT
1 GGCGCTTTTAAAAAACGCCGCTATAGATCGAGGTTTTAGA
100063067 GGCGCTTTT
1 GGCGCTTTT
100063076 GGGAAAACGT
Statistics
Matches: 137, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
36 34 0.25
39 4 0.03
40 60 0.44
41 35 0.26
42 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (40 bp):
GGCGCTTTTAAAAAACGCCGCTATAGATCGAGGTTTTAGA
Found at i:100063502 original size:21 final size:21
Alignment explanation
Indices: 100063456--100063507 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
100063446 TTAATTATCA
* *
100063456 TTATAGTTTAGGGTTTATGGT
1 TTATGGTTAAGGGTTTATGGT
*
100063477 ATATGGTTAAGGGTTTAAT-GT
1 TTATGGTTAAGGGTTT-ATGGT
100063498 TTATGAGTTA
1 TTATG-GTTA
100063508 CTATTTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (21 bp):
TTATGGTTAAGGGTTTATGGT
Found at i:100063570 original size:6 final size:7
Alignment explanation
Indices: 100063553--100063629 Score: 59
Period size: 7 Copynumber: 10.7 Consensus size: 7
100063543 TATGGTTTAT
100063553 GGGTTAA
1 GGGTTAA
100063560 GGGTT-A
1 GGGTTAA
100063566 GGGTTTAA
1 GGG-TTAA
**
100063574 GTTTTAGA
1 GGGTTA-A
*
100063582 GGGGTT-G
1 -GGGTTAA
100063589 GGGTTTAA
1 GGG-TTAA
* *
100063597 GGTTTAT
1 GGGTTAA
100063604 GGGTTAA
1 GGGTTAA
100063611 GGGTTAA
1 GGGTTAA
100063618 GGGTTAA
1 GGGTTAA
100063625 GGGTT
1 GGGTT
100063630 TATGTTTTAT
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
6 7 0.13
7 39 0.72
8 5 0.09
9 3 0.06
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.36
Consensus pattern (7 bp):
GGGTTAA
Found at i:100063652 original size:7 final size:7
Alignment explanation
Indices: 100063590--100063655 Score: 51
Period size: 7 Copynumber: 9.3 Consensus size: 7
100063580 GAGGGGTTGG
100063590 GGTTTAA
1 GGTTTAA
*
100063597 GGTTTAT
1 GGTTTAA
*
100063604 GGGTTAA
1 GGTTTAA
*
100063611 GGGTTAA
1 GGTTTAA
*
100063618 GGGTTAA
1 GGTTTAA
*
100063625 GGGTTTAT
1 -GGTTTAA
* *
100063633 GTTTTAT
1 GGTTTAA
*
100063640 GATTTAA
1 GGTTTAA
100063647 GGTTTAA
1 GGTTTAA
100063654 GG
1 GG
100063656 GTAAGAGGTT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
7 44 0.90
8 5 0.10
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.42
Consensus pattern (7 bp):
GGTTTAA
Found at i:100065830 original size:23 final size:24
Alignment explanation
Indices: 100065804--100065851 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
100065794 AGAGAACATC
100065804 TGTTAAATCAGATTAGGTGG-ATT
1 TGTTAAATCAGATTAGGTGGCATT
*
100065827 TGTTAAATCGGATTAGGTGGCATT
1 TGTTAAATCAGATTAGGTGGCATT
100065851 T
1 T
100065852 AAAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.27, C:0.06, G:0.27, T:0.40
Consensus pattern (24 bp):
TGTTAAATCAGATTAGGTGGCATT
Found at i:100068740 original size:12 final size:10
Alignment explanation
Indices: 100068714--100068738 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
100068704 TGTAATACTT
100068714 TGTGTCTCTG
1 TGTGTCTCTG
100068724 TGTGTCTCTG
1 TGTGTCTCTG
100068734 TGTGT
1 TGTGT
100068739 GTGTGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.32, T:0.52
Consensus pattern (10 bp):
TGTGTCTCTG
Found at i:100068955 original size:22 final size:23
Alignment explanation
Indices: 100068913--100068955 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
100068903 TTTCAAAAAT
*
100068913 TAAACATAATATAATATTTAACA
1 TAAAAATAATATAATATTTAACA
*
100068936 TAAAAATAA-ATATTATTTAA
1 TAAAAATAATATAATATTTAA
100068956 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAAAATAATATAATATTTAACA
Found at i:100069038 original size:43 final size:43
Alignment explanation
Indices: 100068990--100069131 Score: 212
Period size: 43 Copynumber: 3.3 Consensus size: 43
100068980 GTTTATGATT
* * *
100068990 TTTAGCGGCGTTTGTGAGAAAAGTGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCGGGAAAAGCGCCGCTAAAGGTCATGGTC
* *
100069033 TTTAGCGGTGTTTGCGGGAAAAGCGCCACTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCGGGAAAAGCGCCGCTAAAGGTCATGGTC
* * *
100069076 CTTAGCGGCGTTTGCGGGAAAAGCGCCGCTAAAAGTTATGGTC
1 TTTAGCGGCGTTTGCGGGAAAAGCGCCGCTAAAGGTCATGGTC
100069119 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
100069132 TTTTAAATAA
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGCGGGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:100069829 original size:36 final size:35
Alignment explanation
Indices: 100069765--100069842 Score: 84
Period size: 36 Copynumber: 2.2 Consensus size: 35
100069755 TAAGTAAACC
* * *
100069765 AATAATACAAATGATACAATTAATATAAACATTACA
1 AATAATACAAATGATACAATAAAAATAAA-ATTAAA
* ** *
100069801 AATAATATAAATGATATGATAAAAATAAATTTAAA
1 AATAATACAAATGATACAATAAAAATAAAATTAAA
100069836 AATAATA
1 AATAATA
100069843 ATTAATAAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
35 11 0.31
36 24 0.69
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (35 bp):
AATAATACAAATGATACAATAAAAATAAAATTAAA
Found at i:100071047 original size:29 final size:30
Alignment explanation
Indices: 100071005--100071072 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
100070995 GGGCCCAAGA
* * *
100071005 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TCAAAATTAGAAGGACTAATAGT
*
100071035 GTAAATATGAAAATTAGAAGGACTAATAGT
1 GTAAATATCAAAATTAGAAGGACTAATAGT
*
100071065 GCAAATAT
1 GTAAATAT
100071073 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAATTAGAAGGACTAATAGT
Found at i:100071072 original size:30 final size:29
Alignment explanation
Indices: 100071015--100071072 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
100071005 GTAAATACTC
* * * *
100071015 AAAATTTGAGGGATTAAAGTGTAAATATG
1 AAAATTAGAAGGACTAAAGTGCAAATATG
100071044 AAAATTAGAAGGACTAATAGTGCAAATAT
1 AAAATTAGAAGGACTAA-AGTGCAAATAT
100071073 TTTAAGGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.48, C:0.03, G:0.21, T:0.28
Consensus pattern (29 bp):
AAAATTAGAAGGACTAAAGTGCAAATATG
Found at i:100077452 original size:26 final size:26
Alignment explanation
Indices: 100077423--100077504 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
100077413 TAATAAAAAT
* *
100077423 TGATAATAGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
100077449 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
100077475 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
100077501 TGAT
1 TGAT
100077505 GGGCATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:100079142 original size:27 final size:27
Alignment explanation
Indices: 100079102--100079242 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 27
100079092 AGGAAGCGTC
*
100079102 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
100079129 CCGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
100079155 CCTGGTGGCTATGCCACAATTATCTAAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
100079183 CTGGTGGCTCTGCCAC-ATATATCT-ATT
1 CTGGTGGCTCTGCCACAAT-TATCTGA-T
100079210 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
100079237 CTGGTG
1 CTGGTG
100079243 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
26 11 0.11
27 83 0.84
28 5 0.05
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:100079189 original size:54 final size:54
Alignment explanation
Indices: 100079099--100079242 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
100079089 TGGAGGAAGC
* *
100079099 GTCCTGGTGGCTATGCCACAATTATCTGATCCGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
100079153 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
* * * *
100079207 ATTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCT-AATCTGGTG
100079243 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
Found at i:100079254 original size:81 final size:80
Alignment explanation
Indices: 100079102--100079259 Score: 198
Period size: 81 Copynumber: 2.0 Consensus size: 80
100079092 AGGAAGCGTC
*
100079102 CTGGTGGCTATGCCACAATTATCTGATCCGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCCGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
100079167 GCCACAATTATCTAAT
66 GCCACAA-TATCTAAT
* * *
100079183 CTGGTGGCTCTGCCAC-ATATATCT-ATTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGAC
1 CTGGTGGCTATGCCACAAT-TATCTGA-TCCGGTGGCTCTGCCACATATATCTGT-CCTGGTGAC
*
100079245 T-TCGTCACAATATCT
63 TAT-GCCACAATATCT
100079260 GGCAGCCTCG
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
80 17 0.25
81 51 0.75
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCCGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTAAT
Found at i:100080334 original size:28 final size:26
Alignment explanation
Indices: 100080228--100080341 Score: 90
Period size: 27 Copynumber: 4.3 Consensus size: 26
100080218 TTCTTAATGT
* * *
100080228 ATTATCATTACTATTATTTTTATTTTT
1 ATTATTATTACTATTATATTT-TTTTA
*
100080255 ATT-TT-TTACTATCATCATTTTTTTA
1 ATTATTATTACTATTAT-ATTTTTTTA
*
100080280 ATTATTATTATTATTAT-TTGTTGTTTA
1 ATTATTATTACTATTATATT-TT-TTTA
*
100080307 ATATATTATTACTATTGTATTTTATTTA
1 AT-TATTATTACTATTATATTTT-TTTA
*
100080335 TTTATTA
1 ATTATTA
100080342 CCACTTTTAT
Statistics
Matches: 70, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
25 18 0.26
26 8 0.11
27 22 0.31
28 20 0.29
29 2 0.03
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (26 bp):
ATTATTATTACTATTATATTTTTTTA
Found at i:100080526 original size:19 final size:18
Alignment explanation
Indices: 100080489--100080539 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
100080479 TACCATTGTT
*
100080489 ACTGTTATTATTA-TTATC
1 ACTGTTATTA-TACTCATC
100080507 ACTTGTTATTATACTCATC
1 AC-TGTTATTATACTCATC
*
100080526 ACTATTATTATACT
1 ACTGTTATTATACT
100080540 TTATTATTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.29, C:0.16, G:0.04, T:0.51
Consensus pattern (18 bp):
ACTGTTATTATACTCATC
Found at i:100080534 original size:3 final size:3
Alignment explanation
Indices: 100080528--100080602 Score: 50
Period size: 3 Copynumber: 26.0 Consensus size: 3
100080518 TACTCATCAC
* * *
100080528 TAT TAT TA- TAC T-T TAT TAT TGT TACT TAT TAT T-T TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * *
100080571 TAT TAT T-G TAT TCT TAC TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
100080603 ATTTCCTTTT
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
2 6 0.11
3 45 0.83
4 3 0.06
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:100080546 original size:13 final size:13
Alignment explanation
Indices: 100080528--100080576 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
100080518 TACTCATCAC
100080528 TATTATTATACTT
1 TATTATTATACTT
*
100080541 TATTATTGTTAC-T
1 TATTATT-ATACTT
*
100080554 TATTATTTTACTAT
1 TATTATTATACT-T
100080568 TATTATTAT
1 TATTATTAT
100080577 TGTATTCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 4 0.13
13 15 0.48
14 12 0.39
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (13 bp):
TATTATTATACTT
Found at i:100080590 original size:23 final size:22
Alignment explanation
Indices: 100080528--100080606 Score: 81
Period size: 23 Copynumber: 3.6 Consensus size: 22
100080518 TACTCATCAC
* * *
100080528 TATTATTATACTTTATTATTGT
1 TATTATTATATTTTACTATTAT
100080550 TACTTA-T-TATTTTACTATTAT
1 TA-TTATTATATTTTACTATTAT
*
100080571 TATTATTGTATTCTTACTATTAT
1 TATTATTATATT-TTACTATTAT
*
100080594 TGTTATTATATTT
1 TATTATTATATTT
100080607 CCTTTTTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
20 3 0.06
21 14 0.29
22 8 0.17
23 23 0.48
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (22 bp):
TATTATTATATTTTACTATTAT
Found at i:100080962 original size:3 final size:3
Alignment explanation
Indices: 100080764--100080942 Score: 68
Period size: 3 Copynumber: 59.0 Consensus size: 3
100080754 TAAATTTTAG
* * **
100080764 ATT ACTT ATT ATT -TGT ATT ATT GTT ATT ACT ATT -TGT ATTT ACC ATT
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT AT-T A-TT ATT ATT
* * * *
100080811 ATT ATT ACT ATT ATT -TT CACTT -TT ATT ACT ATT ACT ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT -A-TT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
100080856 -TCT -TT ATT ATT TTCT ATT ACT ATT ATT ATT ATT AAT ATA AAT ATT
1 AT-T ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
100080901 GA-T ATT CTT ATT ACT ACTT -TT ATT ATT ATT ATT AAT ATT ATT
1 -ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
100080943 GTTTTACCAC
Statistics
Matches: 127, Mismatches: 32, Indels: 34
0.66 0.17 0.18
Matches are distributed among these distances:
2 11 0.09
3 103 0.81
4 10 0.08
5 3 0.02
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:100083278 original size:38 final size:38
Alignment explanation
Indices: 100083188--100083318 Score: 129
Period size: 38 Copynumber: 3.4 Consensus size: 38
100083178 CCTCGAGTCA
* * * *
100083188 ATGAGACACTGGGTGTCATACTGTTACTTCGGATAGATTCG
1 ATGAGACACTGGGTATCA-ACT-TTACTTTGGCTAGA-CCG
** *
100083229 ATGAGGTACTGGGTACCAACTTTACTTTGGCTAGACCG
1 ATGAGACACTGGGTATCAACTTTACTTTGGCTAGACCG
* * *
100083267 ATGAGACACTGGGTATCAACTTTGCTTTGAACTA-TCCG
1 ATGAGACACTGGGTATCAACTTTACTTTG-GCTAGACCG
100083305 ATGAGACACTGGGT
1 ATGAGACACTGGGT
100083319 GCCATTCTGG
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
38 44 0.58
39 15 0.20
40 3 0.04
41 14 0.18
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (38 bp):
ATGAGACACTGGGTATCAACTTTACTTTGGCTAGACCG
Found at i:100083923 original size:24 final size:24
Alignment explanation
Indices: 100083896--100083942 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
100083886 AGATATAGAA
* *
100083896 ATGAAATTTATGAAATGGTTATTG
1 ATGAAATGTATGAAATGGATATTG
100083920 ATGAAATGTATGAAATGGATATT
1 ATGAAATGTATGAAATGGATATT
100083943 AATGTAGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.38
Consensus pattern (24 bp):
ATGAAATGTATGAAATGGATATTG
Found at i:100084827 original size:14 final size:15
Alignment explanation
Indices: 100084805--100084881 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
100084795 CAATCAAAAA
100084805 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
100084819 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
100084834 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
100084854 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
100084868 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
100084882 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:100084846 original size:20 final size:20
Alignment explanation
Indices: 100084821--100084860 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
100084811 AATATTTTCC
*
100084821 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
100084841 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
100084861 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:100084866 original size:34 final size:35
Alignment explanation
Indices: 100084809--100084875 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
100084799 CAAAAACCAG
*
100084809 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
100084844 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
100084876 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:100090053 original size:40 final size:40
Alignment explanation
Indices: 100089998--100090079 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
100089988 AAGTAATTTC
*
100089998 AGATGTCCTCTTAGTATCTGAGATAGATTAGAATCTCCTT
1 AGATGTCCTCTTAGTATCTGAGATAGATTAAAATCTCCTT
100090038 AGATGTCCTCTTAGTATCTGAGATAGATTAAAATCTCCTT
1 AGATGTCCTCTTAGTATCTGAGATAGATTAAAATCTCCTT
100090078 AG
1 AG
100090080 CATTGGTCAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (40 bp):
AGATGTCCTCTTAGTATCTGAGATAGATTAAAATCTCCTT
Found at i:100090924 original size:37 final size:37
Alignment explanation
Indices: 100090872--100090949 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
100090862 ACTAAAATTG
*
100090872 TAAAAGAAAAGACTCCATTCAAAACATGGTTTGGAAA
1 TAAAAGAAAAAACTCCATTCAAAACATGGTTTGGAAA
*
100090909 TAAAAGAAAAAACTCCTTTCAAAACATGGTTTGGAAA
1 TAAAAGAAAAAACTCCATTCAAAACATGGTTTGGAAA
100090946 TAAA
1 TAAA
100090950 CTCTATGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.50, C:0.13, G:0.14, T:0.23
Consensus pattern (37 bp):
TAAAAGAAAAAACTCCATTCAAAACATGGTTTGGAAA
Found at i:100096617 original size:46 final size:46
Alignment explanation
Indices: 100096567--100096742 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
100096557 TGGTTGAGCA
* *
100096567 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
100096613 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
100096660 TCCGAACCCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
100096706 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
100096743 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 59 0.56
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:100096723 original size:93 final size:93
Alignment explanation
Indices: 100096564--100096735 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
100096554 GGATGGTTGA
* * * *
100096564 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
100096629 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
100096657 GCATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCC-GAACTCGTTGAG
100096721 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
100096736 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:100099918 original size:46 final size:46
Alignment explanation
Indices: 100099851--100099943 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
100099841 AGTGTTCAAC
100099851 TTCCTCATTCAAATGCAAACAGCTGAAAACCACTTATCTAGAATCT
1 TTCCTCATTCAAATGCAAACAGCTGAAAACCACTTATCTAGAATCT
100099897 TTCCTCATTCAAATGCAAACAGCTGAAAACCACTTATCTAGAATCT
1 TTCCTCATTCAAATGCAAACAGCTGAAAACCACTTATCTAGAATCT
100099943 T
1 T
100099944 ACTTTAATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.29
Consensus pattern (46 bp):
TTCCTCATTCAAATGCAAACAGCTGAAAACCACTTATCTAGAATCT
Found at i:100107198 original size:17 final size:17
Alignment explanation
Indices: 100107172--100107236 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 17
100107162 AGCTCATTTG
*
100107172 AAGTTTTGAGCTCATCA
1 AAGTTGTGAGCTCATCA
*
100107189 AAGTTGTGAGCTCACCCA
1 AAGTTGTGAGCTCA-TCA
***
100107207 AAGACATGAGCTCATCA
1 AAGTTGTGAGCTCATCA
100107224 AAGTTG-GAGCTCA
1 AAGTTGTGAGCTCA
100107237 ACTTAAGTTG
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
16 7 0.18
17 18 0.47
18 13 0.34
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (17 bp):
AAGTTGTGAGCTCATCA
Found at i:100109508 original size:25 final size:25
Alignment explanation
Indices: 100109479--100109552 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
100109469 TTAGTGACTT
100109479 TGTTAATTTTATGAATTTCATGATG
1 TGTTAATTTTATGAATTTCATGATG
* * *
100109504 TGTT-ATTTCAT--ATGT-AT--TT
1 TGTTAATTTTATGAATTTCATGATG
100109523 TGTTAATTTTATGAATTTCATGATG
1 TGTTAATTTTATGAATTTCATGATG
100109548 TGTTA
1 TGTTA
100109553 TTTCATATGT
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
19 5 0.14
20 6 0.16
21 2 0.05
22 6 0.16
23 2 0.05
24 6 0.16
25 10 0.27
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.55
Consensus pattern (25 bp):
TGTTAATTTTATGAATTTCATGATG
Found at i:100109540 original size:44 final size:44
Alignment explanation
Indices: 100109477--100109565 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
100109467 TTTTAGTGAC
100109477 TTTGTTAATTTTATGAATTTCATGATGTGTTATTTCATATGTAT
1 TTTGTTAATTTTATGAATTTCATGATGTGTTATTTCATATGTAT
100109521 TTTGTTAATTTTATGAATTTCATGATGTGTTATTTCATATGTAT
1 TTTGTTAATTTTATGAATTTCATGATGTGTTATTTCATATGTAT
100109565 T
1 T
100109566 GATGATAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.25, C:0.04, G:0.13, T:0.57
Consensus pattern (44 bp):
TTTGTTAATTTTATGAATTTCATGATGTGTTATTTCATATGTAT
Found at i:100109758 original size:50 final size:51
Alignment explanation
Indices: 100109681--100109809 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
100109671 GACCATGGCA
*
100109681 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAATG
*
100109732 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAATG
* * *
100109782 ACAAATGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
100109810 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 48 0.67
51 24 0.33
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAATG
Found at i:100109825 original size:31 final size:31
Alignment explanation
Indices: 100109787--100109902 Score: 162
Period size: 31 Copynumber: 3.7 Consensus size: 31
100109777 AAATGACAAA
100109787 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* *
100109818 TGAAAAGTGGTAGCTCCGGCTACCTGATTAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* *
100109849 TGAAAAATGGTATC-TCTGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTC-GGCTACCTGATCAG
* *
100109880 TGAATAGTGGTAGCTTTGGCTAC
1 TGAAAAGTGGTAGCTTCGGCTAC
100109903 AAGTGACAAG
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.01
31 71 0.97
32 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
Found at i:100109990 original size:47 final size:46
Alignment explanation
Indices: 100109920--100110133 Score: 161
Period size: 47 Copynumber: 4.7 Consensus size: 46
100109910 AAGTGATTTC
* * *
100109920 CGTATAAGACCATATTTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
100109966 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * * * * *
100110013 CGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTA
1 CGTATAAGACCATATCTGGGATATGGCATCG--GTGAGATATATGA-TA
* * * *
100110062 CGTGTAAGACCATGGT-TGGGCTATGACATC-----GATATATGAATA
1 CGTATAAGACCAT-ATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * *
100110104 TGTATAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
100110134 ATTATGTGAA
Statistics
Matches: 139, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
42 33 0.24
43 1 0.01
46 27 0.19
47 40 0.29
48 11 0.08
49 27 0.19
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:100110082 original size:49 final size:48
Alignment explanation
Indices: 100110002--100110133 Score: 159
Period size: 49 Copynumber: 2.9 Consensus size: 48
100109992 GCATCAGTGA
* *
100110002 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATAT
* *
100110050 GATATGTGATTACGTGTAAGACCATGGTTGGGCTATGACATCGATATAT
1 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTATGACATCGATATAT
* *
100110099 GA-A--T-A-T-GTATAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATC
100110134 ATTATGTGAA
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
42 25 0.33
44 1 0.01
45 1 0.01
46 1 0.01
48 12 0.16
49 35 0.47
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.30
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATAT
Found at i:100110112 original size:42 final size:42
Alignment explanation
Indices: 100110066--100110160 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
100110056 TGATTACGTG
* * *
100110066 TAAGACCATGGTTGGGCTATGACATCGA-TATATGAATATGTA
1 TAAGACCATAGCTGGGCTATGACATC-ATTATATGAAGATGTA
* * *
100110108 TAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGATGTG
1 TAAGACCATAGCTGGGCTATGACATCATTATATGAAGATGTA
100110150 TAAGACCATAG
1 TAAGACCATAG
100110161 TTAAACTATG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 45 0.98
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (42 bp):
TAAGACCATAGCTGGGCTATGACATCATTATATGAAGATGTA
Found at i:100118110 original size:43 final size:43
Alignment explanation
Indices: 100118049--100118136 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
100118039 GTCTAGAGTG
100118049 TGTTTCATTTGGATGTAAAATCAACTTTCTTGAATGGAGAGCT
1 TGTTTCATTTGGATGTAAAATCAACTTTCTTGAATGGAGAGCT
100118092 TGTTTCATTTGGATGTAAAATCAACTTTCTTGAATGGAGAGCT
1 TGTTTCATTTGGATGTAAAATCAACTTTCTTGAATGGAGAGCT
100118135 TG
1 TG
100118137 AAAAAGATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (43 bp):
TGTTTCATTTGGATGTAAAATCAACTTTCTTGAATGGAGAGCT
Done.