Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 70 of 333
Found at i:21270444 original size:47 final size:47
Alignment explanation
Indices: 21270366--21270918 Score: 928
Period size: 47 Copynumber: 11.9 Consensus size: 47
21270356 CCCTTCGGGA
* * * * * *
21270366 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21270413 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21270460 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21270507 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21270554 CTTATCACATATATACACTTTCACA-TCATCACATCGG-CATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21270598 CTTATCACATATATAC-CTTTCACATTCATCACATCGGCCA-TAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21270643 C-TATCACATATATACACTTTCACATTCATCACATC-GCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21270687 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21270733 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21270780 CTTATCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21270826 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21270875 CTTATCACATATATACACTTTCACATTCATCACATCGGTCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
21270919 CGCCATACTA
Statistics
Matches: 482, Mismatches: 13, Indels: 22
0.93 0.03 0.04
Matches are distributed among these distances:
43 8 0.02
44 87 0.18
45 38 0.08
46 50 0.10
47 254 0.53
48 10 0.02
49 35 0.07
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21270814 original size:226 final size:232
Alignment explanation
Indices: 21270366--21270911 Score: 917
Period size: 226 Copynumber: 2.4 Consensus size: 232
21270356 CCCTTCGGGA
* * * * * *
21270366 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGG-CCTATCACATATATACAC
21270431 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
65 TTTCACATTCATCACATC-GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
21270496 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
129 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
21270561 CATATATACACTTTCACATCATCACATCGG-CATTA-GC
194 CATATATACACTTTCACATCATCACATCGGCCATTAGGC
21270598 CTTATCACATATATAC-CTTTCACATTCATCACATCGGCCA-TAGGCCTATCACATATATACACT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCTATCACATATATACACT
21270661 TTCACATTCATCACATCGCCATTA-GCC-TATCACATATATACACTTTCACATTCATCACATCGG
66 TTCACATTCATCACATCGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
21270724 CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
131 CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
21270789 TATATACAC-TTCACATTCATCACATCGGCCATTAGGC
196 TATATACACTTTCACA-TCATCACATCGGCCATTAGGC
* *
21270826 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAGGCC-TATCACATATATAC
21270891 ACTTTCACATTCATCACATCG
63 ACTTTCACATTCATCACATCG
21270912 GTCATTACGC
Statistics
Matches: 299, Mismatches: 7, Indels: 15
0.93 0.02 0.05
Matches are distributed among these distances:
225 6 0.02
226 122 0.41
227 8 0.03
228 16 0.05
229 35 0.12
230 11 0.04
231 45 0.15
232 21 0.07
233 35 0.12
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (232 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCTATCACATATATACACT
TTCACATTCATCACATCGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
TATATACACTTTCACATCATCACATCGGCCATTAGGC
Found at i:21290611 original size:13 final size:13
Alignment explanation
Indices: 21290593--21290625 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
21290583 GGTTGTTTAT
21290593 TAAACTAATTAAC
1 TAAACTAATTAAC
21290606 TAAACTAATTAAC
1 TAAACTAATTAAC
21290619 T-AACTAA
1 TAAACTAA
21290626 ACTAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:21298603 original size:21 final size:21
Alignment explanation
Indices: 21298578--21298651 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
21298568 GTTGTTGAGA
*
21298578 AGGAAGTTGCTACTGTAGAAG
1 AGGAAGTTGCTACTGAAGAAG
* * **
21298599 AGGAAGTTGTTTCCAAAGAAG
1 AGGAAGTTGCTACTGAAGAAG
* *
21298620 AGGAAGTTGTTGCTGAAGAAG
1 AGGAAGTTGCTACTGAAGAAG
*
21298641 AAGAAGTTGCT
1 AGGAAGTTGCT
21298652 GAAAATAAGA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.35, C:0.08, G:0.32, T:0.24
Consensus pattern (21 bp):
AGGAAGTTGCTACTGAAGAAG
Found at i:21299125 original size:16 final size:16
Alignment explanation
Indices: 21299106--21299138 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21299096 GATAAGTATA
21299106 TATTGCCATTACATTT
1 TATTGCCATTACATTT
*
21299122 TATTGTCATTACATTT
1 TATTGCCATTACATTT
21299138 T
1 T
21299139 CATGTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (16 bp):
TATTGCCATTACATTT
Found at i:21306590 original size:15 final size:15
Alignment explanation
Indices: 21306570--21306601 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
21306560 ACCGAGCTCA
21306570 AACCATAGTCTAGCC
1 AACCATAGTCTAGCC
21306585 AACCATAGTCTAGCC
1 AACCATAGTCTAGCC
21306600 AA
1 AA
21306602 ACCAAACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.31, G:0.12, T:0.19
Consensus pattern (15 bp):
AACCATAGTCTAGCC
Found at i:21314715 original size:15 final size:15
Alignment explanation
Indices: 21314695--21314726 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
21314685 ACCGAGCTCA
21314695 AACCATAGTCTAGCC
1 AACCATAGTCTAGCC
21314710 AACCATAGTCTAGCC
1 AACCATAGTCTAGCC
21314725 AA
1 AA
21314727 ACCAAACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.31, G:0.12, T:0.19
Consensus pattern (15 bp):
AACCATAGTCTAGCC
Found at i:21321476 original size:40 final size:40
Alignment explanation
Indices: 21321432--21321619 Score: 308
Period size: 40 Copynumber: 4.7 Consensus size: 40
21321422 GCTACTTGCT
21321432 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
21321472 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
21321512 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
21321552 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
21321591 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
21321620 CATCCGAATA
Statistics
Matches: 137, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.25
40 101 0.74
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:21321618 original size:79 final size:80
Alignment explanation
Indices: 21321399--21321619 Score: 333
Period size: 80 Copynumber: 2.8 Consensus size: 80
21321389 AAACCAAGTA
* * * *
21321399 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
21321462 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* *
21321478 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
21321543 TAACTCGCACAAATG
66 TAACTCGCACAAATG
*
21321558 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
21321620 CATCCGAATA
Statistics
Matches: 131, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
78 1 0.01
79 62 0.47
80 68 0.52
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:21326514 original size:93 final size:93
Alignment explanation
Indices: 21326402--21326573 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
21326392 CGCCCATAAG
* * *
21326402 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGGATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGAACTCAACTC
21326466 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
21326495 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
21326560 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
21326574 TCAATCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:21326568 original size:46 final size:46
Alignment explanation
Indices: 21326395--21326570 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
21326385 TGTAACCCGC
* * *
21326395 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGGAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
21326441 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
21326491 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
21326534 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
21326571 TGCTCAATCA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 29 0.27
48 2 0.02
49 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:21333951 original size:45 final size:45
Alignment explanation
Indices: 21333887--21334057 Score: 174
Period size: 45 Copynumber: 3.8 Consensus size: 45
21333877 ATGTAACCGC
*
21333887 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGAT
* *
21333932 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTAC-AT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC--A-GGC-A-TT-CGAT
*
21333982 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGG-CATTCG-AT
* *
21334025 CCATTAGTG-ACTCGGACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
21334058 GGATGCTCAA
Statistics
Matches: 106, Mismatches: 8, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 4 0.04
44 2 0.02
45 58 0.55
46 1 0.01
47 27 0.25
48 4 0.04
49 2 0.02
50 4 0.04
51 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGCATTCGAT
Found at i:21334005 original size:92 final size:92
Alignment explanation
Indices: 21333894--21334063 Score: 290
Period size: 92 Copynumber: 1.8 Consensus size: 92
21333884 CGCCCATAAG
21333894 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCG-ATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTG-ACTCGGACTCAACTC
21333957 AACGAGTTCGGATGCCTAGTTACATCTCA
64 AACGAGTTCGGATGCCTAGTTACATCTCA
* *
21333986 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATTAGTGACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGACTCGGACTCAACTCAA
21334051 CGAGTTCGGATGC
66 CGAGTTCGGATGC
21334064 TCAATCATCC
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
91 2 0.03
92 62 0.84
93 10 0.14
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:21334078 original size:45 final size:44
Alignment explanation
Indices: 21333897--21334080 Score: 137
Period size: 45 Copynumber: 4.0 Consensus size: 44
21333887 CCATAAGCGA
* * * * *
21333897 ACTCGGACTCAACTCAACGAGCTCAGGCAT-TCGATCCAT-AAGTG
1 ACTCGGACTCAACTCAACGAGTTC-GG-ATGCCAATACATCTAGTG
* *
21333941 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACG-A
1 -ACTCGGACTCAACTCAACGAGTTCGGATGCC-A-ATACATCT-A-GTG
* *
21333989 ACTCGGACTCAACTCAACGAGTTCGGACATTCGC-ATCCAT-TAGTG
1 ACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAATACATCTAGTG
21334034 ACTCGGACTCAACTCAACGAGTTCGGATGCTCAAT-CATCCTAGTG
1 ACTCGGACTCAACTCAACGAGTTCGGATGC-CAATACAT-CTAGTG
21334079 AC
1 AC
21334081 ATGTCATTGT
Statistics
Matches: 113, Mismatches: 13, Indels: 26
0.74 0.09 0.17
Matches are distributed among these distances:
43 9 0.08
44 6 0.05
45 57 0.50
46 5 0.04
47 30 0.27
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (44 bp):
ACTCGGACTCAACTCAACGAGTTCGGATGCCAATACATCTAGTG
Found at i:21346222 original size:27 final size:27
Alignment explanation
Indices: 21346192--21346368 Score: 212
Period size: 27 Copynumber: 6.5 Consensus size: 27
21346182 TATCGAGTCT
* * * *
21346192 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAGTCAAATC
*
21346219 GCACACTTAGTGCTACATAATCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
21346246 GCACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAGTCAAA-TC
** * *
21346274 GCACACTTAGTGCCGCATGGTCAATTC
1 GCACACTTAGTGCTACATAGTCAAATC
* **
21346301 GCACACTTAGTGC-ATCATATTCATTTC
1 GCACACTTAGTGCTA-CATAGTCAAATC
*
21346328 GCACACTTAGTGCAACATAGTCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
21346355 GCACACTTAGTGCT
1 GCACACTTAGTGCT
21346369 GTACAATTTA
Statistics
Matches: 131, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 107 0.82
28 24 0.18
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAGTCAAATC
Found at i:21346330 original size:82 final size:81
Alignment explanation
Indices: 21346212--21346367 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
21346202 TGCTATATAA
*
21346212 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
21346277 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
21346294 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
21346358 CACTTAGTGC
65 CACTTAGTGC
21346368 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:21359459 original size:3 final size:3
Alignment explanation
Indices: 21359451--21359477 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
21359441 ATCAATCAAA
21359451 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
21359478 CTATCTGCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:21363912 original size:27 final size:27
Alignment explanation
Indices: 21363879--21363943 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 27
21363869 AAAATGTTTA
21363879 TAAAATTATTG-TGTTTTA-AATTTTTT
1 TAAAATTATTGAT-TTTTATAATTTTTT
21363905 TAATAATTATTGAAATTTTTATAATTTTTT
1 TAA-AATTATTG--ATTTTTATAATTTTTT
21363935 TAAAATTAT
1 TAAAATTAT
21363944 GTATATTGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
26 3 0.09
27 8 0.24
29 11 0.32
30 12 0.35
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (27 bp):
TAAAATTATTGATTTTTATAATTTTTT
Found at i:21365575 original size:11 final size:12
Alignment explanation
Indices: 21365561--21365622 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
21365551 ACCAACGAAT
21365561 AAAAAT-AATTA
1 AAAAATAAATTA
*
21365572 AAAAATAAAATA
1 AAAAATAAATTA
*
21365584 AAAAATGAATT-
1 AAAAATAAATTA
* *
21365595 TAAAATAAATCA
1 AAAAATAAATTA
*
21365607 AATAAATAGATTA
1 AA-AAATAAATTA
21365620 AAA
1 AAA
21365623 TAAAAAATTT
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
11 14 0.36
12 15 0.38
13 10 0.26
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (12 bp):
AAAAATAAATTA
Found at i:21365599 original size:23 final size:24
Alignment explanation
Indices: 21365573--21365627 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
21365563 AAATAATTAA
21365573 AAAATAAAAT-AAA-AAAT-GAATTT
1 AAAATAAAATCAAATAAATAG-A-TT
21365596 AAAAT-AAATCAAATAAATAGATT
1 AAAATAAAATCAAATAAATAGATT
21365619 AAAATAAAA
1 AAAATAAAA
21365628 AATTTCTAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
22 4 0.14
23 15 0.54
24 8 0.29
25 1 0.04
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (24 bp):
AAAATAAAATCAAATAAATAGATT
Found at i:21369439 original size:21 final size:21
Alignment explanation
Indices: 21369413--21369452 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21369403 AGCCCGAAGA
*
21369413 CTAAACAGAAGCACATAAGTG
1 CTAAACAGAAACACATAAGTG
*
21369434 CTAAACAGAAACCCATAAG
1 CTAAACAGAAACACATAAG
21369453 GGTTGAACGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.23, G:0.15, T:0.12
Consensus pattern (21 bp):
CTAAACAGAAACACATAAGTG
Found at i:21369492 original size:21 final size:21
Alignment explanation
Indices: 21369433--21369493 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
21369423 GCACATAAGT
* **
21369433 GCTAAACAGAAACCCATAAGG
1 GCTAAACGGAAACCCATAAAA
* * * *
21369454 GTTGAACGGAAGCTCATAAAA
1 GCTAAACGGAAACCCATAAAA
21369475 GCTAAACGGAAACCCATAA
1 GCTAAACGGAAACCCATAA
21369494 GGGTTATACA
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.46, C:0.21, G:0.20, T:0.13
Consensus pattern (21 bp):
GCTAAACGGAAACCCATAAAA
Found at i:21369533 original size:42 final size:42
Alignment explanation
Indices: 21369416--21369511 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
21369406 CCGAAGACTA
* ** *
21369416 AACAGAAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAAAGCTAAACGGAAACCCATAAGGGTTG
*
21369458 AACGGAAGCTCATAAAAGCTAAACGGAAACCCATAAGGGTT-
1 AACAGAAGCTCATAAAAGCTAAACGGAAACCCATAAGGGTTG
21369499 ATACAGAAGCTCA
1 A-ACAGAAGCTCA
21369512 ATAGAATTGT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 46 0.98
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.15
Consensus pattern (42 bp):
AACAGAAGCTCATAAAAGCTAAACGGAAACCCATAAGGGTTG
Found at i:21372255 original size:33 final size:33
Alignment explanation
Indices: 21372208--21372270 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
21372198 GATAAAACTT
*
21372208 TAAAACACAGTGTATCTTTGTTATTAATGAGCA
1 TAAAACACAATGTATCTTTGTTATTAATGAGCA
21372241 TAAAACACAATGTATCTTTGTTATTAATGA
1 TAAAACACAATGTATCTTTGTTATTAATGA
21372271 TCCTCCAGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (33 bp):
TAAAACACAATGTATCTTTGTTATTAATGAGCA
Found at i:21377295 original size:55 final size:54
Alignment explanation
Indices: 21377208--21377462 Score: 251
Period size: 55 Copynumber: 4.8 Consensus size: 54
21377198 ATTAGGGTTT
*
21377208 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
21377263 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * * *
21377318 AAATG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
21377371 AAGGATACCATATAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* ** *
21377420 AAGGATACCACGTAAGACCATGAAAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
21377463 GTACCCGTGT
Statistics
Matches: 167, Mismatches: 26, Indels: 20
0.78 0.12 0.09
Matches are distributed among these distances:
49 38 0.23
52 6 0.04
53 40 0.24
54 12 0.07
55 68 0.41
56 3 0.02
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:21377414 original size:108 final size:110
Alignment explanation
Indices: 21377215--21377415 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
21377205 TTTAAGGATA
* *
21377215 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATATAAGA
*
21377280 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAATGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAATGTC
* *
21377325 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATATAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATATAAG
*
21377387 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
21377416 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATATAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAATGTC
Found at i:21377675 original size:16 final size:16
Alignment explanation
Indices: 21377654--21377684 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21377644 ATAAATTTGA
21377654 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
21377670 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
21377685 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:21382008 original size:11 final size:10
Alignment explanation
Indices: 21381992--21382019 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
21381982 AATATAAATG
21381992 AAAAAAAAAC
1 AAAAAAAAAC
21382002 AAAAAAAAAC
1 AAAAAAAAAC
21382012 AAAAAAAA
1 AAAAAAAA
21382020 TAAATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:21384055 original size:88 final size:86
Alignment explanation
Indices: 21383963--21384239 Score: 192
Period size: 88 Copynumber: 3.1 Consensus size: 86
21383953 TAATCTTAGG
21383963 GAGATAAGATCTTTAATTCTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTCATTCATAA
1 GAGATAAGATCTTTAATTCT-AGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTCATTCATAA
21384028 ACATGCTCTCTTGCTACCTCAGA
65 AC-TGCTCTCTTGCTACCTCAGA
* * * * * * *
21384051 GAGATAAG-GCTTGGTGGTAAAATCTACTCT-ATTGCC-TGATA-CAT-GGAA-ATAAGATTCAC
1 GAGATAAGATC-T--T--T-AATTCTAGTCTGCTT-CCTTGCTACCTTAGGAAGATAAGA--C-T
* * * *
21384110 CATCTGCGA-AGATCTGCTCTAC-TGCAATCTCAGG
56 CAT-T-C-ATA-AACTGCTCT-CTTGCTACCTCAGA
* * *
21384144 GAGATAAGATCTTTAATTTTTAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACTCATTCATAA
1 GAGATAAGATCTTTAA-TTCTAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTCATTCATAA
*
21384209 ACCTGCTCTCTTGGTACCTCAGA
65 A-CTGCTCTCTTGCTACCTCAGA
21384232 GAGATAAG
1 GAGATAAG
21384240 GCTTGGTGGT
Statistics
Matches: 138, Mismatches: 26, Indels: 50
0.64 0.12 0.23
Matches are distributed among these distances:
87 4 0.03
88 42 0.30
89 14 0.10
90 12 0.09
91 12 0.09
92 12 0.09
93 37 0.27
94 5 0.04
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (86 bp):
GAGATAAGATCTTTAATTCTAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTCATTCATAAA
CTGCTCTCTTGCTACCTCAGA
Found at i:21384376 original size:180 final size:180
Alignment explanation
Indices: 21383543--21384880 Score: 1618
Period size: 180 Copynumber: 7.5 Consensus size: 180
21383533 AGATTAAATT
* * * ** * *
21383543 AAATCTGCTCTATT-GTCGATACATGGAGATAAAATTCACCAT-T-TTCA-ATCTGTTCCACTGC
1 AAATCTGCTCCATTACT-GATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGC
* ** * * ** *
21383604 CACTTTGGGGAGATAAGATCCTCAACCCTCAGTCTGCTTTCTTGCTACCTCA-G--G--AAGACT
65 AACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT
* * * **
21383664 CATTCTTCAACCTGCTCCCTTGTTACCTCAGAGAGATGAGGC-TGGACGTA
130 CATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTGGTA
* ** ** * * *
21383714 AAATCTGCTCCATTGCCAATACATGGATTTAAGATTCACCACCTGTGAAGATCTACTCCGCTGCG
1 AAATCTGCTCCATTACTGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
* * *
21383779 ACTTCAGGGAGATAAAA-CTTCAATTCTCAATTTGCTTCCTTGCTACCTCAGGAAGATCAGACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
* * * * * * *
21383843 ---CTTCAACCTACTCTCTTGTTACTTCAGAGAGATGAGGCTTAAG-GCTT
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTT-GGTGGTA
* **
21383890 AAATCTACTTCC--TAGCCAATACATGGAGATAAGATT-AGCCATCTGTGAAGATCTGCTCCGCT
1 AAATCTGC-TCCATTA-CTGATACATGGAGATAAGATTCA-CCATCTGTGAAGATCTGCTCCGCT
* * * *
21383952 GTAATCTT-AGGGAGATAAGATCTTTAATTCTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAG
63 GCAA-CTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAG
* * *
21384016 ACTCATTCATAAACATGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTGGTA
127 ACTCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTGGTA
* * * * * **
21384070 AAATCTACTCTATTGCCTGATACATGGAAATAAGATTCACCATCTGCGAAGATCTGCTCTACTGC
1 AAATCTGCTCCATT-ACTGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGC
* * * * *
21384135 AA-TCTCAGGGAGATAAGATCTTTAATTTTTAGTCTGCTTCCTTACTACCTCAGGAAGATAAGAC
65 AACT-TCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGAC
* * *
21384199 TCATTCATAAACCTGCTCTCTTGGTACCTCAGAGAGATAAGGCTTGGTGGTA
129 TCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTGGTA
* ** * *
21384251 AAATCTGCTCCATTACTGATTCATGGAGATAAGATTCACCATCTACGAAGATCTGCTCTGCTGTA
1 AAATCTGCTCCATTACTGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
*
21384316 ACTTCAAGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
*
21384381 ATTCTTCAACCTGCTCTCTTGCTACCTCAAAGAGATAAGGCTTGGTGGTA
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTGGTA
* * * *
21384431 AAATCTGCTCCATTACTAATTCATGAAGATAAGATTCACCATCTGTGAAGATTTGCTCCGCTGCA
1 AAATCTGCTCCATTACTGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
* *
21384496 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGTTTCCTTACTACCTCAGGAAGATAAGACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
* *
21384561 ATTCTTCAACCTACTCTCTTGCTACTTCAGAGAGATAAGGCTTGGTGGTA
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTGGTA
* * * * *
21384611 AAATCTTCTCCATTACTGATTCATGGAGATAAGATTTACCATCTGCGAAGATCTGCTCTGCTGCA
1 AAATCTGCTCCATTACTGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
* * * *
21384676 ACTTCAAGGAGATAAAATCTTCAATTCTCAGTTTACTTCCTTGCTACCTCAGAAAGATAAGACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
*
21384741 ATTCTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTGGTA
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTGGTA
* * ** *
21384791 AAATCTGCTCCATTGCTGATACATGGAGATAAGATTCACCATCTGTAAAGATCTATTCCACTGCA
1 AAATCTGCTCCATTACTGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
*
21384856 ACTTCAGGGAGATAAGATCTTCAAT
66 ACTTCAGGGAGATAAAATCTTCAAT
21384881 CTTGACCAAT
Statistics
Matches: 1011, Mismatches: 129, Indels: 45
0.85 0.11 0.04
Matches are distributed among these distances:
171 33 0.03
172 1 0.00
173 29 0.03
174 26 0.03
175 37 0.04
176 64 0.06
177 49 0.05
178 6 0.01
179 4 0.00
180 601 0.59
181 160 0.16
182 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (180 bp):
AAATCTGCTCCATTACTGATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCCGCTGCA
ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTGGTA
Found at i:21397004 original size:28 final size:28
Alignment explanation
Indices: 21396939--21397089 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
21396929 GAGATTGGCG
* * * *
21396939 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
21396968 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
21396996 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
21397024 CTAAGTGTGAGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
21397052 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
21397079 CTGAGTGTGCG
1 CTAAGTGTGCG
21397090 GACTTAATAT
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 24 0.22
28 72 0.65
29 15 0.14
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:21402059 original size:20 final size:20
Alignment explanation
Indices: 21402034--21402074 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
21402024 AAGGCTAAAG
21402034 TTCAAATTGTCTTCTATTGA
1 TTCAAATTGTCTTCTATTGA
21402054 TTCAAATTGTCTTCTATTGA
1 TTCAAATTGTCTTCTATTGA
21402074 T
1 T
21402075 CAACACCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.10, T:0.51
Consensus pattern (20 bp):
TTCAAATTGTCTTCTATTGA
Found at i:21408780 original size:55 final size:54
Alignment explanation
Indices: 21408672--21408819 Score: 165
Period size: 55 Copynumber: 2.7 Consensus size: 54
21408662 ATTAGGGTTT
* *
21408672 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC-
1 AAGGA-ACCATGTAAGACCATGCCAAGGCATGGC-ATTGATAAGGTTTATAAGGCA
* * * *
21408727 AAGGAAATCATGTAAGGCCATGTCAAGACATGGCATTGATAA-GTTACTATAAGGCA
1 AAGG-AACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGGTT--TATAAGGCA
**
21408783 AAGGTCCCATGTAAGACCATGCCAAGGCATGGCATTG
1 AAGGAACCATGTAAGACCATGCCAAGGCATGGCATTG
21408820 GTGAGTCATA
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
53 3 0.04
54 7 0.09
55 62 0.81
56 5 0.06
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (54 bp):
AAGGAACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGGTTTATAAGGCA
Found at i:21409101 original size:12 final size:13
Alignment explanation
Indices: 21409084--21409112 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
21409074 AAATTTTAGA
21409084 AAAACCCT-TTTC
1 AAAACCCTATTTC
21409096 AAAACCCTATTTC
1 AAAACCCTATTTC
21409109 AAAA
1 AAAA
21409113 AAAGAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAACCCTATTTC
Found at i:21411419 original size:47 final size:47
Alignment explanation
Indices: 21411341--21411842 Score: 797
Period size: 47 Copynumber: 10.6 Consensus size: 47
21411331 CCCTTCGGGA
* * * * * *
21411341 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21411388 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21411435 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
21411482 CTCATCACATATATACAGTTTTACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21411529 CTTATCACACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21411578 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21411625 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21411672 CTTATCACATACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21411721 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21411770 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21411817 CTTATCACATATATACACTTTCACAT
1 CTTATCACATATATACACTTTCACAT
21411843 CACAATTATC
Statistics
Matches: 423, Mismatches: 26, Indels: 12
0.92 0.06 0.03
Matches are distributed among these distances:
47 290 0.69
49 131 0.31
51 2 0.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21411579 original size:96 final size:94
Alignment explanation
Indices: 21411341--21411842 Score: 815
Period size: 96 Copynumber: 5.3 Consensus size: 94
21411331 CCCTTCGGGA
* * * * * *
21411341 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
21411406 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * * * * *
21411435 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTCATCACATATATACAG
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
21411500 TTTTACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
21411529 CTTATCACACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTAT--CACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
21411594 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
21411625 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATACATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAT--ATATAC
21411690 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
21411721 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
21411786 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
21411817 CTTATCACATATATACACTTTCACAT
1 CTTATCACATATATACACTTTCACAT
21411843 CACAATTATC
Statistics
Matches: 378, Mismatches: 24, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
94 153 0.40
96 178 0.47
98 47 0.12
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:21411600 original size:143 final size:143
Alignment explanation
Indices: 21411341--21411842 Score: 787
Period size: 143 Copynumber: 3.5 Consensus size: 143
21411331 CCCTTCGGGA
* * * * * * * *
21411341 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGT--CACATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATATAC
*
21411404 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
21411469 TCGGCTATTAGGC
131 TCGGCCATTAGGC
* * *
21411482 CTCATCACATATATACAGTTTTACATTCATCACATCGGCCATTAGGCCTTATCACACATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATATAC
* *
21411547 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
21411612 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* *
21411625 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATACATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATATAC
21411690 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
* *
21411755 CATTGGCCATTCGGC
129 CATCGGCCATTAGGC
21411770 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--CACATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATATAC
21411833 ACTTTCACAT
66 ACTTTCACAT
21411843 CACAATTATC
Statistics
Matches: 331, Mismatches: 26, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
141 41 0.12
143 201 0.61
145 89 0.27
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:21414501 original size:29 final size:29
Alignment explanation
Indices: 21414456--21414531 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
21414446 TCTTGACATA
*
21414456 TACTGGGCCAAAGCCTTTCGTTTAACGGT
1 TACTGGGCCGAAGCCTTTCGTTTAACGGT
*
21414485 TATTGGGCCGAAGCCTTTCGTTTAACGGT
1 TACTGGGCCGAAGCCTTTCGTTTAACGGT
*
21414514 TACTGGACCGAAGCCTTT
1 TACTGGGCCGAAGCCTTT
21414532 TCATAAATCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.32
Consensus pattern (29 bp):
TACTGGGCCGAAGCCTTTCGTTTAACGGT
Found at i:21414556 original size:31 final size:31
Alignment explanation
Indices: 21414515--21414593 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
21414505 TTTAACGGTT
*
21414515 ACTGGACCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
21414546 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
21414577 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
21414594 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:21414664 original size:42 final size:42
Alignment explanation
Indices: 21414617--21414708 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
21414607 TGGCCCTTAG
* ** *
21414617 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
21414659 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
21414701 GCCCATTT
1 GCCCATTT
21414709 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:21414884 original size:25 final size:25
Alignment explanation
Indices: 21414856--21414925 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
21414846 CTCTTTTAAT
*
21414856 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAGAGCCCTTTTC-GATA
*
21414881 AACTGGGGCAGAGCCCTTTTCGGTA
1 AACTGGGGCAGAGCCCTTTTCGATA
21414906 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAGAGCCCTTTT
21414926 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAGAGCCCTTTTCGATA
Found at i:21415855 original size:27 final size:27
Alignment explanation
Indices: 21415825--21415933 Score: 78
Period size: 27 Copynumber: 3.9 Consensus size: 27
21415815 GTAAATCTAC
21415825 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
21415852 AAACCAATGGTATTCCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * *
21415878 AAAAAAGTCAAGGGTATTTCTGTAATCTTGT
1 ---AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
21415909 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
21415934 ACAAATTGAG
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
26 1 0.02
27 39 0.61
28 4 0.06
29 3 0.05
30 16 0.25
31 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:21415939 original size:27 final size:27
Alignment explanation
Indices: 21415909--21415985 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
21415899 GTAATCTTGT
21415909 AAATCAGGGGTATTTTGGTAATTT-TAC
1 AAATCAGGGGTATTTTGGTAATTTCT-C
* *
21415936 AAAT-TGAGGGTATTTCGGTAATTTCTC
1 AAATCAG-GGGTATTTTGGTAATTTCTC
* **
21415963 AAACCAGTAGTATTTTGGTAATT
1 AAATCAGGGGTATTTTGGTAATT
21415986 CTATCCTATA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
26 1 0.03
27 37 0.93
28 2 0.05
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTCTC
Found at i:21416081 original size:27 final size:25
Alignment explanation
Indices: 21416017--21416083 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 25
21416007 GTAATTTCAC
*
21416017 AATCGAAGGTAAAAGGTAATTTTGTA
1 AATCG-AGGTAAAAGGTAATGTTGTA
21416043 AA-CTGAGGGTAAAATGGTAATGTTGTA
1 AATC-GA-GGTAAAA-GGTAATGTTGTA
21416070 AATCGAGCGTAAAA
1 AATCGAG-GTAAAA
21416084 CGATAATTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
25 2 0.06
26 11 0.31
27 21 0.60
28 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.27
Consensus pattern (25 bp):
AATCGAGGTAAAAGGTAATGTTGTA
Found at i:21416090 original size:27 final size:24
Alignment explanation
Indices: 21416017--21416104 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 24
21416007 GTAATTTCAC
21416017 AATCGAAGGTAAAAGGTAATTTTGTA
1 AATCG-AGGTAAAAGGTAA-TTTGTA
21416043 AA-CTGAGGGTAAAATGGTAATGTTGTA
1 AATC-GA-GGTAAAA-GGTAAT-TTGTA
* *
21416070 AATCGAGCGTAAAACGATAATTCTATA
1 AATCGAG-GTAAAA-GGTAATT-TGTA
21416097 AATCGAGG
1 AATCGAGG
21416105 GTACTTTGGT
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
25 2 0.04
26 14 0.27
27 35 0.67
28 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (24 bp):
AATCGAGGTAAAAGGTAATTTGTA
Found at i:21423786 original size:16 final size:16
Alignment explanation
Indices: 21423765--21423797 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21423755 TTATTCCCCG
*
21423765 AGCAACAATTGTTCTA
1 AGCAACAACTGTTCTA
21423781 AGCAACAACTGTTCTA
1 AGCAACAACTGTTCTA
21423797 A
1 A
21423798 ACAAGAGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.27
Consensus pattern (16 bp):
AGCAACAACTGTTCTA
Found at i:21424236 original size:13 final size:14
Alignment explanation
Indices: 21424218--21424248 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
21424208 TTAGCTGCTT
21424218 TATTATAAAAAA-A
1 TATTATAAAAAATA
21424231 TATTATAAAAAATA
1 TATTATAAAAAATA
21424245 TATT
1 TATT
21424249 TTACTTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TATTATAAAAAATA
Found at i:21424726 original size:16 final size:17
Alignment explanation
Indices: 21424697--21424733 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
21424687 TGTACATTTA
21424697 AATTTATTTAAATTTTG
1 AATTTATTTAAATTTTG
21424714 TAATTT-TTT-AATTTTG
1 -AATTTATTTAAATTTTG
21424730 AATT
1 AATT
21424734 CCATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.21
16 7 0.37
17 3 0.16
18 5 0.26
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
AATTTATTTAAATTTTG
Found at i:21428885 original size:47 final size:47
Alignment explanation
Indices: 21428807--21429030 Score: 358
Period size: 47 Copynumber: 4.8 Consensus size: 47
21428797 CCCTTCGGGA
* * * * * *
21428807 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
21428854 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21428901 CTTATCACATATATACACTTTCACATTCATCACATCGGCCTTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21428948 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21428995 CTTATCACATATATACACTTTCACATTCATCACATC
1 CTTATCACATATATACACTTTCACATTCATCACATC
21429031 ACAATTATCC
Statistics
Matches: 163, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 163 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21432417 original size:40 final size:40
Alignment explanation
Indices: 21432323--21432467 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
21432313 TACTCGAAAG
*
21432323 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
21432364 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
21432404 ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
21432444 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
21432468 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 60 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:21439512 original size:26 final size:26
Alignment explanation
Indices: 21439483--21439535 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
21439473 TCAAACATGC
21439483 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
21439509 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
21439535 A
1 A
21439536 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:21441054 original size:26 final size:26
Alignment explanation
Indices: 21441018--21441101 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
21441008 CATGAAATTC
21441018 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
21441044 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
21441070 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
21441096 TTATCA
1 TTATCA
21441102 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:21445343 original size:305 final size:305
Alignment explanation
Indices: 21444792--21445402 Score: 1204
Period size: 305 Copynumber: 2.0 Consensus size: 305
21444782 ATTGGGTTAT
21444792 CTTGGTTTGGAAATATTGATGATGCTTTGAGCTACAAAGTCAAATATTTTTTATGTTTTATTTTG
1 CTTGGTTTGGAAATATTGATGATGCTTTGAGCTACAAAGTCAAATATTTTTTATGTTTTATTTTG
21444857 AGGTTGTAGATGCATTTTGAATTGATATATGTATGGTTGTGTCAAATGCCTTGTTTTGCTGTGAA
66 AGGTTGTAGATGCATTTTGAATTGATATATGTATGGTTGTGTCAAATGCCTTGTTTTGCTGTGAA
*
21444922 TTTAAGGTCCATTTGGAAGCTAGGAAAACAATTTCCGAAAAATATTTTCCTGGTTTTACTGTGTT
131 TTTAAGGTCCATTTGGAAGCCAGGAAAACAATTTCCGAAAAATATTTTCCTGGTTTTACTGTGTT
21444987 TGGAAGCTTGAAAACATTTTACATTTGGAAAATGTTTTCCAAGACATGGGTAAAATGACTTGCAA
196 TGGAAGCTTGAAAACATTTTACATTTGGAAAATGTTTTCCAAGACATGGGTAAAATGACTTGCAA
21445052 TTTGGGGAAAAAGTCTTACCGATTTCTTTTCAGTAAGACATTTTC
261 TTTGGGGAAAAAGTCTTACCGATTTCTTTTCAGTAAGACATTTTC
*
21445097 CTTGGTTTGGAAATATTGATGATGCTTTGAGCTACAAATTCAAATATTTTTTATGTTTTATTTTG
1 CTTGGTTTGGAAATATTGATGATGCTTTGAGCTACAAAGTCAAATATTTTTTATGTTTTATTTTG
21445162 AGGTTGTAGATGCATTTTGAATTGATATATGTATGGTTGTGTCAAATGCCTTGTTTTGCTGTGAA
66 AGGTTGTAGATGCATTTTGAATTGATATATGTATGGTTGTGTCAAATGCCTTGTTTTGCTGTGAA
21445227 TTTAAGGTCCATTTGGAAGCCAGGAAAACAATTTCCGAAAAATATTTTCCTGGTTTTACTGTGTT
131 TTTAAGGTCCATTTGGAAGCCAGGAAAACAATTTCCGAAAAATATTTTCCTGGTTTTACTGTGTT
21445292 TGGAAGCTTGAAAACATTTTACATTTGGAAAATGTTTTCCAAGACATGGGTAAAATGACTTGCAA
196 TGGAAGCTTGAAAACATTTTACATTTGGAAAATGTTTTCCAAGACATGGGTAAAATGACTTGCAA
21445357 TTTGGGGAAAAAGTCTTACCGATTTCTTTTCAGTAAGACATTTTC
261 TTTGGGGAAAAAGTCTTACCGATTTCTTTTCAGTAAGACATTTTC
21445402 C
1 C
21445403 ATCTCCTTCT
Statistics
Matches: 304, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
305 304 1.00
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.40
Consensus pattern (305 bp):
CTTGGTTTGGAAATATTGATGATGCTTTGAGCTACAAAGTCAAATATTTTTTATGTTTTATTTTG
AGGTTGTAGATGCATTTTGAATTGATATATGTATGGTTGTGTCAAATGCCTTGTTTTGCTGTGAA
TTTAAGGTCCATTTGGAAGCCAGGAAAACAATTTCCGAAAAATATTTTCCTGGTTTTACTGTGTT
TGGAAGCTTGAAAACATTTTACATTTGGAAAATGTTTTCCAAGACATGGGTAAAATGACTTGCAA
TTTGGGGAAAAAGTCTTACCGATTTCTTTTCAGTAAGACATTTTC
Found at i:21460332 original size:16 final size:16
Alignment explanation
Indices: 21460311--21460344 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
21460301 TCGACAAATC
*
21460311 CCGAAATGCCGAAAAG
1 CCGAAATACCGAAAAG
21460327 CCGAAATACCGAAAAG
1 CCGAAATACCGAAAAG
21460343 CC
1 CC
21460345 AGAAGTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.29, G:0.21, T:0.06
Consensus pattern (16 bp):
CCGAAATACCGAAAAG
Found at i:21460864 original size:26 final size:26
Alignment explanation
Indices: 21460835--21460942 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
21460825 TGGTACAAAT
21460835 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
21460861 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21460887 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
21460913 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21460939 TGAT
1 TGAT
21460943 GGGAATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:21463640 original size:28 final size:28
Alignment explanation
Indices: 21463597--21463676 Score: 106
Period size: 28 Copynumber: 2.9 Consensus size: 28
21463587 GGAGCTACAG
* *
21463597 ATTGGGCCTGACGGGCCATATGAAAGTT
1 ATTGGGCCTGATGGGCCATATGAAAGTA
*
21463625 ATTGGGCCTGATGGGCCATATGAATGTA
1 ATTGGGCCTGATGGGCCATATGAAAGTA
** *
21463653 ATTGGGCCCAATAGGCCATATGAA
1 ATTGGGCCTGATGGGCCATATGAA
21463677 TAAGATTGGG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (28 bp):
ATTGGGCCTGATGGGCCATATGAAAGTA
Found at i:21466098 original size:42 final size:42
Alignment explanation
Indices: 21466052--21466136 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
21466042 TAGAACAAAT
21466052 ATTAAGTACATACTTACCTTATTACTAGTAGCCAAAAAACTA
1 ATTAAGTACATACTTACCTTATTACTAGTAGCCAAAAAACTA
21466094 ATTAAGTACATACTTACCTTATTACTAGTAGCCAAAAAACTA
1 ATTAAGTACATACTTACCTTATTACTAGTAGCCAAAAAACTA
21466136 A
1 A
21466137 CTCATACCTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.31
Consensus pattern (42 bp):
ATTAAGTACATACTTACCTTATTACTAGTAGCCAAAAAACTA
Found at i:21466330 original size:43 final size:43
Alignment explanation
Indices: 21466246--21466331 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
21466236 AAATCGTACA
* **
21466246 ATGCCAACGTCCCAGACATGGTCTTACATGTAGTCACATATCG
1 ATGCCAACGTCCCAGACAGGGTCTTACATGTACACACATATCG
*
21466289 ATGCC-ACTGTCCCAGACAGGGTCTTAC-TCGTACACATATATCG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACAT-GTACACACATATCG
21466332 GAATCACATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 3 0.08
43 34 0.92
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACATGTACACACATATCG
Found at i:21468283 original size:35 final size:35
Alignment explanation
Indices: 21468244--21468318 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
21468234 ACGACCATAC
21468244 AAAGCCTCATAAGGTGCCATTTTGATACTCGACTG
1 AAAGCCTCATAAGGTGCCATTTTGATACTCGACTG
21468279 AAAGCCTCATAAGGTGCCATTTTGATACTCGACTG
1 AAAGCCTCATAAGGTGCCATTTTGATACTCGACTG
21468314 AAAGC
1 AAAGC
21468319 TGTTATTATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.27
Consensus pattern (35 bp):
AAAGCCTCATAAGGTGCCATTTTGATACTCGACTG
Found at i:21474535 original size:48 final size:48
Alignment explanation
Indices: 21474479--21474575 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
21474469 CCCAGACAGG
21474479 TTCTTACTCGTACACATATATCAGAATCACATATTGATGCCATGGTCT
1 TTCTTACTCGTACACATATATCAGAATCACATATTGATGCCATGGTCT
21474527 TTCTTACTCGTACACATATATCAGAATCACATATTGATGCCATGGTCT
1 TTCTTACTCGTACACATATATCAGAATCACATATTGATGCCATGGTCT
21474575 T
1 T
21474576 ACTCACACAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (48 bp):
TTCTTACTCGTACACATATATCAGAATCACATATTGATGCCATGGTCT
Found at i:21474598 original size:44 final size:45
Alignment explanation
Indices: 21474477--21474591 Score: 178
Period size: 48 Copynumber: 2.5 Consensus size: 45
21474467 GTCCCAGACA
21474477 GGTTCTTACTCGTACACATATATCAGAATCACATATTGATGCCAT
1 GGTTCTTACTCGTACACATATATCAGAATCACATATTGATGCCAT
21474522 GGTCTTTCTTACTCGTACACATATATCAGAATCACATATTGATGCCAT
1 GG---TTCTTACTCGTACACATATATCAGAATCACATATTGATGCCAT
**
21474570 GG-TCTTACTCACACACATATAT
1 GGTTCTTACTCGTACACATATAT
21474592 AGGAATCTTA
Statistics
Matches: 65, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
44 18 0.28
45 2 0.03
48 45 0.69
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.34
Consensus pattern (45 bp):
GGTTCTTACTCGTACACATATATCAGAATCACATATTGATGCCAT
Found at i:21487923 original size:37 final size:37
Alignment explanation
Indices: 21487873--21487944 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
21487863 TTTAGCTCGA
*
21487873 ATAATCCCCACACGTAGTCATCGGGTCTTACCCGGGC
1 ATAATCCCCACACGTAGCCATCGGGTCTTACCCGGGC
*
21487910 ATAATCTCCACACGTAGCCATCGGGTCTTACCCGG
1 ATAATCCCCACACGTAGCCATCGGGTCTTACCCGG
21487945 AATATATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.22
Consensus pattern (37 bp):
ATAATCCCCACACGTAGCCATCGGGTCTTACCCGGGC
Found at i:21488138 original size:48 final size:48
Alignment explanation
Indices: 21488078--21488183 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
21488068 CGGCCACAAT
* *
21488078 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
21488126 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
21488174 ACATATATAT
1 ATATACATAT
21488184 ATTTATCTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
Found at i:21494933 original size:12 final size:12
Alignment explanation
Indices: 21494916--21494940 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21494906 TTAAATAGGC
21494916 TAAAAGACAAAA
1 TAAAAGACAAAA
21494928 TAAAAGACAAAA
1 TAAAAGACAAAA
21494940 T
1 T
21494941 TGTCCATCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.08, G:0.08, T:0.12
Consensus pattern (12 bp):
TAAAAGACAAAA
Found at i:21496324 original size:14 final size:13
Alignment explanation
Indices: 21496301--21496332 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
21496291 GGGATATCAA
21496301 AACAATAATTAAG
1 AACAATAATTAAG
21496314 AACACATAATTAAG
1 AACA-ATAATTAAG
21496328 AACAA
1 AACAA
21496333 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:21497363 original size:45 final size:45
Alignment explanation
Indices: 21497295--21497380 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
21497285 ATCTAATCTG
21497295 AACTCATTGAGTTGTGGTATGAGTTCGTGATATATGTGACAACCA
1 AACTCATTGAGTTGTGGTATGAGTTCGTGATATATGTGACAACCA
* *
21497340 AACTCATTGAGTTGTGGTTTGAGTTTGTGATATATGTGACA
1 AACTCATTGAGTTGTGGTATGAGTTCGTGATATATGTGACA
21497381 CATGTTTTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.27, C:0.10, G:0.26, T:0.37
Consensus pattern (45 bp):
AACTCATTGAGTTGTGGTATGAGTTCGTGATATATGTGACAACCA
Found at i:21510177 original size:13 final size:14
Alignment explanation
Indices: 21510159--21510187 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21510149 TGAGTTGAGT
21510159 TTATGGCAT-AATG
1 TTATGGCATAAATG
21510172 TTATGGCATAAATG
1 TTATGGCATAAATG
21510186 TT
1 TT
21510188 GTATGGATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (14 bp):
TTATGGCATAAATG
Found at i:21512637 original size:34 final size:34
Alignment explanation
Indices: 21512594--21512662 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
21512584 TATTTCATCG
21512594 TTTCCACATTTGAAGTAAGTTTGTATGTGATAAA
1 TTTCCACATTTGAAGTAAGTTTGTATGTGATAAA
21512628 TTTCCACATTTGAAGTAAGTTTGTATGTGATAAA
1 TTTCCACATTTGAAGTAAGTTTGTATGTGATAAA
21512662 T
1 T
21512663 GATAGTGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (34 bp):
TTTCCACATTTGAAGTAAGTTTGTATGTGATAAA
Found at i:21520540 original size:17 final size:17
Alignment explanation
Indices: 21520518--21520551 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21520508 AAAGATAAAA
21520518 CATTAGTAACAAAAACT
1 CATTAGTAACAAAAACT
*
21520535 CATTAGTAACGAAAACT
1 CATTAGTAACAAAAACT
21520552 GAGTATCTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.18, G:0.09, T:0.24
Consensus pattern (17 bp):
CATTAGTAACAAAAACT
Found at i:21520994 original size:16 final size:18
Alignment explanation
Indices: 21520969--21521006 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
21520959 TTTTATTTTT
*
21520969 AAAAATTATATT-TATTG
1 AAAAATTATATTATATTC
21520986 AAAAA-TATATTATATTC
1 AAAAATTATATTATATTC
21521003 AAAA
1 AAAA
21521007 CTAAACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (18 bp):
AAAAATTATATTATATTC
Found at i:21535955 original size:39 final size:39
Alignment explanation
Indices: 21535912--21536125 Score: 284
Period size: 39 Copynumber: 5.4 Consensus size: 39
21535902 TCTTAAATTA
21535912 TGAATGTTATGTGATTATACAAGTATTGTAATATATGCT
1 TGAATGTTATGTGATTATACAAGTATTGTAATATATGCT
*
21535951 TGAATGTTATGAGATTATACAAGTATTGTGATAATATATGCT
1 TGAATGTTATGTGATTATACAAGTA-T-TG-TAATATATGCT
* *
21535993 TTAATGTTATGTGATTATACGAGTATTGTAATATATGCT
1 TGAATGTTATGTGATTATACAAGTATTGTAATATATGCT
* *
21536032 TGAATGTTATGAGATTATACAAGTATTGTGATATATGCT
1 TGAATGTTATGTGATTATACAAGTATTGTAATATATGCT
* *** * *
21536071 TAAATGTTATGTGATTATTTGAGCATTGTGATATATGCT
1 TGAATGTTATGTGATTATACAAGTATTGTAATATATGCT
* *
21536110 TGTATGTTAGGTGATT
1 TGAATGTTATGTGATT
21536126 TATGTGTAAT
Statistics
Matches: 155, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 116 0.75
40 3 0.02
41 3 0.02
42 33 0.21
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (39 bp):
TGAATGTTATGTGATTATACAAGTATTGTAATATATGCT
Found at i:21536004 original size:81 final size:78
Alignment explanation
Indices: 21535914--21536118 Score: 320
Period size: 81 Copynumber: 2.6 Consensus size: 78
21535904 TTAAATTATG
*
21535914 AATGTTATGTGATTATACAAGTATTGTAATATATGCTTGAATGTTATGAGATTATACAAGTATTG
1 AATGTTATGTGATTATACGAGTATTGTAATATATGCTTGAATGTTATGAGATTATACAAGTATTG
*
21535979 TGATAATATATGCTTT
66 TG---ATATATGCTTA
21535995 AATGTTATGTGATTATACGAGTATTGTAATATATGCTTGAATGTTATGAGATTATACAAGTATTG
1 AATGTTATGTGATTATACGAGTATTGTAATATATGCTTGAATGTTATGAGATTATACAAGTATTG
21536060 TGATATATGCTTA
66 TGATATATGCTTA
** * * *
21536073 AATGTTATGTGATTATTTGAGCATTGTGATATATGCTTGTATGTTA
1 AATGTTATGTGATTATACGAGTATTGTAATATATGCTTGAATGTTA
21536119 GGTGATTTAT
Statistics
Matches: 117, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
78 51 0.44
81 66 0.56
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (78 bp):
AATGTTATGTGATTATACGAGTATTGTAATATATGCTTGAATGTTATGAGATTATACAAGTATTG
TGATATATGCTTA
Found at i:21537289 original size:153 final size:150
Alignment explanation
Indices: 21536930--21537301 Score: 331
Period size: 153 Copynumber: 2.4 Consensus size: 150
21536920 AGAATGAGCA
* * * *
21536930 TTAGCAACGCTTCTTAAAAACGCCGCTAAA-AAC-AAGCATTAGCGGTGCTTTTTAAAAAACGCC
1 TTAGCAGCGCTTTTTAAAAACGCCGCTAAAGATCGAA-CATTAG-GGCG-TTTTTAAAAAACGCC
* * * **
21536993 ACTATAAGTTCACCTTTAGCGGCGCTTTTTAAAAAAATGCTGCAAAACTTATGCTCAACGCCGTC
63 ACTATAAGTACACCTTTAGAGGCGCTTTTTAAAAAAATGCTGCAAAAATTATGCAAAACGCCGTC
21537058 ATTTTAACTAAGCTTCAGCGGCT
128 ATTTTAACTAAGCTTCAGCGGCT
* * * ** * *
21537081 TTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGATC-AAGTAATAACAGCGCTTTTTTAAAAATGC
1 TTAGCAGCGC-TTTTTAAAAACGCCGCTAAAGATCGAA--CATTAGGGCG-TTTTTAAAAAACGC
* * * * * *
21537145 CGCTATATGTACACCTTTAGAGGCG-TTTTTCAAAAAATGCTGCAAAAGAATTTTGCAAAATGTC
62 CACTATAAGTACACCTTTAGAGGCGCTTTTTAAAAAAATGCTGC-AAA-AATTATGCAAAACGCC
* * * * * *
21537209 GTCGTTTTGTATTGAGCTTTTAGTGGCT
125 GTCATTTT-AACTAAGC-TTCAGCGGCT
*
21537237 TTAGCAGCGCTTTTTAAAAATGCCGCTAAAGATCGAACATTAGTGGCGTTTTTGAAAAAA-GCCA
1 TTAGCAGCGCTTTTTAAAAACGCCGCTAAAGATCGAACATTAG-GGCGTTTTT-AAAAAACGCCA
21537301 C
64 C
21537302 AAAAAATGAA
Statistics
Matches: 174, Mismatches: 37, Indels: 17
0.76 0.16 0.07
Matches are distributed among these distances:
151 8 0.05
152 36 0.21
153 43 0.25
154 32 0.18
155 36 0.21
156 19 0.11
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (150 bp):
TTAGCAGCGCTTTTTAAAAACGCCGCTAAAGATCGAACATTAGGGCGTTTTTAAAAAACGCCACT
ATAAGTACACCTTTAGAGGCGCTTTTTAAAAAAATGCTGCAAAAATTATGCAAAACGCCGTCATT
TTAACTAAGCTTCAGCGGCT
Found at i:21537546 original size:22 final size:21
Alignment explanation
Indices: 21537521--21537574 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 21
21537511 ATTATTTTAA
21537521 GGTTTATCGATTATGGATTAT
1 GGTTTATCGATTATGGATTAT
* *
21537542 GGGTTTAGCGATTATGGCTTAT
1 -GGTTTATCGATTATGGATTAT
21537564 GGTTTAT-GATT
1 GGTTTATCGATT
21537575 TAAGGGTTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 4 0.14
21 6 0.21
22 19 0.66
ACGTcount: A:0.20, C:0.06, G:0.28, T:0.46
Consensus pattern (21 bp):
GGTTTATCGATTATGGATTAT
Found at i:21537627 original size:7 final size:7
Alignment explanation
Indices: 21537600--21537648 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
21537590 AATGGTCAGG
*
21537600 GGTTTAA
1 GGTTTAT
21537607 GGTTTAT
1 GGTTTAT
21537614 GGTTTTAT
1 GG-TTTAT
21537622 GGTTTAT
1 GGTTTAT
*
21537629 GTTTTAT
1 GGTTTAT
*
21537636 GTTTTAT
1 GGTTTAT
*
21537643 GATTTA
1 GGTTTA
21537649 GAGTTTATAG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
7 31 0.82
8 7 0.18
ACGTcount: A:0.18, C:0.00, G:0.22, T:0.59
Consensus pattern (7 bp):
GGTTTAT
Found at i:21537655 original size:21 final size:22
Alignment explanation
Indices: 21537602--21537656 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
21537592 TGGTCAGGGG
* *
21537602 TTTAAGGTTTATGGTTTTATGG
1 TTTATGGTTTATGGTTTTATGA
*
21537624 TTTATGTTTTAT-GTTTTATGA
1 TTTATGGTTTATGGTTTTATGA
21537645 TTTA-GAGTTTAT
1 TTTATG-GTTTAT
21537657 AGGGATACGG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.04
21 17 0.61
22 10 0.36
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (22 bp):
TTTATGGTTTATGGTTTTATGA
Found at i:21538125 original size:28 final size:28
Alignment explanation
Indices: 21538094--21538149 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
21538084 GGATTTAGGG
21538094 TTTGGTGTTTGGAGATCATGGTTTAATT
1 TTTGGTGTTTGGAGATCATGGTTTAATT
21538122 TTTGGTGTTTGGAGATCATGGTTTAATT
1 TTTGGTGTTTGGAGATCATGGTTTAATT
21538150 GTATATATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.18, C:0.04, G:0.29, T:0.50
Consensus pattern (28 bp):
TTTGGTGTTTGGAGATCATGGTTTAATT
Found at i:21539268 original size:18 final size:18
Alignment explanation
Indices: 21539245--21539281 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
21539235 CCCAGTGTTC
21539245 CTCGAATTATTTCTTTTT
1 CTCGAATTATTTCTTTTT
21539263 CTCGAATTATTTCTTTTT
1 CTCGAATTATTTCTTTTT
21539281 C
1 C
21539282 CCCAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.19, G:0.05, T:0.59
Consensus pattern (18 bp):
CTCGAATTATTTCTTTTT
Found at i:21549430 original size:24 final size:24
Alignment explanation
Indices: 21549403--21549462 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
21549393 ATTTAAGAAT
*
21549403 TGATAAGGGATAGGATTTAGGAGC
1 TGATAAGGGAGAGGATTTAGGAGC
*
21549427 TGATAAGGGAGAGGATTTAGGAGT
1 TGATAAGGGAGAGGATTTAGGAGC
*
21549451 TGATTAGGGAGA
1 TGATAAGGGAGA
21549463 ACAGTGTTGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.33, C:0.02, G:0.40, T:0.25
Consensus pattern (24 bp):
TGATAAGGGAGAGGATTTAGGAGC
Found at i:21550452 original size:16 final size:15
Alignment explanation
Indices: 21550427--21550458 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
21550417 CTAGATCGGT
21550427 AAAAGCCGAAAAGCC
1 AAAAGCCGAAAAGCC
21550442 AAAATGCCGAAAAGCC
1 AAAA-GCCGAAAAGCC
21550458 A
1 A
21550459 GCATTTTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.53, C:0.25, G:0.19, T:0.03
Consensus pattern (15 bp):
AAAAGCCGAAAAGCC
Found at i:21550903 original size:27 final size:26
Alignment explanation
Indices: 21550873--21550981 Score: 141
Period size: 26 Copynumber: 4.1 Consensus size: 26
21550863 GAAGCGTCCC
*
21550873 GGTGGCTATGCCACAATTATCT-TATCT
1 GGTGGCTCTGCCAC-ATTATCTGT-TCT
21550900 GGTGGCTCTGCC-CATATATCTGTTCT
1 GGTGGCTCTGCCACAT-TATCTGTTCT
21550926 GGTGGCTCTGCCACAATTATCTGTTCT
1 GGTGGCTCTGCCAC-ATTATCTGTTCT
* *
21550953 GGTGACTCTGTCACATTATCTGTTCT
1 GGTGGCTCTGCCACATTATCTGTTCT
21550979 GGT
1 GGT
21550982 AGCCATGCTG
Statistics
Matches: 75, Mismatches: 3, Indels: 9
0.86 0.03 0.10
Matches are distributed among these distances:
25 2 0.03
26 36 0.48
27 35 0.47
28 2 0.03
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.39
Consensus pattern (26 bp):
GGTGGCTCTGCCACATTATCTGTTCT
Found at i:21550954 original size:53 final size:53
Alignment explanation
Indices: 21550873--21550981 Score: 159
Period size: 53 Copynumber: 2.1 Consensus size: 53
21550863 GAAGCGTCCC
* *
21550873 GGTGGCTATGCCACAATTATCTTATCTGGTGGCTCTG-CCCATATATCTGTTCT
1 GGTGGCTATGCCACAATTATCTTATCTGGTGACTCTGTCACAT-TATCTGTTCT
*
21550926 GGTGGCTCTGCCACAATTATCTGT-TCTGGTGACTCTGTCACATTATCTGTTCT
1 GGTGGCTATGCCACAATTATCT-TATCTGGTGACTCTGTCACATTATCTGTTCT
21550979 GGT
1 GGT
21550982 AGCCATGCTG
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
53 46 0.90
54 5 0.10
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.39
Consensus pattern (53 bp):
GGTGGCTATGCCACAATTATCTTATCTGGTGACTCTGTCACATTATCTGTTCT
Found at i:21557242 original size:24 final size:24
Alignment explanation
Indices: 21557210--21557302 Score: 141
Period size: 24 Copynumber: 3.9 Consensus size: 24
21557200 GTCAGGAGAA
21557210 GATTTAGGAGTTGATAAGGGATAG
1 GATTTAGGAGTTGATAAGGGATAG
21557234 GATTTAGGAGTTGATAAGGGATAG
1 GATTTAGGAGTTGATAAGGGATAG
* * *
21557258 GATTTAGAAGCTGATAAGGGAGAG
1 GATTTAGGAGTTGATAAGGGATAG
* *
21557282 GATTTAGGAGATGATTAGGGA
1 GATTTAGGAGTTGATAAGGGA
21557303 GAACAGTATT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.34, C:0.01, G:0.38, T:0.27
Consensus pattern (24 bp):
GATTTAGGAGTTGATAAGGGATAG
Found at i:21558728 original size:27 final size:27
Alignment explanation
Indices: 21558706--21558806 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
21558696 TCGGTGGATA
*
21558706 TGCCACAATTATCTGATCTGGTGGCTC
1 TGCCACAATTATCTGTTCTGGTGGCTC
* *
21558733 TGCC-CCATATATCTGTTCTGGTGTCTC
1 TGCCACAAT-TATCTGTTCTGGTGGCTC
* *
21558760 TGTCACAATTATCTGTTCTGGTGACTC
1 TGCCACAATTATCTGTTCTGGTGGCTC
*
21558787 TGTCAC-ATTATCTGTTCTGG
1 TGCCACAATTATCTGTTCTGG
21558807 CAGCCATGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 17 0.26
27 46 0.70
28 3 0.05
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.40
Consensus pattern (27 bp):
TGCCACAATTATCTGTTCTGGTGGCTC
Found at i:21560607 original size:43 final size:43
Alignment explanation
Indices: 21560531--21560807 Score: 285
Period size: 43 Copynumber: 6.5 Consensus size: 43
21560521 TAATTTTTTA
* ** *
21560531 AAAGGTCATGATTTTTAGTAGCGTTTGTAGGAAAAGCGCCGCT
1 AAAGGTCATGTTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
* * *
21560574 AAAGATCGTGTTTTTTAGCGGCGTTTGTGGGAAAAGTGCCGCT
1 AAAGGTCATGTTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
* * * * *
21560617 AAAGGTCGT-TTCTTTTAGC-GCATTTTTTGGG-GAAGCACCGCT
1 AAAGGTCATGTT-TTTTAGCGGC-GTTTGTGGGAAAAGCGCCGCT
*
21560659 AAAGGTCATGTTTTTTAGCGGCGTTTGTGGGAACAGCGCCGCT
1 AAAGGTCATGTTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
* * *
21560702 AAA-GTCGTATTTTTTAGCGGCGTTTTTGGG-AAAGCGCCGCT
1 AAAGGTCATGTTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
* * * *
21560743 AAAGGTCATGATCTTTAGCGGCGTTTGTGGGAAAAACGCCACT
1 AAAGGTCATGTTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
** **
21560786 AAAAATCATGACTTTTAGCGGC
1 AAAGGTCATGTTTTTTAGCGGC
21560808 ATTTTTTTTC
Statistics
Matches: 193, Mismatches: 34, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
41 13 0.07
42 80 0.41
43 100 0.52
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (43 bp):
AAAGGTCATGTTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
Found at i:21560663 original size:42 final size:42
Alignment explanation
Indices: 21560563--21560776 Score: 238
Period size: 42 Copynumber: 5.1 Consensus size: 42
21560553 GTTTGTAGGA
* * *
21560563 AAAGCGCCGCTAAAGATCGTGTTTTTTAGCGGCGTTTGTGGG
1 AAAGCGCCGCTAAAGGTCGTATTTTTTAGCGGCGTTTTTGGG
* *
21560605 AAAAGTGCCGCTAAAGGTCGT-TTCTTTTAGC-GCATTTTTTGGG
1 -AAAGCGCCGCTAAAGGTCGTATT-TTTTAGCGGC-GTTTTTGGG
* * * * *
21560648 GAAGCACCGCTAAAGGTCATGTTTTTTAGCGGCGTTTGTGGG
1 AAAGCGCCGCTAAAGGTCGTATTTTTTAGCGGCGTTTTTGGG
21560690 AACAGCGCCGCTAAA-GTCGTATTTTTTAGCGGCGTTTTTGGG
1 AA-AGCGCCGCTAAAGGTCGTATTTTTTAGCGGCGTTTTTGGG
* * *
21560732 AAAGCGCCGCTAAAGGTCATGA-TCTTTAGCGGCGTTTGTGGG
1 AAAGCGCCGCTAAAGGTCGT-ATTTTTTAGCGGCGTTTTTGGG
21560774 AAA
1 AAA
21560777 AACGCCACTA
Statistics
Matches: 146, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
41 12 0.08
42 86 0.59
43 48 0.33
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.31
Consensus pattern (42 bp):
AAAGCGCCGCTAAAGGTCGTATTTTTTAGCGGCGTTTTTGGG
Found at i:21560742 original size:84 final size:85
Alignment explanation
Indices: 21560563--21560788 Score: 314
Period size: 84 Copynumber: 2.7 Consensus size: 85
21560553 GTTTGTAGGA
* * *
21560563 AAAGCGCCGCTAAAGATCGTGTTTTTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCGTTT
1 AAAGCGCCGCTAAAGGTCATGTTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTTT
*
21560628 CTTTTAGCGCATTTTTTGGG
66 CTTTTAGCGCAGTTTTTGGG
* * *
21560648 GAAGCACCGCTAAAGGTCATGTTTTTTAGCGGCGTTTGTGGGAACAGCGCCGCTAAA-GTCGTAT
1 AAAGCGCCGCTAAAGGTCATGTTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGT-T
21560712 T-TTTTAGCGGC-GTTTTTGGG
65 TCTTTTAGC-GCAGTTTTTGGG
* * * *
21560732 AAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGGAAAAACGCCACTAAA
1 AAAGCGCCGCTAAAGGTCATGTTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAA
21560789 AATCATGACT
Statistics
Matches: 125, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
84 70 0.56
85 55 0.44
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (85 bp):
AAAGCGCCGCTAAAGGTCATGTTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTTT
CTTTTAGCGCAGTTTTTGGG
Found at i:21563335 original size:6 final size:6
Alignment explanation
Indices: 21563317--21563416 Score: 71
Period size: 6 Copynumber: 16.3 Consensus size: 6
21563307 AAGAAACATT
* * *
21563317 ATCAGA A-CTAGA ATCAGA ATTAGA GTCAGA ATCAGA ATCAGA ATTAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
21563364 GTGACAAA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
21563415 AT
1 AT
21563417 GTCAATGCAA
Statistics
Matches: 72, Mismatches: 14, Indels: 16
0.71 0.14 0.16
Matches are distributed among these distances:
5 4 0.06
6 61 0.85
7 5 0.07
8 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:21563345 original size:24 final size:24
Alignment explanation
Indices: 21563318--21563385 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 24
21563308 AGAAACATTA
21563318 TCAGAA-CTAGAATCAGAATTAGAG
1 TCAGAATC-AGAATCAGAATTAGAG
21563342 TCAGAATCAGAATCAGAATTAG-G
1 TCAGAATCAGAATCAGAATTAGAG
*
21563365 TGACAAAATCAGAATCAGAAT
1 T--CAGAATCAGAATCAGAAT
21563386 CAGTATCAGG
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
23 2 0.05
24 20 0.50
25 18 0.45
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (24 bp):
TCAGAATCAGAATCAGAATTAGAG
Found at i:21563380 original size:25 final size:24
Alignment explanation
Indices: 21563326--21563385 Score: 86
Period size: 25 Copynumber: 2.5 Consensus size: 24
21563316 TATCAGAACT
*
21563326 AGAATCAGAATTAGAGTCAGAATC
1 AGAATCAGAATTAGAGTCAAAATC
21563350 AGAATCAGAATTAG-GTGACAAAATC
1 AGAATCAGAATTAGAGT--CAAAATC
21563375 AGAATCAGAAT
1 AGAATCAGAAT
21563386 CAGTATCAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 2 0.06
24 14 0.42
25 17 0.52
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (24 bp):
AGAATCAGAATTAGAGTCAAAATC
Found at i:21563380 original size:31 final size:31
Alignment explanation
Indices: 21563342--21563416 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
21563332 AGAATTAGAG
* *
21563342 TCAGAATCAGAATCAGAATTAGGTGACAAAA
1 TCAGAATCAGAATCAGAATCAGGTAACAAAA
* *
21563373 TCAGAATCAGAATCAGTATCAGGTAACAGAA
1 TCAGAATCAGAATCAGAATCAGGTAACAAAA
*
21563404 TCAAAATCAGAAT
1 TCAGAATCAGAAT
21563417 GTCAATGCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (31 bp):
TCAGAATCAGAATCAGAATCAGGTAACAAAA
Found at i:21563581 original size:27 final size:26
Alignment explanation
Indices: 21563535--21563594 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
21563525 GCGAGGCTGT
21563535 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGTCACCAGA-A
* * *
21563562 CAGATATTGTGGCTAGGTCACCAGAA
1 CAGATATTGTGACGAAGTCACCAGAA
21563588 CAGATAT
1 CAGATAT
21563595 ATATATGTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGTCACCAGAA
Found at i:21563957 original size:27 final size:27
Alignment explanation
Indices: 21563927--21564363 Score: 534
Period size: 27 Copynumber: 16.2 Consensus size: 27
21563917 AACACCCTAG
* *
21563927 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
21563954 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
21563981 GAGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
21564008 GGGTAAAATAATAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
21564035 GGGTAAAATAGTAATTTTGTCAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
21564062 GGGTAAAA-CGATAATTCTGTAAATAGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
*
21564089 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
21564116 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
21564143 GGGTAAAATAGTAATTTTGCAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * * *
21564170 GGGTAAAACAATAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
21564197 GGGTAAAACAGTAATTCTGTCAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * * *
21564224 GGGTAAAATGGTAATTCTATATATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
21564251 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* ** * *
21564278 GGATAAAACGGTAATTTTATAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
21564305 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
21564332 GGGTAAAACAGTAATTTTGTAATTCAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
21564359 GGGTA
1 GGGTA
21564364 CTTTGATAAT
Statistics
Matches: 354, Mismatches: 54, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 1 0.00
27 352 0.99
28 1 0.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTGTAAATCGA
Found at i:21564376 original size:108 final size:108
Alignment explanation
Indices: 21563927--21564363 Score: 622
Period size: 108 Copynumber: 4.0 Consensus size: 108
21563917 AACACCCTAG
* * * *
21563927 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGAGTAAAACAG
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG
* * * *
21563992 TAATTTTGTAAATCGAGGGTAAAATAATAATTTTGTAAATCGA
66 TAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
* * * *
21564035 GGGTAAAATAGTAATTTTGTCAATCGAGGGTAAAACGATAATTCTGTAAATAGAGGGTAAAACAG
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG
*
21564100 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
66 TAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
* **
21564143 GGGTAAAATAGTAATTTTGCAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAACAG
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG
* ** * *
21564208 TAATTCTGTCAATCGAGGGTAAAATGGTAATTCTATATATCGA
66 TAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
* * * *
21564251 GGGTAAAATAGTAATTTTGTAAATCGAGGATAAAACGGTAATTTTATAAATTGAGGGTAAAATAG
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG
* * *
21564316 TAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAATTCAA
66 TAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
21564359 GGGTA
1 GGGTA
21564364 CTTTGATAAT
Statistics
Matches: 292, Mismatches: 37, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
108 292 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.30
Consensus pattern (108 bp):
GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG
TAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
Found at i:21564388 original size:27 final size:26
Alignment explanation
Indices: 21564358--21564488 Score: 145
Period size: 27 Copynumber: 4.8 Consensus size: 26
21564348 TTGTAATTCA
* *
21564358 AGGGTACTTTGATAATTTTACAAGTCG
1 AGGGTA-TTTGGTAATTTTACAAATCG
* *
21564385 AGGGTATTTCAGTAATTTTACAAATTG
1 AGGGTATTT-GGTAATTTTACAAATCG
21564412 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTT-GGTAATTTTACAAATCG
* * *
21564439 AGGATATTTGGGTAATTTTATAAACCG
1 AGGGTATTT-GGTAATTTTACAAATCG
*
21564466 GGGGTACTTTGGTAATTTTACAA
1 AGGGTA-TTTGGTAATTTTACAA
21564489 CTGGGGATAT
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.03
27 83 0.93
28 3 0.03
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (26 bp):
AGGGTATTTGGTAATTTTACAAATCG
Found at i:21564398 original size:54 final size:54
Alignment explanation
Indices: 21564325--21564514 Score: 163
Period size: 54 Copynumber: 3.5 Consensus size: 54
21564315 GTAATTCTGT
*** * *
21564325 AAATCGAGGGTAAAACAGTAATTTTGTAATTCAAGGGTACTTTGATAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTGTAATTCGAGGGTACTTTGGTAATTTTAC
* **
21564379 AAGTCGAGGGTATTTCAGTAATTTTACAAATT-GAGGGTA-TTTCGGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTT-GTAATTCGAGGGTACTTT-GGTAATTTTAC
* ** * ** *
21564433 AAATCGAGGATATTTGGGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTGTAATTCGAGGGTACTTTGGTAATTTTAC
* * *
21564487 AACT-G-GGGATATTTCATTAATTTGGTAA
1 AAATCGAGGG-TATTTCAGTAATTTTGTAA
21564515 ACTAAAGTAT
Statistics
Matches: 107, Mismatches: 24, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
52 2 0.02
53 20 0.19
54 78 0.73
55 7 0.07
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTGTAATTCGAGGGTACTTTGGTAATTTTAC
Found at i:21566104 original size:32 final size:32
Alignment explanation
Indices: 21566025--21566127 Score: 108
Period size: 32 Copynumber: 3.3 Consensus size: 32
21566015 TATGATTTTT
*
21566025 GGTGTTATATATATAAAATATATATGAGTG---G
1 GGTGTTATA-A-ATAATATATATATGAGTGCATG
*
21566056 GGT-TTAT-AATATATATATATATGTGTGCATG
1 GGTGTTATAAATA-ATATATATATGAGTGCATG
* *
21566087 GGTGTTATAAATAATATATATTTGGGTGCATG
1 GGTGTTATAAATAATATATATATGAGTGCATG
21566119 GGTGTTATA
1 GGTGTTATA
21566128 TGTATAATAC
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
27 3 0.05
28 14 0.23
30 4 0.06
31 7 0.11
32 30 0.48
33 4 0.06
ACGTcount: A:0.33, C:0.02, G:0.23, T:0.42
Consensus pattern (32 bp):
GGTGTTATAAATAATATATATATGAGTGCATG
Found at i:21567225 original size:17 final size:17
Alignment explanation
Indices: 21567203--21567277 Score: 53
Period size: 17 Copynumber: 4.4 Consensus size: 17
21567193 TTATGATGGA
21567203 GCATGAACTATTATTTT
1 GCATGAACTATTATTTT
* * *
21567220 GCATGAATTGTTATTTG
1 GCATGAACTATTATTTT
** *
21567237 GTGTGAACTGA-TATTTC
1 GCATGAACT-ATTATTTT
**
21567254 ATATGAACTATTATTTTT
1 GCATGAACTATTA-TTTT
21567272 GCATGA
1 GCATGA
21567278 GCTGTCATTT
Statistics
Matches: 42, Mismatches: 13, Indels: 5
0.70 0.22 0.08
Matches are distributed among these distances:
16 1 0.02
17 34 0.81
18 7 0.17
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.45
Consensus pattern (17 bp):
GCATGAACTATTATTTT
Found at i:21567288 original size:52 final size:51
Alignment explanation
Indices: 21567205--21567313 Score: 155
Period size: 52 Copynumber: 2.1 Consensus size: 51
21567195 ATGATGGAGC
* * **
21567205 ATGAACTATTATTTTGCATGAATTGTTATTTGGTGTGAACTGATATTTCAT
1 ATGAACTATTATTTTGCATGAACTGTCATTTGGTAAGAACTGATATTTCAT
* *
21567256 ATGAACTATTATTTTTGCATGAGCTGTCATTTGGTAAGAACTGTTATTTCAT
1 ATGAACTATTA-TTTTGCATGAACTGTCATTTGGTAAGAACTGATATTTCAT
21567308 ATGAAC
1 ATGAAC
21567314 AAATGTTTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 11 0.22
52 40 0.78
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.44
Consensus pattern (51 bp):
ATGAACTATTATTTTGCATGAACTGTCATTTGGTAAGAACTGATATTTCAT
Found at i:21567313 original size:17 final size:17
Alignment explanation
Indices: 21567240--21567313 Score: 51
Period size: 17 Copynumber: 4.3 Consensus size: 17
21567230 TTATTTGGTG
*
21567240 TGAACTGATATTTCATA
1 TGAACTGTTATTTCATA
* *
21567257 TGAACTATTATTT-TTGCA
1 TGAACTGTTATTTCAT--A
* * **
21567275 TGAGCTGTCATTTGGTA
1 TGAACTGTTATTTCATA
*
21567292 AGAACTGTTATTTCATA
1 TGAACTGTTATTTCATA
21567309 TGAAC
1 TGAAC
21567314 AAATGTTTTA
Statistics
Matches: 41, Mismatches: 13, Indels: 6
0.68 0.22 0.10
Matches are distributed among these distances:
16 1 0.02
17 28 0.68
18 11 0.27
19 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (17 bp):
TGAACTGTTATTTCATA
Found at i:21567794 original size:16 final size:16
Alignment explanation
Indices: 21567773--21567805 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
21567763 CATTGCATTA
21567773 GATAGATGATTGAATG
1 GATAGATGATTGAATG
21567789 GATAGATGATTGAATG
1 GATAGATGATTGAATG
21567805 G
1 G
21567806 TGGATTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.30
Consensus pattern (16 bp):
GATAGATGATTGAATG
Found at i:21570749 original size:19 final size:20
Alignment explanation
Indices: 21570727--21570770 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
21570717 CTTTTCTTAC
*
21570727 TTTTAC-TTTTCTTTCATGA
1 TTTTACATTTTCTTGCATGA
*
21570746 TTTTACATTTTCTTGCATGG
1 TTTTACATTTTCTTGCATGA
21570766 TTTTA
1 TTTTA
21570771 GTATATCTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.16, C:0.14, G:0.09, T:0.61
Consensus pattern (20 bp):
TTTTACATTTTCTTGCATGA
Found at i:21573912 original size:255 final size:255
Alignment explanation
Indices: 21573461--21574210 Score: 1437
Period size: 255 Copynumber: 2.9 Consensus size: 255
21573451 GAAATAACTG
* *
21573461 GTATTATGTCTCGTTTATTGATGTATGCACTCATTTTACATGGATATATCTGCTTCAACAAAAGT
1 GTATTATGTCTCGTTTATTGATGTATGCACTCGTTTTACATGGATATATCTGCTTCGACAAAAGT
*
21573526 CTCAGGCTATGTAGTGTTTTGTTCAGTTTCAGCAACTTGTTAAAACTCAGTTTGGAAAGATGATT
66 CTCAGGCTATGCAGTGTTTTGTTCAGTTTCAGCAACTTGTTAAAACTCAGTTTGGAAAGATGATT
*
21573591 AAACAATTTTAAAGTGATTGGGGTGGAGAGTATCGAGCCTTCACATTTGTTCTAGCTTTGCAAGG
131 AAACAATTTTAAAGTGATTGGGGCGGAGAGTATCGAGCCTTCACATTTGTTCTAGCTTTGCAAGG
*
21573656 GATAGTTCATCGATTGACGTGTCCACATACTTTTGAAAAAAATGGTTCATCGATTGACTT
196 GATAGTTCATCGATTGACGTGTCCACGTACTTTTGAAAAAAATGGTTCATCGATTGACTT
21573716 GTATTATGTCTCGTTTATTGATGTATGCACTCGTTTTACATGGATATATCTGCTTCGACAAAAGT
1 GTATTATGTCTCGTTTATTGATGTATGCACTCGTTTTACATGGATATATCTGCTTCGACAAAAGT
21573781 CTCAGGCTATGCAGTGTTTTGTTCAGTTTCAGCAACTTGTTAAAACTCAGTTTGGAAAGATGATT
66 CTCAGGCTATGCAGTGTTTTGTTCAGTTTCAGCAACTTGTTAAAACTCAGTTTGGAAAGATGATT
21573846 AAACAATTTTAAAGTGATTGGGGCGGAGAGTATCGAGCCTTCACATTTGTTCTAGCTTTGCAAGG
131 AAACAATTTTAAAGTGATTGGGGCGGAGAGTATCGAGCCTTCACATTTGTTCTAGCTTTGCAAGG
21573911 GATAGTTCATCGATTGACGTGTCCACGTACTTTTGAAAAAAATGGTTCATCGATTGACTT
196 GATAGTTCATCGATTGACGTGTCCACGTACTTTTGAAAAAAATGGTTCATCGATTGACTT
21573971 GTATTATGTCTCGTTTATTGATGTATGCACTCGTTTTACATGGATATATCTGCTTCGACAAAAGT
1 GTATTATGTCTCGTTTATTGATGTATGCACTCGTTTTACATGGATATATCTGCTTCGACAAAAGT
21574036 CTCAGGCTATGCAGTGTTTTGTTCAGTTTCAGCAACTTGTTAAAACTCAGTTTGGAAAGATGATT
66 CTCAGGCTATGCAGTGTTTTGTTCAGTTTCAGCAACTTGTTAAAACTCAGTTTGGAAAGATGATT
21574101 AAACAATTTTAAAGTGATTGGGGCGGAGAGTATCGAGCCTTCACATTTGTTCTAGCTTTGCAAGG
131 AAACAATTTTAAAGTGATTGGGGCGGAGAGTATCGAGCCTTCACATTTGTTCTAGCTTTGCAAGG
**
21574166 GATAGTTCATCGATTGACGTGTCCACGTACTTCCGAAAAAAATGG
196 GATAGTTCATCGATTGACGTGTCCACGTACTTTTGAAAAAAATGG
21574211 AGTGGCTGAA
Statistics
Matches: 488, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
255 488 1.00
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (255 bp):
GTATTATGTCTCGTTTATTGATGTATGCACTCGTTTTACATGGATATATCTGCTTCGACAAAAGT
CTCAGGCTATGCAGTGTTTTGTTCAGTTTCAGCAACTTGTTAAAACTCAGTTTGGAAAGATGATT
AAACAATTTTAAAGTGATTGGGGCGGAGAGTATCGAGCCTTCACATTTGTTCTAGCTTTGCAAGG
GATAGTTCATCGATTGACGTGTCCACGTACTTTTGAAAAAAATGGTTCATCGATTGACTT
Found at i:21585276 original size:50 final size:50
Alignment explanation
Indices: 21585143--21585486 Score: 278
Period size: 50 Copynumber: 6.8 Consensus size: 50
21585133 AAGACAGTTT
* * * * **
21585143 TAGGTCGCCTGTGTAGTACTAAGTGCAGGGTACTATGCGTACCCGATAGTT
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT-GGA
* * * * * * *
21585194 TCGATCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTATCAAATGGT
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATGGA
* * * * * *
21585244 TAGGTCATGTGTGTAGTACTAAGTGCAGGCTACCACGTGTACCGGATTGA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATGGA
* * * * * **
21585294 TAGGTCGCATGTGTTGTACTAAGTACAGGCTACTATGCGTACCCG-TTAA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATGGA
* * ** *
21585343 CTTTGATCACGTGTGTAGTACTAAGTGCAGGCTACTACT-TTTATCAGATGGA
1 --TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA-TGCGTACCAGATGGA
* * * * *
21585395 TAAGTGACGTGTGTAGTACGAAGTGCAGGCTACTACGCGTACCAGATTGA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATGGA
* * * *
21585445 TAGGTCGCATGTGTAGTACTGAGTGCATGCTACTATGCGTAC
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
21585487 TAGAGAGCTT
Statistics
Matches: 226, Mismatches: 62, Indels: 11
0.76 0.21 0.04
Matches are distributed among these distances:
49 3 0.01
50 150 0.66
51 70 0.31
52 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATGGA
Found at i:21585377 original size:151 final size:151
Alignment explanation
Indices: 21585143--21585486 Score: 485
Period size: 151 Copynumber: 2.3 Consensus size: 151
21585133 AAGACAGTTT
* * *
21585143 TAGGTCGCCTGTGTAGTACTAAGTGCAGGGTACTATGCGTACCCGATAGTTTCGATCACGTGTGT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATACTTTCGATCACGTGTGT
* * * *
21585208 AGTACTAAGTGCAAGCTACTA-TGTGTATCAAATGGTTAGGTCATGTGTGTAGTACTAAGTGCAG
66 AGTACTAAGTGCAAGCTACTACT-TGTATCAAATGGATAAGTCACGTGTGTAGTACGAAGTGCAG
* *
21585272 GCTACCACGTGTACCGGATTGA
130 GCTACCACGCGTACCAGATTGA
* * *
21585294 TAGGTCGCATGTGTTGTACTAAGTACAGGCTACTATGCGTACCCGTTAACTTT-GATCACGTGTG
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAT-ACTTTCGATCACGTGTG
* * * *
21585358 TAGTACTAAGTGCAGGCTACTACTTTTATCAGATGGATAAGTGACGTGTGTAGTACGAAGTGCAG
65 TAGTACTAAGTGCAAGCTACTACTTGTATCAAATGGATAAGTCACGTGTGTAGTACGAAGTGCAG
*
21585423 GCTACTACGCGTACCAGATTGA
130 GCTACCACGCGTACCAGATTGA
* *
21585445 TAGGTCGCATGTGTAGTACTGAGTGCATGCTACTATGCGTAC
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
21585487 TAGAGAGCTT
Statistics
Matches: 170, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
151 165 0.97
152 5 0.03
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (151 bp):
TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATACTTTCGATCACGTGTGT
AGTACTAAGTGCAAGCTACTACTTGTATCAAATGGATAAGTCACGTGTGTAGTACGAAGTGCAGG
CTACCACGCGTACCAGATTGA
Found at i:21585408 original size:101 final size:101
Alignment explanation
Indices: 21585252--21585437 Score: 248
Period size: 101 Copynumber: 1.8 Consensus size: 101
21585242 GTTAGGTCAT
* * * * *
21585252 GTGTGTAGTACTAAGTGCAGGCTACCACGTGTACCGGATTGATAGGTCGCATGTGTTGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACCACGTGTACCAGATGGATAAGTCGCATGTGTAGTACGAAG
*
21585317 TACAGGCTACTATGCGTACCCGTTAACTTTGATCAC
66 TACAGGCTACTACGCGTACCCGTTAACTTTGATCAC
* * * * *
21585353 GTGTGTAGTACTAAGTGCAGGCTACTACTTTTATCAGATGGATAAGT-GACGTGTGTAGTACGAA
1 GTGTGTAGTACTAAGTGCAGGCTACCACGTGTACCAGATGGATAAGTCG-CATGTGTAGTACGAA
*
21585417 GTGCAGGCTACTACGCGTACC
65 GTACAGGCTACTACGCGTACC
21585438 AGATTGATAG
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
100 1 0.01
101 71 0.99
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (101 bp):
GTGTGTAGTACTAAGTGCAGGCTACCACGTGTACCAGATGGATAAGTCGCATGTGTAGTACGAAG
TACAGGCTACTACGCGTACCCGTTAACTTTGATCAC
Found at i:21586378 original size:180 final size:180
Alignment explanation
Indices: 21586049--21586403 Score: 503
Period size: 180 Copynumber: 2.0 Consensus size: 180
21586039 TCCGAGATCT
* *
21586049 GTACCATGAGATAAATAATCTTTAGTGAAGAAAGATCGGAACTGTCAGATAGTGAAATAGGGGTA
1 GTACCATGAGATAAATAATCTTTAGTGAAGAAAGATCAGAACTGTCAGATAGTGAAATAAGGGTA
** * *
21586114 TCTTTAATGAATAAAATGTACTAATTGGCTAAACCAAAAATTCTTAAAAGTTTATGGGAATAATA
66 AATTTAATGAATAAAATGTACTAATTGGCTAAACCAAAAATTCTGAAAAGTTTATGGGAAGAATA
* * * * *
21586179 CATGTGAGTCTAATTTCTGGTAAAATTATCGGTTCTTAATTTGGAGTCTC
131 CATATGAATCTAATTTCTGGGAAAATTAACGGATCTTAATTTGGAGTCTC
* * * * **
21586229 GTACCATGAGATAAATAATTTTTGGTGAAGAGAGGTCAGAACTGTTGGATAGTGAAATAAGGGTA
1 GTACCATGAGATAAATAATCTTTAGTGAAGAAAGATCAGAACTGTCAGATAGTGAAATAAGGGTA
* * *
21586294 AATTTAATGAATAAATTGTACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAATA
66 AATTTAATGAATAAAATGTACTAATTGGCTAAACCAAAAATTCTGAAAAGTTTATGGGAAGAATA
* **
21586359 TATATGAATCTCGTTTCTGGGAAAATTAACGGATCTTAATTTGGA
131 CATATGAATCTAATTTCTGGGAAAATTAACGGATCTTAATTTGGA
21586404 TTTCTGTAGC
Statistics
Matches: 152, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
180 152 1.00
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (180 bp):
GTACCATGAGATAAATAATCTTTAGTGAAGAAAGATCAGAACTGTCAGATAGTGAAATAAGGGTA
AATTTAATGAATAAAATGTACTAATTGGCTAAACCAAAAATTCTGAAAAGTTTATGGGAAGAATA
CATATGAATCTAATTTCTGGGAAAATTAACGGATCTTAATTTGGAGTCTC
Found at i:21598902 original size:56 final size:56
Alignment explanation
Indices: 21598816--21598935 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
21598806 ACAAGGGATG
21598816 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
21598872 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
21598928 ATGCGCAA
1 ATGGGCAA
21598936 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:21600295 original size:40 final size:40
Alignment explanation
Indices: 21600058--21600281 Score: 278
Period size: 40 Copynumber: 5.6 Consensus size: 40
21600048 TGAATGATGT
* * * *
21600058 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
21600098 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
* *
21600138 CCGGGCTAAG-CCCGAAGGCATTGGTGCAAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
21600176 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
21600217 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
21600257 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
21600282 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
39 34 0.21
40 118 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:21600304 original size:119 final size:119
Alignment explanation
Indices: 21600057--21600284 Score: 291
Period size: 119 Copynumber: 1.9 Consensus size: 119
21600047 TTGAATGATG
* *
21600057 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
* **
21600122 GTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCAAGTTACTAAA
66 GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACAAGTTACTAAA
* * * * *
21600176 TCCGGGTTAAGTCCTGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
* *
21600239 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAAC
64 TTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAAC
21600285 GAGTAGCTAT
Statistics
Matches: 93, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
118 3 0.03
119 69 0.74
120 21 0.23
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACAAGTTACTAAA
Found at i:21604005 original size:27 final size:27
Alignment explanation
Indices: 21603975--21604177 Score: 194
Period size: 27 Copynumber: 7.5 Consensus size: 27
21603965 ATTGAGCCCA
* * *
21603975 CACACTCAGTGCTATATAATCAACTCG
1 CACACTTAGTGCTACATAATCAAATCG
*
21604002 CACACTTAGTGCTACGTAATCAAATCG
1 CACACTTAGTGCTACATAATCAAATCG
*
21604029 CACACTTAGTGCTACGTAATCAAATCG
1 CACACTTAGTGCTACATAATCAAATCG
* * **
21604056 CACACTTAGTGCCACATAGTCCATCTCG
1 CACACTTAGTGCTACATAAT-CAAATCG
** ** *
21604084 CACACTTAGTGCCGCATGGTCAATTCG
1 CACACTTAGTGCTACATAATCAAATCG
**
21604111 CACACTTAGTGC-ATCAT-ATCCATTTCG
1 CACACTTAGTGCTA-CATAAT-CAAATCG
* * *
21604138 CACACTTAGTGCAACATAGTCGAATCG
1 CACACTTAGTGCTACATAATCAAATCG
21604165 CACACTTAGTGCT
1 CACACTTAGTGCT
21604178 GTACAATTTA
Statistics
Matches: 150, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 124 0.83
28 25 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CACACTTAGTGCTACATAATCAAATCG
Found at i:21604057 original size:54 final size:55
Alignment explanation
Indices: 21603975--21604177 Score: 214
Period size: 54 Copynumber: 3.7 Consensus size: 55
21603965 ATTGAGCCCA
* * * * *
21603975 CACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAAT-CAAATCG
1 CACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAATCCATATCG
* * * *
21604029 CACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCATCTCG
1 CACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAATCCATATCG
** ** * *
21604084 CACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCAT-ATCCATTTCG
1 CACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTA-CATAATCCATATCG
* * *
21604138 CACACTTAGTGCAACATAGTCGAATCGCACACTTAGTGCT
1 CACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCT
21604178 GTACAATTTA
Statistics
Matches: 124, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
54 83 0.67
55 41 0.33
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (55 bp):
CACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAATCCATATCG
Found at i:21604090 original size:82 final size:81
Alignment explanation
Indices: 21603997--21604177 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 81
21603987 TATATAATCA
* *
21603997 ACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGC-TACGTAAT-CAAATCGCACA
1 ACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAT-CAT-ATCCAAATCGCACA
*
21604060 CTTAGTGCCACATAGTCC
64 CTTAGTGCAACATAGTCC
** ** * **
21604078 ATCTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGCATCATATCCATTTCGCACAC
1 A-CTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCATCATATCCAAATCGCACAC
*
21604143 TTAGTGCAACATAGTCG
65 TTAGTGCAACATAGTCC
*
21604160 AATCGCACACTTAGTGCT
1 ACTCGCACACTTAGTGCT
21604178 GTACAATTTA
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
81 18 0.21
82 65 0.77
83 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (81 bp):
ACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCATCATATCCAAATCGCACACT
TAGTGCAACATAGTCC
Found at i:21612174 original size:27 final size:27
Alignment explanation
Indices: 21612144--21612348 Score: 198
Period size: 27 Copynumber: 7.6 Consensus size: 27
21612134 TTATTGAGCC
* * *
21612144 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
21612171 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
21612198 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
* * **
21612225 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCTACATAAT-CAAAT
** ** *
21612253 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
**
21612280 CGCACACTTAGTGC-ATCAT-ATCCATTT
1 CGCACACTTAGTGCTA-CATAAT-CAAAT
* * *
21612307 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACATAATCAAAT
21612334 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21612349 GTACAATTTA
Statistics
Matches: 152, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
26 1 0.01
27 126 0.83
28 25 0.16
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:21612228 original size:54 final size:55
Alignment explanation
Indices: 21612144--21612348 Score: 218
Period size: 54 Copynumber: 3.8 Consensus size: 55
21612134 TTATTGAGCC
* * * * *
21612144 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAAT-CAAAT
1 CGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAATCCATAT
* * * *
21612198 CGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAATCCATAT
** ** * *
21612253 CGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCAT-ATCCATTT
1 CGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTA-CATAATCCATAT
* * *
21612307 CGCACACTTAGTGCAACATAGTCGAATCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCT
21612349 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
54 85 0.67
55 41 0.33
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAATCCATAT
Found at i:21612263 original size:82 final size:81
Alignment explanation
Indices: 21612144--21612348 Score: 216
Period size: 82 Copynumber: 2.5 Consensus size: 81
21612134 TTATTGAGCC
* * * * * *
21612144 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAG
1 CGCACACTTAGTGCAACATAGTCCACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAG
*
21612209 TGC-TACGTAAT-CAAAT
66 TGCAT-CAT-ATCCAAAT
* ** ** *
21612225 CGCACACTTAGTGCCACATAGTCCATCTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
1 CGCACACTTAGTGCAACATAGTCCA-CTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
**
21612290 GTGCATCATATCCATTT
65 GTGCATCATATCCAAAT
* *
21612307 CGCACACTTAGTGCAACATAGTCGAATCGCACACTTAGTGCT
1 CGCACACTTAGTGCAACATAGTCCACTCGCACACTTAGTGCT
21612349 GTACAATTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
81 37 0.36
82 65 0.63
83 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (81 bp):
CGCACACTTAGTGCAACATAGTCCACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAG
TGCATCATATCCAAAT
Found at i:21618327 original size:24 final size:24
Alignment explanation
Indices: 21618299--21618350 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
21618289 TTAGTAGGTC
* *
21618299 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* * *
21618323 AAATATATTATACTAATATATACT
1 AAATAAACTATACTAATAAATACT
21618347 AAAT
1 AAAT
21618351 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:21631611 original size:39 final size:39
Alignment explanation
Indices: 21631567--21631647 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
21631557 ATTATATTAT
21631567 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
* *
21631606 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
21631645 CAG
1 CAG
21631648 TGTCTTGCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (39 bp):
CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
Found at i:21641051 original size:27 final size:27
Alignment explanation
Indices: 21641021--21641199 Score: 207
Period size: 27 Copynumber: 6.6 Consensus size: 27
21641011 ATATTGAGTC
* * * *
21641021 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
21641048 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21641075 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
21641103 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
21641130 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
21641157 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21641184 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
21641200 TACAATTTAA
Statistics
Matches: 131, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
27 107 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:21641160 original size:82 final size:81
Alignment explanation
Indices: 21641042--21641197 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21641032 TGCTATATAA
* *
21641042 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
21641107 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
21641124 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
21641188 CACTTAGTGC
65 CACTTAGTGC
21641198 TATACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Done.