Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 62 of 292
Found at i:18527444 original size:28 final size:29
Alignment explanation
Indices: 18527402--18527488 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
18527392 CAAGTCTACA
* *
18527402 CACATGCATACGGCCCACTAGGCCC-AAT
1 CACATTCATATGGCCCACTAGGCCCAAAT
* *
18527430 CTCATTCATATGGCCCATTAGGCCCAAAT
1 CACATTCATATGGCCCACTAGGCCCAAAT
* *
18527459 CACATTCATATTGCCCATCT-GGACCAAAT
1 CACATTCATATGGCCCA-CTAGGCCCAAAT
18527488 C
1 C
18527489 TATTCCAAGC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
28 21 0.43
29 27 0.55
30 1 0.02
ACGTcount: A:0.29, C:0.34, G:0.14, T:0.23
Consensus pattern (29 bp):
CACATTCATATGGCCCACTAGGCCCAAAT
Found at i:18527469 original size:29 final size:28
Alignment explanation
Indices: 18527402--18527476 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
18527392 CAAGTCTACA
* * *
18527402 CACATGCATACGGCCCACTAGGCCCAAT
1 CACATTCATATGGCCCATTAGGCCCAAT
*
18527430 CTCATTCATATGGCCCATTAGGCCCAAAT
1 CACATTCATATGGCCCATTAGGCCC-AAT
*
18527459 CACATTCATATTGCCCAT
1 CACATTCATATGGCCCAT
18527477 CTGGACCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 21 0.52
29 19 0.47
ACGTcount: A:0.28, C:0.35, G:0.13, T:0.24
Consensus pattern (28 bp):
CACATTCATATGGCCCATTAGGCCCAAT
Found at i:18531297 original size:29 final size:28
Alignment explanation
Indices: 18531231--18531305 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
18531221 CAAGTCTACA
* * * *
18531231 CACATGCATATAGCCCACTAGGCCCAAT
1 CACATTCATATGGCCCATTAAGCCCAAT
*
18531259 CTCATTCATATGGCCCATTAAGCCCAAAT
1 CACATTCATATGGCCCATTAAGCCC-AAT
18531288 CACATTCATATGGCCCAT
1 CACATTCATATGGCCCAT
18531306 CTGGCCCGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 20 0.50
29 20 0.50
ACGTcount: A:0.31, C:0.33, G:0.12, T:0.24
Consensus pattern (28 bp):
CACATTCATATGGCCCATTAAGCCCAAT
Found at i:18531312 original size:29 final size:29
Alignment explanation
Indices: 18531231--18531322 Score: 102
Period size: 29 Copynumber: 3.2 Consensus size: 29
18531221 CAAGTCTACA
* *
18531231 CACATGCATATAGCCCA-CTAGGCCCAAT
1 CACATTCATATGGCCCATCTAGGCCCAAT
* *
18531259 CTCATTCATATGGCCCAT-TAAGCCCAAAT
1 CACATTCATATGGCCCATCTAGGCCC-AAT
18531288 CACATTCATATGGCCCATCT-GGCCCGAAT
1 CACATTCATATGGCCCATCTAGGCCC-AAT
18531317 CA-ATTC
1 CACATTC
18531323 CAAGCCATGT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
28 24 0.44
29 29 0.54
30 1 0.02
ACGTcount: A:0.29, C:0.34, G:0.13, T:0.24
Consensus pattern (29 bp):
CACATTCATATGGCCCATCTAGGCCCAAT
Found at i:18543094 original size:29 final size:29
Alignment explanation
Indices: 18543062--18543136 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
18543052 AATCATATTC
*
18543062 ATATGGCCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
18543091 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
18543120 ATATGGCCCATTAGGCC
1 ATATGGCCCATTAGGCC
18543137 TAGTCACATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:18545551 original size:14 final size:13
Alignment explanation
Indices: 18545532--18545565 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
18545522 ACTTGATTTC
18545532 TTCTTAATTATGTG
1 TTCTTAATTAT-TG
18545546 TTCTTAATTATTG
1 TTCTTAATTATTG
18545559 TT-TTAAT
1 TTCTTAAT
18545566 ATTCCAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.25
13 4 0.20
14 11 0.55
ACGTcount: A:0.24, C:0.06, G:0.09, T:0.62
Consensus pattern (13 bp):
TTCTTAATTATTG
Found at i:18551578 original size:20 final size:20
Alignment explanation
Indices: 18551555--18551593 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18551545 AAGACTTTAC
* *
18551555 TTTATTTTTATTTTTATTTG
1 TTTACTTTTATCTTTATTTG
18551575 TTTACTTTTATCTTTATTT
1 TTTACTTTTATCTTTATTT
18551594 ACCTTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTACTTTTATCTTTATTTG
Found at i:18567542 original size:47 final size:47
Alignment explanation
Indices: 18567488--18567766 Score: 461
Period size: 47 Copynumber: 6.0 Consensus size: 47
18567478 TTAGGATTTT
** * *
18567488 ATGTGATGAATGTGAATGTGTACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
18567535 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
18567582 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC-
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
18567628 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
18567675 ATGTGATGAACGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
18567722 ATGTGGTGAATGTGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
18567767 TAGTGTGAAA
Statistics
Matches: 218, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
46 46 0.21
47 172 0.79
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:18567641 original size:140 final size:140
Alignment explanation
Indices: 18567488--18567766 Score: 468
Period size: 140 Copynumber: 2.0 Consensus size: 140
18567478 TTAGGATTTT
** * *
18567488 ATGTGATGAATGTGAATGTGTACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAACGTGAACA
*
18567553 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
66 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAAG
18567618 CCGAATGGCC
131 CCGAATGGCC
* *
18567628 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAACGTGAGCA
1 ATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAACGTGAACA
* * *
18567693 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATGTGAACATGCATATATGTGGTAAAG
66 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAAG
18567758 CCGAATGGC
131 CCGAATGGC
18567767 TAGTGTGAAA
Statistics
Matches: 129, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
140 129 1.00
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (140 bp):
ATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAACGTGAACA
TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAAG
CCGAATGGCC
Found at i:18567667 original size:93 final size:94
Alignment explanation
Indices: 18567488--18567766 Score: 461
Period size: 93 Copynumber: 3.0 Consensus size: 94
18567478 TTAGGATTTT
** * *
18567488 ATGTGATGAATGTGAATGTGTACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
18567553 TGCATATATGTGATAAGGCCGAATGGCCA
66 TGCATATATGTGATAAGGCCGAATGGCCA
18567582 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC-ATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
18567646 TGCATATATGTGATAAGGCCGAATGGCCA
66 TGCATATATGTGATAAGGCCGAATGGCCA
* * * *
18567675 ATGTGATGAACGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
18567740 TGCATATATGTGGTAAAGCCGAATGGC
66 TGCATATATGTGATAAGGCCGAATGGC
18567767 TAGTGTGAAA
Statistics
Matches: 174, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
93 90 0.52
94 84 0.48
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATATGTGATAAGGCCGAATGGCCA
Found at i:18567730 original size:25 final size:25
Alignment explanation
Indices: 18567655--18567730 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
18567645 ATGCATATAT
18567655 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
18567680 ATGA-ACGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
18567702 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
18567727 GTGA
1 GTGA
18567731 ATGTGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.22
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:18568010 original size:37 final size:37
Alignment explanation
Indices: 18567929--18568035 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
18567919 GGAAATATAT
18567929 TCCGGGT-AGACCCGATGACTACGTGTGGAGA-TTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
18567964 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
18568001 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
18568036 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
35 7 0.10
36 24 0.35
37 37 0.54
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:18569359 original size:40 final size:40
Alignment explanation
Indices: 18569302--18569626 Score: 488
Period size: 40 Copynumber: 8.1 Consensus size: 40
18569292 GAGAATTGAG
* *
18569302 AGTGATATATCCAGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
18569342 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
*
18569382 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
* ** *
18569422 AGTGATGTATCTGAACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
*
18569462 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
* * *
18569502 AGCGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
* * *
18569542 AGTGATGTATCCGGACTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
** * *
18569582 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCAATCATGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
18569622 AGTGA
1 AGTGA
18569627 CGTGTATTCG
Statistics
Matches: 261, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 261 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
Found at i:18569822 original size:27 final size:27
Alignment explanation
Indices: 18569789--18569847 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
18569779 TGTGTAATAA
18569789 CGAATGAATAAGA-GCACTATGTGTGTG
1 CGAATG-ATAAGAGGCACTATGTGTGTG
* * *
18569816 TGAATGATTAGAGGCACTGTGTGTGTG
1 CGAATGATAAGAGGCACTATGTGTGTG
18569843 CGAAT
1 CGAAT
18569848 TCCTTTAACC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.29, C:0.10, G:0.32, T:0.29
Consensus pattern (27 bp):
CGAATGATAAGAGGCACTATGTGTGTG
Found at i:18573574 original size:47 final size:47
Alignment explanation
Indices: 18573520--18573799 Score: 443
Period size: 47 Copynumber: 6.0 Consensus size: 47
18573510 TTAGGATTTT
** *
18573520 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
18573567 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
18573614 ATGTGATGAATGTGAACATGCATGTATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
18573661 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * **
18573708 ATGTGATGAACGTGAGCATGCATATGGGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
18573755 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
18573800 TAGTGTGAAA
Statistics
Matches: 214, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 214 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:18573762 original size:25 final size:25
Alignment explanation
Indices: 18573688--18573763 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
18573678 ATGCATATAT
18573688 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
18573713 ATGA-ACGTG-AGCAT-G-CATATG-G
1 GTGATAAG-GCCGAATGGCCA-ATGTG
18573735 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
18573760 GTGA
1 GTGA
18573764 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 7 0.19
23 9 0.25
24 9 0.25
25 11 0.31
ACGTcount: A:0.29, C:0.14, G:0.36, T:0.21
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:18574011 original size:37 final size:37
Alignment explanation
Indices: 18573961--18574069 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
18573951 GGAAATATAT
*
18573961 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
18573998 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
18574035 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
18574070 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:18577526 original size:37 final size:37
Alignment explanation
Indices: 18577476--18577561 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 37
18577466 TTATTACGAA
*
18577476 GTCTTACCCGGACATAATCTCTACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
18577513 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
18577550 GTCTTACCCGGA
1 GTCTTACCCGGA
18577562 ATATATTTCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:18577677 original size:48 final size:48
Alignment explanation
Indices: 18577606--18578019 Score: 783
Period size: 48 Copynumber: 8.6 Consensus size: 48
18577596 TGTTACAACA
* *
18577606 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
18577654 TTCACATTAGCCATTCTGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
18577702 TTCACATTAGCCATTCGGCTTTACCACATATACATAACACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
18577750 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
18577798 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
18577846 TTCACATTAGCCATTCGGCTTTACCACATATACATAACACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
18577894 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
18577942 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
18577990 TTCACATTAGCCATTCGGCTTTACCACATA
1 TTCACATTAGCCATTCGGCTTTACCACATA
18578020 ATTACACTTT
Statistics
Matches: 358, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 358 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
Found at i:18579536 original size:13 final size:13
Alignment explanation
Indices: 18579518--18579542 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18579508 CACTAAATTT
18579518 TCATGGATTCAAA
1 TCATGGATTCAAA
18579531 TCATGGATTCAA
1 TCATGGATTCAA
18579543 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:18581663 original size:6 final size:7
Alignment explanation
Indices: 18581645--18581678 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
18581635 TTAAATCTGC
18581645 TAAAAAT
1 TAAAAAT
18581652 ATAAAAA-
1 -TAAAAAT
18581659 TAAAAAT
1 TAAAAAT
18581666 TAAAAAT
1 TAAAAAT
18581673 TAAAAA
1 TAAAAA
18581679 GTAGTTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.24
7 13 0.52
8 6 0.24
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAAAAT
Found at i:18594360 original size:66 final size:68
Alignment explanation
Indices: 18594282--18594468 Score: 263
Period size: 71 Copynumber: 2.7 Consensus size: 68
18594272 TAGTACCACT
*
18594282 CATGCGACCCAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAAT
1 CATGCGACCCAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAAT
18594344 CACG
65 CACG
*
18594348 CATGCGACCCAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCCAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGA
18594413 ATCACG
63 ATCACG
*
18594419 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCCAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
18594469 GATACATCTC
Statistics
Matches: 112, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
66 13 0.12
67 6 0.05
68 1 0.01
69 1 0.01
71 91 0.81
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.33
Consensus pattern (68 bp):
CATGCGACCCAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATC
ACG
Found at i:18594393 original size:71 final size:71
Alignment explanation
Indices: 18594305--18594468 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
18594295 CGATTTGTCT
18594305 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
18594370 CTTTCA
66 CTTTCA
* *
18594376 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
18594441 CTTTCA
66 CTTTCA
18594447 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
18594469 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:18594506 original size:71 final size:70
Alignment explanation
Indices: 18594305--18594502 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
18594295 CGATTTGTCT
* * * * *
18594305 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18594370 CTTTCA
65 CTTTCA
* * * *
18594376 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18594441 CTTTCA
65 CTTTCA
* *
18594447 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
18594503 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:18601933 original size:71 final size:71
Alignment explanation
Indices: 18601849--18602012 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
18601839 CGATTTGTCT
18601849 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
18601914 CTTTCA
66 CTTTCA
* *
18601920 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
18601985 CTTTCA
66 CTTTCA
18601991 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
18602013 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:18602050 original size:71 final size:70
Alignment explanation
Indices: 18601849--18602046 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
18601839 CGATTTGTCT
* * * * *
18601849 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18601914 CTTTCA
65 CTTTCA
* * * *
18601920 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18601985 CTTTCA
65 CTTTCA
* *
18601991 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
18602047 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:18620866 original size:40 final size:40
Alignment explanation
Indices: 18620821--18620950 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
18620811 CGGAATATAA
18620821 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
18620861 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
18620901 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
18620941 CCGGATATAA
1 CCGGATATAA
18620951 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:18620965 original size:40 final size:39
Alignment explanation
Indices: 18620837--18620987 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
18620827 ATAACCATGT
* * *
18620837 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
18620877 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
18620917 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
18620956 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
18620988 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:18620971 original size:80 final size:79
Alignment explanation
Indices: 18620821--18620987 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
18620811 CGGAATATAA
*
18620821 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
18620886 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
18620901 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
18620963 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
18620980 CCGGATAT
1 CCGGATAT
18620988 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:18628386 original size:40 final size:40
Alignment explanation
Indices: 18628341--18628470 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
18628331 CGGAATATAA
18628341 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
18628381 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
18628421 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
18628461 CCGGATATAA
1 CCGGATATAA
18628471 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:18628485 original size:40 final size:39
Alignment explanation
Indices: 18628357--18628507 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
18628347 ATAACCATGT
* * *
18628357 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
18628397 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
18628437 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
18628476 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
18628508 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:18628491 original size:80 final size:79
Alignment explanation
Indices: 18628341--18628507 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
18628331 CGGAATATAA
*
18628341 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
18628406 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
18628421 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
18628483 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
18628500 CCGGATAT
1 CCGGATAT
18628508 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:18637031 original size:28 final size:28
Alignment explanation
Indices: 18636999--18637055 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
18636989 ATGGTGTTAG
18636999 ACTTTTAATGAATCCAAAACCATCAATC
1 ACTTTTAATGAATCCAAAACCATCAATC
18637027 ACTTTTAATGAATCCAAAACCATCAATC
1 ACTTTTAATGAATCCAAAACCATCAATC
18637055 A
1 A
18637056 TTCAAACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.25, G:0.04, T:0.28
Consensus pattern (28 bp):
ACTTTTAATGAATCCAAAACCATCAATC
Found at i:18637261 original size:53 final size:54
Alignment explanation
Indices: 18637188--18637295 Score: 123
Period size: 53 Copynumber: 2.0 Consensus size: 54
18637178 AATTAAATTA
* * * *
18637188 TAAATTTTTATAAGAGTTAAAAT-GTAATTATT-TTAT-TATAAATTTATAATTTT
1 TAAATTTTTAAAAAAATT-AAATCGTAATT-TTATTATATATAAACTTATAATTTT
* *
18637241 TAAATTTTTAAAAAAATTAAATCTTAATTTTATTATATATTAACTTATAATTTT
1 TAAATTTTTAAAAAAATTAAATCGTAATTTTATTATATATAAACTTATAATTTT
18637295 T
1 T
18637296 TAGAAATACT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
52 6 0.13
53 24 0.52
54 16 0.35
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.53
Consensus pattern (54 bp):
TAAATTTTTAAAAAAATTAAATCGTAATTTTATTATATATAAACTTATAATTTT
Found at i:18644385 original size:37 final size:37
Alignment explanation
Indices: 18644327--18644471 Score: 254
Period size: 37 Copynumber: 3.9 Consensus size: 37
18644317 GCTCAGACGA
* *
18644327 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
18644364 ACTCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
18644401 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
18644438 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
18644472 ATATATTTCC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:18644587 original size:48 final size:48
Alignment explanation
Indices: 18644516--18644997 Score: 766
Period size: 48 Copynumber: 10.0 Consensus size: 48
18644506 TGTTACAACA
* *
18644516 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
18644564 TTCACGTTCGCCATTCGGTTTTACGACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
18644612 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
18644660 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
18644708 TTCACATTAGCCATTCGGCTTTACTACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
18644756 TTCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
18644804 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
18644852 TTCACATTAGCCATTCGACTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
18644900 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATC-T-CATATATAT
* *
18644950 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
18644998 ATATTTATCT
Statistics
Matches: 396, Mismatches: 36, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
48 351 0.89
50 45 0.11
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:18648815 original size:19 final size:19
Alignment explanation
Indices: 18648791--18648848 Score: 102
Period size: 19 Copynumber: 3.2 Consensus size: 19
18648781 AATCTTTAAG
18648791 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
18648810 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
18648829 GATAT--AATCTTAGATAT
1 GATATGCAATCTTAGATAT
18648846 GAT
1 GAT
18648849 TTTGTAATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
17 15 0.38
19 24 0.62
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:18649822 original size:15 final size:15
Alignment explanation
Indices: 18649802--18649837 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
18649792 CGTTTTGTTG
18649802 TTTCGAGATAGAAAT
1 TTTCGAGATAGAAAT
18649817 TTTCGAGATAGAAAT
1 TTTCGAGATAGAAAT
18649832 TTTCGA
1 TTTCGA
18649838 AAGATGAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.36
Consensus pattern (15 bp):
TTTCGAGATAGAAAT
Found at i:18655573 original size:48 final size:48
Alignment explanation
Indices: 18655419--18655566 Score: 224
Period size: 48 Copynumber: 3.1 Consensus size: 48
18655409 ATATATACAC
* **
18655419 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
** * *
18655467 GGCTCATACATATTTCACATTAGCCTTTCGACTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
*
18655515 ATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
18655563 ATCT
1 ATCT
18655567 TGTACATCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:18656881 original size:26 final size:27
Alignment explanation
Indices: 18656836--18656888 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
18656826 TTAAATTCCG
* *
18656836 GCATGCATTCGGACACTTAAAAATTCA
1 GCATACATTCGAACACTTAAAAATTCA
*
18656863 GCATACATTCGAACA-TTAAAATTTCA
1 GCATACATTCGAACACTTAAAAATTCA
18656889 CTAGCTGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (27 bp):
GCATACATTCGAACACTTAAAAATTCA
Found at i:18658313 original size:6 final size:6
Alignment explanation
Indices: 18658245--18658305 Score: 69
Period size: 6 Copynumber: 10.8 Consensus size: 6
18658235 CTTCTATTTC
*
18658245 AAAAA- AAAAAG -AAAAG AAAAAG AAAAAG AAAATAT AAAAAG --AAA-
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA-AG AAAAAG AAAAAG
18658289 AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAA
18658306 AAGAAAAATG
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
4 3 0.06
5 13 0.27
6 27 0.56
7 5 0.10
ACGTcount: A:0.85, C:0.00, G:0.11, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:18659637 original size:205 final size:205
Alignment explanation
Indices: 18659255--18660823 Score: 2424
Period size: 205 Copynumber: 7.7 Consensus size: 205
18659245 GTAGATCTGG
*
18659255 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
* *
18659320 GATTTGGTTTTCACGTGCTTATGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* ** *
18659385 AGAACAAATCGAAGTTTCACATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACCTTC
130 AGAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTC
18659450 AGATGTTTATA
195 AGATGTTTATA
* * *
18659461 CTAAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTATAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * *
18659526 ATTTGGCTTTCACGTGTTTACGCTGAAGTAAATCTAAGATGATTTGGCATCTCTGTATTGTCAAA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * **
18659591 GAACAAATCGAAGTCTGGCATCTCTATTTTGACGGAGAATAGATACATAGCAGATCTAA-CTGTC
131 GAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCT-TC
18659655 AGATGTTTATA
195 AGATGTTTATA
* ** *
18659666 CTAAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATTAAAAACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
*
18659731 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
18659796 AAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAACAGACACATAGCAGATCTAACCTTCA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
18659861 GATG---AT-
196 GATGTTTATA
* * *
18659867 -TGAAGCAGATCCAAGATGGTTTGGCATCTTTCTGCTTACAAGGAACAAATCGAAGGCATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * * * *
18659931 ATTTGGTTTTCGCGTACTTACGCTGAAGCAAATCTAAGATGACTTGGCATCTCTGTATTGTTAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
18659996 GAACAAATCGAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTCA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
18660061 GATGTTTATA
196 GATGTTTATA
* * *
18660071 CTAAAGCAGATCCAAGATGGTTTGGCATCCCTGTGCTTACAAGGAACAAATCAAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* *
18660136 ATTTGGCTTTCACATGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* *
18660201 GAACAAATCGAAGTTTCGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
18660266 GATGTTTATA
196 GATGTTTATA
*
18660276 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * *
18660341 ATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTTTCAAA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
18660406 GAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCATATACATAGCAGATCTAATCGTCA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
18660471 GATGTTTATA
196 GATGTTTATA
* * **
18660481 CTGAAGTAGATCCAAGATAGTTTGGCATCCTTGTGCTTACAAGGAACAAATTAAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * *
18660546 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGTATCTCTATATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
18660611 GAACAAATCGAAGTCTGGCATCTCTATTTCGACGGAGAACAGATACATAGCAGATCTAACCTTTA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
18660676 GATG-----A
196 GATGTTTATA
* * * *
18660681 CTGAAGTAGATCCAAGATGGTTTGGCATCTTTGTGCTTA-AAGGGAACAAATCGAAGGCATAGAT
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAA-GGAACAAATCGAAGACATAGCT
* * * * *
18660745 GATTTGGTTTTCGCGTGCTTACGCTGAAGTAAATCTAAGATGATTTGGCATCTCTGTATTGTTAT
65 GATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
18660810 AGAACAAATCGAAG
130 AGAACAAATCGAAG
18660824 AAACAGATTT
Statistics
Matches: 1248, Mismatches: 107, Indels: 22
0.91 0.08 0.02
Matches are distributed among these distances:
199 2 0.00
200 308 0.25
202 2 0.00
203 2 0.00
204 2 0.00
205 924 0.74
206 8 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (205 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
GATGTTTATA
Found at i:18660422 original size:610 final size:611
Alignment explanation
Indices: 18659256--18660823 Score: 2452
Period size: 610 Copynumber: 2.6 Consensus size: 611
18659246 TAGATCTGGC
*
18659256 TGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 TGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
*
18659321 ATTTGGTTTTCACGTGCTTATGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
65 ATTTGGTTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* ** *
18659386 GAACAAATCGAAGTTTCACATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACCTTCA
130 GAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
*
18659451 GATGTTTATACTAAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTATAAGGAACAAATCGAA
195 GATGTTTATACTAAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTA-AAGGAACAAATCGAA
18659516 GACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAGTAAATCTAAGATGATTTGGCATCTCTG
259 GACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAGTAAATCTAAGATGATTTGGCATCTCTG
* * * *
18659581 TATTGTCAAAGAACAAATCGAAGTCTGGCATCTCTATTTTGACGGAGAATAGATACATAGCAGAT
324 TATTGTCAAAGAACAAATCGAAGTCTCGCATCTCCATTTCGACGGAGAACAGATACATAGCAGAT
18659646 CTAACTGTCAGATGTTTATACTAAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGA
389 CTAACTGTCAGATGTTTATACTAAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGA
*
18659711 ACAAATTAAAAACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTT
454 ACAAATCAAAAACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTT
18659776 GGCATCTCTGTATTGTCAGAAAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAACAGACA
519 GGCATCTCTGTATTGTCAGAAAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAACAGACA
*
18659841 CATAGCAGATCTAACCTTCAGATG-AT-
584 CATAGCAGATCTAACCGTCAGATGTATA
* * *
18659867 TGAAGCAGATCCAAGATGGTTTGGCATCTTTCTGCTTACAAGGAACAAATCGAAGGCATAGCTGA
1 TGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGA
* * * *
18659932 TTTGGTTTTCGCGTACTTACGCTGAAGCAAATCTAAGATGACTTGGCATCTCTGTATTGTTAGAG
66 TTTGGTTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
*
18659997 AACAAATCGAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTCAG
131 AACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAG
* *
18660062 ATGTTTATACTAAAGCAGATCCAAGATGGTTTGGCATCCCTGTGCTTACAAGGAACAAATCAAAG
196 ATGTTTATACTAAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTA-AAGGAACAAATCGAAG
* *
18660127 ACATAGCTGATTTGGCTTTCACATGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGT
260 ACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAGTAAATCTAAGATGATTTGGCATCTCTGT
* * *
18660192 ATTGTCAGAGAACAAATCGAAGTTTCGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATC
325 ATTGTCAAAGAACAAATCGAAGTCTCGCATCTCCATTTCGACGGAGAACAGATACATAGCAGATC
* *
18660257 TAACCT-TCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTATAAGGA
390 TAA-CTGTCAGATGTTTATACTAAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGA
* * * *
18660321 ACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTT
454 ACAAATCAAAAACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTT
* * * *
18660386 GGCATCTCTGTATTTTCA-AAGAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCATAT
519 GGCATCTCTGTATTGTCAGAA-AACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAACAGAC
*
18660450 ACATAGCAGATCTAATCGTCAGATGTTTATA
583 ACATAGCAGATCTAACCGTCAGATG--TATA
* * **
18660481 CTGAAGTAGATCCAAGATAGTTTGGCATCCTTGTGCTTACAAGGAACAAATTAAAGACATAGCTG
1 -TGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * * *
18660546 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGTATCTCTATATTGTCAGA
65 ATTTGGTTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
18660611 GAACAAATCGAAGTCTGGCATCTCTATTTCGACGGAGAACAGATACATAGCAGATCTAACCTTTA
130 GAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
* * *
18660676 GATG-----ACTGAAGTAGATCCAAGATGGTTTGGCATCTTTGTGCTTAAAGGGAACAAATCGAA
195 GATGTTTATACTAAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTAAA-GGAACAAATCGAA
* * * * *
18660736 GGCATAGATGATTTGGTTTTCGCGTGCTTACGCTGAAGTAAATCTAAGATGATTTGGCATCTCTG
259 GACATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAGTAAATCTAAGATGATTTGGCATCTCTG
* *
18660801 TATTGTTATAGAACAAATCGAAG
324 TATTGTCAAAGAACAAATCGAAG
18660824 AAACAGATTT
Statistics
Matches: 876, Mismatches: 73, Indels: 17
0.91 0.08 0.02
Matches are distributed among these distances:
609 4 0.00
610 683 0.78
611 8 0.01
613 2 0.00
615 179 0.20
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (611 bp):
TGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGA
TTTGGTTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
AACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAG
ATGTTTATACTAAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTAAAGGAACAAATCGAAGA
CATAGCTGATTTGGCTTTCACGTGTTTACGCTGAAGTAAATCTAAGATGATTTGGCATCTCTGTA
TTGTCAAAGAACAAATCGAAGTCTCGCATCTCCATTTCGACGGAGAACAGATACATAGCAGATCT
AACTGTCAGATGTTTATACTAAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAAC
AAATCAAAAACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGG
CATCTCTGTATTGTCAGAAAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAACAGACACA
TAGCAGATCTAACCGTCAGATGTATA
Found at i:18661145 original size:261 final size:261
Alignment explanation
Indices: 18660680--18661167 Score: 687
Period size: 261 Copynumber: 1.9 Consensus size: 261
18660670 CCTTTAGATG
* * * * *
18660680 ACTGAAGTAGATCCAAGATGGTTTGGCATCTTTGTGCTTAAAGGGAACAAATCGAAGGCATAGAT
1 ACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTAAAGGGAACAAATCGAAGACACAGAT
* * * * *
18660745 GATTTGGTTTTCGCGTGCTTACGCTGAAGTAAATCTAAGATGATTTGGCATCTCTGTATTGTTAT
66 AATTTGGCTTTCACGTGCTTACGCTGAAGTAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * * *
18660810 AGAACAAATCGAAGAAACAGATTTGGCGTCTCTGTATTCGGCGGAGAGTAAATCGAAGATATCAA
131 AAAAAAAATCGAAGAAACAAATTTGGCGTCTCTGTATTCGACGGAGAGCAAATCGAAGATATCAA
18660875 CAGGACAGTCATAAGTTTACAA-GAAGCAGATTAAAGACATAGTAGATCTGACCTTCAGATGATT
196 CAGGACAGTCATAAGTTTACAATG-AGCAGATTAAAGACATAGTAGATCTGACCTTCAGATGATT
18660939 TT
260 TT
*
18660941 ACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTG-TTCACAA-GGAGCAAATCGAAGACACAG
1 ACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTT-A-AAGGGAACAAATCGAAGACACAG
* *
18661004 CA-AATTTGGCTTTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTTGGCATCTCTGTATTGT
64 -ATAATTTGGCTTTCACGTGCTTACGCTGAAGTAAATCTAAGATGATTTGGCATCTCTGTATTGT
* * *
18661068 CAGAAAAAAAATCGAAGAAGCAAATTTGGCGTCTCTGTGTTCGACGGAGAGCAGATCGAAGATAT
128 CAGAAAAAAAATCGAAGAAACAAATTTGGCGTCTCTGTATTCGACGGAGAGCAAATCGAAGATAT
* * * *
18661133 CAACATGACAGTCTTGAGTTTGCAATGAGCAGATT
193 CAACAGGACAGTCATAAGTTTACAATGAGCAGATT
18661168 GAGGACCATG
Statistics
Matches: 198, Mismatches: 25, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
260 2 0.01
261 192 0.97
262 4 0.02
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (261 bp):
ACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTAAAGGGAACAAATCGAAGACACAGAT
AATTTGGCTTTCACGTGCTTACGCTGAAGTAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
AAAAAAAATCGAAGAAACAAATTTGGCGTCTCTGTATTCGACGGAGAGCAAATCGAAGATATCAA
CAGGACAGTCATAAGTTTACAATGAGCAGATTAAAGACATAGTAGATCTGACCTTCAGATGATTT
T
Found at i:18661478 original size:19 final size:19
Alignment explanation
Indices: 18661454--18661531 Score: 106
Period size: 19 Copynumber: 4.1 Consensus size: 19
18661444 ATCTTTAAGA
18661454 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
18661473 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
18661492 ATAT--AATATTAGATATG
1 ATATGCAATCTTAGATATG
*
18661509 ATATGCAACCTTGAAGATATG
1 ATATGCAATCTT--AGATATG
18661530 AT
1 AT
18661532 TTTATAATCT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
17 16 0.31
19 27 0.52
21 9 0.17
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:18661483 original size:36 final size:36
Alignment explanation
Indices: 18661443--18661529 Score: 90
Period size: 36 Copynumber: 2.4 Consensus size: 36
18661433 ATGGAAATGT
*
18661443 AATCTTTAAGAATATGCAATCTTAGATATGATATGC
1 AATCTTTAAGAATATGCAATATTAGATATGATATGC
**
18661479 AATC-TT-AGATATGATATAATATTAGATATGATATGC
1 AATCTTTAAGA-AT-ATGCAATATTAGATATGATATGC
* *
18661515 AACCTTGAAG-ATATG
1 AATCTTTAAGAATATG
18661530 ATTTTATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
34 3 0.07
35 6 0.15
36 29 0.71
37 1 0.02
38 2 0.05
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (36 bp):
AATCTTTAAGAATATGCAATATTAGATATGATATGC
Found at i:18664541 original size:25 final size:24
Alignment explanation
Indices: 18664517--18664566 Score: 57
Period size: 23 Copynumber: 2.0 Consensus size: 24
18664507 TTAAGTATTA
*
18664517 TAAAACACA-ATCAAATTAAAAAT
1 TAAAATACACATCAAATTAAAAAT
*
18664540 TAAAATACACTTCAAATTTAATAAAT
1 TAAAATACACATCAAA-TTAA-AAAT
18664566 T
1 T
18664567 TGGAAAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 8 0.36
24 5 0.23
25 4 0.18
26 5 0.23
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (24 bp):
TAAAATACACATCAAATTAAAAAT
Found at i:18666766 original size:34 final size:34
Alignment explanation
Indices: 18666725--18666792 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
18666715 ACACAGTTAA
*
18666725 CCATCCAGCACA-TCAGATGCTCATATGAGCTAAT
1 CCATCCAGCACACT-AAATGCTCATATGAGCTAAT
* *
18666759 CCATCCAGCACACTAAATGCTCGTATTAGCTAAT
1 CCATCCAGCACACTAAATGCTCATATGAGCTAAT
18666793 ACATATAGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.25
Consensus pattern (34 bp):
CCATCCAGCACACTAAATGCTCATATGAGCTAAT
Found at i:18668141 original size:46 final size:46
Alignment explanation
Indices: 18668089--18668219 Score: 208
Period size: 46 Copynumber: 2.8 Consensus size: 46
18668079 GATGGTTGAG
*
18668089 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
**
18668135 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * *
18668181 CACCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18668220 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:18671659 original size:25 final size:25
Alignment explanation
Indices: 18671625--18671676 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
18671615 CTTTTAAGAC
18671625 TTGAAAGAGTATTTGGTTATTGTTT
1 TTGAAAGAGTATTTGGTTATTGTTT
18671650 TTGAAAGAGTATTTGGTTATTGTTT
1 TTGAAAGAGTATTTGGTTATTGTTT
18671675 TT
1 TT
18671677 CATTTTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (25 bp):
TTGAAAGAGTATTTGGTTATTGTTT
Found at i:18672123 original size:20 final size:21
Alignment explanation
Indices: 18672092--18672138 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
18672082 TGGTGAGCTT
*
18672092 GGGCAGTTTTTTGATGAGTTG
1 GGGCAGCTTTTTGATGAGTTG
*
18672113 GGGCAGCTTTTTGTTGAGTTG
1 GGGCAGCTTTTTGATGAGTTG
18672134 GGGCA
1 GGGCA
18672139 ACCACTTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.13, C:0.09, G:0.40, T:0.38
Consensus pattern (21 bp):
GGGCAGCTTTTTGATGAGTTG
Found at i:18684358 original size:13 final size:13
Alignment explanation
Indices: 18684340--18684364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18684330 TGGATTTATT
18684340 TTCTCTTCATCTA
1 TTCTCTTCATCTA
18684353 TTCTCTTCATCT
1 TTCTCTTCATCT
18684365 CTCTAATTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.32, G:0.00, T:0.56
Consensus pattern (13 bp):
TTCTCTTCATCTA
Found at i:18685853 original size:34 final size:33
Alignment explanation
Indices: 18685810--18685875 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
18685800 AGTTTCAGTA
* *
18685810 ACAGTTCAGTTTCAGT-TGGGGCCTTAGCCCATT
1 ACAGTTCAGTATCAGTGT-GGGCCTGAGCCCATT
18685843 ACAGTATCAGTATCAGTGTGGGCCTGAGCCCAT
1 ACAGT-TCAGTATCAGTGTGGGCCTGAGCCCAT
18685876 CTCCGGGCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 5 0.17
34 23 0.79
35 1 0.03
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (33 bp):
ACAGTTCAGTATCAGTGTGGGCCTGAGCCCATT
Found at i:18691561 original size:28 final size:27
Alignment explanation
Indices: 18691498--18691566 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
18691488 ATAGTGAGTC
*
18691498 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
18691525 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
18691553 CGCACACTTA-TGCT
1 CGCACACTTAGTGCT
18691567 GTACAAGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 25 0.64
28 14 0.36
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:18699953 original size:71 final size:71
Alignment explanation
Indices: 18699869--18700032 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
18699859 CGATTTGTCT
18699869 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18699934 CTTTCA
66 CTTTCA
18699940 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18700005 CTTTCA
66 CTTTCA
18700011 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
18700033 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:18700070 original size:71 final size:70
Alignment explanation
Indices: 18699869--18700066 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
18699859 CGATTTGTCT
* * * *
18699869 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18699934 CTTTCA
65 CTTTCA
* * * *
18699940 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18700005 CTTTCA
65 CTTTCA
* *
18700011 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
18700067 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:18707491 original size:70 final size:71
Alignment explanation
Indices: 18707405--18707567 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
18707395 CGATTTGTCT
18707405 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18707469 CTTTCA
66 CTTTCA
*
18707475 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18707540 CTTTCA
66 CTTTCA
18707546 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
18707568 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:18707605 original size:71 final size:70
Alignment explanation
Indices: 18707405--18707601 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
18707395 CGATTTGTCT
* * * *
18707405 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18707469 CTTTCA
65 CTTTCA
* * * *
18707475 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18707540 CTTTCA
65 CTTTCA
* *
18707546 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
18707602 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 52 0.44
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:18709995 original size:49 final size:49
Alignment explanation
Indices: 18709931--18710105 Score: 242
Period size: 49 Copynumber: 3.5 Consensus size: 49
18709921 CTGGTACGCA
* * *
18709931 TAGTAGCCTGCACTTAGTGCTACACATGCGACCAATAATCGGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCGGGTACACG
* * * * * *
18709980 TAGTAGCCTACACTTAGTACTACACACGTGATCATAGTTTTCGGGTACGCG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCA-A-TTATCGGGTACACG
*
18710031 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCGGGTACACG
18710080 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
18710106 CGTGACCTCA
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
49 66 0.61
50 2 0.02
51 40 0.37
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCGGGTACACG
Found at i:18710096 original size:100 final size:100
Alignment explanation
Indices: 18709923--18710110 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
18709913 GAAGCTATCT
* * *
18709923 GGTACGCATAGTAGCCTGCACTTAGTGCTACACATGCGACCAATAATCGGGTACATGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
18709988 TACACTTAGTACTACACACGTGATCATAGTTTTCG
66 TACACTTAGTACTACACACGTGATCATAGTTTTCG
* *
18710023 GGTACGCGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
*
18710088 TGCACTTAGTACTACACACGTGA
66 TACACTTAGTACTACACACGTGA
18710111 CCTCACAATA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TACACTTAGTACTACACACGTGATCATAGTTTTCG
Found at i:18712165 original size:15 final size:15
Alignment explanation
Indices: 18712142--18712186 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
18712132 AAGAAAATCG
18712142 AATAAAGAAATCCAA
1 AATAAAGAAATCCAA
* *
18712157 AATAGAGAAA-CCTAT
1 AATAAAGAAATCC-AA
18712172 AATAAAGAAATCCAA
1 AATAAAGAAATCCAA
18712187 GATACGATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 2 0.08
15 20 0.83
16 2 0.08
ACGTcount: A:0.62, C:0.13, G:0.09, T:0.16
Consensus pattern (15 bp):
AATAAAGAAATCCAA
Found at i:18714588 original size:49 final size:49
Alignment explanation
Indices: 18714528--18714704 Score: 219
Period size: 49 Copynumber: 3.6 Consensus size: 49
18714518 CTGGTACGCA
* *
18714528 TAGTAGCCTGCACTTAGTACTACACATGAGACCAATAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGAGACCAATTATCAGGTACATG
* * * * *
18714577 TAGTAGCCTGCACTTAGTAATACACATGTGATCACAATTTTCAGGTACGTA
1 TAGTAGCCTGCACTTAGTACTACACATGAGA-C-CAATTATCAGGTACATG
* * * * *
18714628 TAGTAGCCTACACTTCGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGAGACCAATTATCAGGTACATG
*
18714677 TAGTAACCTGCACTTAGTACTACACATG
1 TAGTAGCCTGCACTTAGTACTACACATG
18714705 TGAGCTCACA
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 66 0.62
50 2 0.02
51 39 0.36
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGAGACCAATTATCAGGTACATG
Found at i:18714648 original size:100 final size:101
Alignment explanation
Indices: 18714520--18714716 Score: 297
Period size: 100 Copynumber: 2.0 Consensus size: 101
18714510 GAAGCTATCT
* * * *
18714520 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGAGACCAATAATCTGGTACATGTAGTAGCC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGAGACCAATAATCCGGTACACGTAGTAACC
18714585 TGCACTTAGTAATACACATGTGA-TCACAATTTTCA
66 TGCACTTAGTAATACACATGTGACTCACAATTTTCA
* * * *
18714620 GGTACGTATAGTAGCCTACACTTCGTACTACACATGCGACCAATTATCCGGTACACGTAGTAACC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGAGACCAATAATCCGGTACACGTAGTAACC
*
18714685 TGCACTTAGTACTACACATGTGAGCTCACAAT
66 TGCACTTAGTAATACACATGTGA-CTCACAAT
18714717 AGTTTATTTG
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
100 79 0.92
102 7 0.08
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (101 bp):
GGTACGCATAGTAGCCTACACTTAGTACTACACATGAGACCAATAATCCGGTACACGTAGTAACC
TGCACTTAGTAATACACATGTGACTCACAATTTTCA
Found at i:18716939 original size:11 final size:11
Alignment explanation
Indices: 18716923--18716947 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18716913 ATTTTGTCCC
18716923 TTTTTGGCTCA
1 TTTTTGGCTCA
18716934 TTTTTGGCTCA
1 TTTTTGGCTCA
18716945 TTT
1 TTT
18716948 CCCTCTCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.16, G:0.16, T:0.60
Consensus pattern (11 bp):
TTTTTGGCTCA
Found at i:18719650 original size:46 final size:46
Alignment explanation
Indices: 18719600--18719728 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
18719590 TGGTTGAGCA
* *
18719600 TCCGAGCTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCAAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
18719646 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
18719692 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18719729 GCAGGTTACA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:18732837 original size:28 final size:28
Alignment explanation
Indices: 18732805--18732927 Score: 156
Period size: 28 Copynumber: 4.4 Consensus size: 28
18732795 TCGATATTTT
*
18732805 GCACACTAAGTGCCATACCCAATGTCTC
1 GCACACTAAGTGCCATACTCAATGTCTC
** * *
18732833 GCACACTAAGTGTTATATTCAATGTCAC
1 GCACACTAAGTGCCATACTCAATGTCTC
*
18732861 GCACACTAAGTGCCATGCTCAATGTCTC
1 GCACACTAAGTGCCATACTCAATGTCTC
* * * *
18732889 ACACACTAAGTGCCACAATCAATGTATC
1 GCACACTAAGTGCCATACTCAATGTCTC
18732917 GCACACTAAGT
1 GCACACTAAGT
18732928 TCCGCACATA
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 79 1.00
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (28 bp):
GCACACTAAGTGCCATACTCAATGTCTC
Found at i:18732980 original size:40 final size:40
Alignment explanation
Indices: 18732936--18733017 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
18732926 GTTCCGCACA
* *
18732936 TAGCCGAAACTATCTCAAATCGCACACTAAGTGCCAAATT
1 TAGCCGAAACTATATCAAACCGCACACTAAGTGCCAAATT
* ** *
18732976 TAGCCGAAGCTATATTGAACCGCACACTAAGTGCCACATT
1 TAGCCGAAACTATATCAAACCGCACACTAAGTGCCAAATT
18733016 TA
1 TA
18733018 ACTGATATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (40 bp):
TAGCCGAAACTATATCAAACCGCACACTAAGTGCCAAATT
Found at i:18752660 original size:39 final size:39
Alignment explanation
Indices: 18752606--18752768 Score: 236
Period size: 39 Copynumber: 4.2 Consensus size: 39
18752596 TGTGTATGAA
*
18752606 TGTGCGAATTGTGATATCCGGGCTAAGCCCAAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCAAAGGCAAT
18752645 TGTGCGAGTTGTGATATCCGGGCTAAGCCCAAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCAAAGGCAAT
* * * * *
18752684 GGTACGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCAAAGGCAAT
* * *
18752723 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCAAAGGCAAT
18752763 TGTGCG
1 TGTGCG
18752769 GGTTACCATA
Statistics
Matches: 111, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 94 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCAAAGGCAAT
Found at i:18752784 original size:40 final size:40
Alignment explanation
Indices: 18752623--18752798 Score: 151
Period size: 39 Copynumber: 4.5 Consensus size: 40
18752613 ATTGTGATAT
* *** *
18752623 CCGGGCTAAG-CCCAAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * * * ** *
18752662 CCGGGCTAAG-CCCAAAGGCAATGGTACGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*** *
18752701 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
18752740 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*
18752780 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
18752799 TGTTTTGAAC
Statistics
Matches: 118, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 78 0.66
40 40 0.34
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:18755705 original size:38 final size:39
Alignment explanation
Indices: 18755608--18755769 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
18755598 TATGGTAACC
* *
18755608 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
18755648 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
18755687 CGCAC-ATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
18755725 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
18755764 CGCACA
1 CGCACA
18755770 TTCATACACA
Statistics
Matches: 114, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 36 0.32
39 61 0.54
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:18755767 original size:77 final size:78
Alignment explanation
Indices: 18755616--18755771 Score: 269
Period size: 77 Copynumber: 2.0 Consensus size: 78
18755606 CCCGCACAAA
18755616 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
* *
18755681 ATAGCTCGCACAT
66 ACAACTCGCACAT
*
18755694 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
*
18755758 ACAATTCGCACAT
66 ACAACTCGCACAT
18755771 T
1 T
18755772 CATACACATC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 64 0.86
78 10 0.14
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (78 bp):
TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
ACAACTCGCACAT
Found at i:18765804 original size:48 final size:48
Alignment explanation
Indices: 18765705--18765836 Score: 230
Period size: 48 Copynumber: 2.8 Consensus size: 48
18765695 GCTGAAATTG
*
18765705 ATGTATAAGATATGTATATGTGGTAAAG-CGAATGGCTAGTGTGAAAT
1 ATGTATAAGATACGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
18765752 ATGTATAAGATACGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATAAGATACGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
* *
18765800 ATGTATAAGATACGTATATGTGATAAGGCCGAATGGC
1 ATGTATAAGATACGTATATGTGGTAAAGCCGAATGGC
18765837 CAATGTGATG
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
47 27 0.33
48 54 0.67
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.30
Consensus pattern (48 bp):
ATGTATAAGATACGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
Found at i:18765844 original size:48 final size:48
Alignment explanation
Indices: 18765705--18766039 Score: 305
Period size: 47 Copynumber: 7.1 Consensus size: 48
18765695 GCTGAAATTG
* * * * *
18765705 ATGT-ATAAGATATGTATATGTGGTAAAG-CGAATGGCTAGTGTGA--A
1 ATGTGATAAG-TACGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * * *
18765750 ATATGTATAAGATACGTATATGTGGTAAAGCCGAATGGCTAGTGTGA--A
1 ATGTG-ATAAG-TACGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
18765798 ATATGTATAAGATACGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTG-ATAAG-TACGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
**
18765848 ATGTGACTGTGT-C-TATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGA-TAAGTACGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
* **
18765895 ATGTGA-ATGTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGATAAGTACGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
* **
18765942 ATGTGA-ATGTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGATAAGTACGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *** * * *
18765989 ATGCGA-AAGTGTATATATGTGATAAGGCCAAATGGCCTATGTGATGG
1 ATGTGATAAGTACGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
18766036 ATGT
1 ATGT
18766040 AAAAGTGTAT
Statistics
Matches: 264, Mismatches: 18, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
45 6 0.02
47 188 0.71
48 61 0.23
49 2 0.01
50 7 0.03
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (48 bp):
ATGTGATAAGTACGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:18765875 original size:47 final size:47
Alignment explanation
Indices: 18765814--18766067 Score: 391
Period size: 47 Copynumber: 5.4 Consensus size: 47
18765804 ATAAGATACG
* *
18765814 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGACTGTGTC
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
18765861 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTG
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
18765908 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTG
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
* *
18765955 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGCGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
* * * * *
18766002 TATATGTGATAAGGCCAAATGGCCTATGTGATGGATGTAAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
* *
18766049 TAAATGTGATAAGTCCGAA
1 TATATGTGATAAGGCCGAA
18766068 GGGCATTTGT
Statistics
Matches: 194, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 194 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
Found at i:18765995 original size:22 final size:22
Alignment explanation
Indices: 18765829--18765995 Score: 97
Period size: 22 Copynumber: 7.2 Consensus size: 22
18765819 GTGATAAGGC
18765829 CGAATGGCCAATGTGATGAATG
1 CGAATGGCCAATGTGATGAATG
* * * *
18765851 TGACTGTGTCTATATGTGAT-AAGG
1 CGAATG-G-CCA-ATGTGATGAATG
18765875 CCGAATGGCCAATGTGATGAATG
1 -CGAATGGCCAATGTGATGAATG
* ** *
18765898 TGAATGTGTGTATATGTGAT-AAGG
1 CGAATG-G-CCA-ATGTGATGAATG
18765922 CCGAATGGCCAATGTGATGAATG
1 -CGAATGGCCAATGTGATGAATG
* ** *
18765945 TGAATGTGTGTATATGTGAT-AAGG
1 CGAATG-G-CCA-ATGTGATGAATG
18765969 CCGAATGGCCAATGTGATGAATG
1 -CGAATGGCCAATGTGATGAATG
18765992 CGAA
1 CGAA
18765996 AGTGTATATA
Statistics
Matches: 106, Mismatches: 24, Indels: 30
0.66 0.15 0.19
Matches are distributed among these distances:
22 39 0.37
23 16 0.15
24 16 0.15
25 35 0.33
ACGTcount: A:0.30, C:0.11, G:0.31, T:0.28
Consensus pattern (22 bp):
CGAATGGCCAATGTGATGAATG
Found at i:18766032 original size:22 final size:22
Alignment explanation
Indices: 18765957--18766033 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
18765947 AATGTGTGTA
*
18765957 TATGTGATAAGGCCGAATGGCC
1 TATGTGATAAGGCCAAATGGCC
* * * ***
18765979 AATGTGATGAATGCGAAAGTGTATA
1 TATGTGAT-AAGGCCAAA-TG-GCC
18766004 TATGTGATAAGGCCAAATGGCC
1 TATGTGATAAGGCCAAATGGCC
18766026 TATGTGAT
1 TATGTGAT
18766034 GGATGTAAAA
Statistics
Matches: 39, Mismatches: 13, Indels: 6
0.67 0.22 0.10
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 9 0.23
25 7 0.18
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (22 bp):
TATGTGATAAGGCCAAATGGCC
Found at i:18766726 original size:2 final size:2
Alignment explanation
Indices: 18766719--18766746 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18766709 CGAAGGTATC
18766719 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18766747 AGACAGCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18768069 original size:42 final size:41
Alignment explanation
Indices: 18768005--18768201 Score: 213
Period size: 40 Copynumber: 4.9 Consensus size: 41
18767995 CTCGACGATG
* * *
18768005 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTG-TATAT
* * * * *
18768047 ATCCGGGTTAAGTCCCGTAGAGCATTCGTGCTGGTGT-TAC
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
*
18768087 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTG-ATAT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
* *
18768127 ATCCGGGCTAAAT-CCGAAGAGCATTCATGCTAGTG-ATGT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
* * ** *
18768166 ATCCGGACCAGGTCCCGAAGAGCAGTCATGCTGGTG
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTG
18768202 ACGTGTATTC
Statistics
Matches: 136, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
39 34 0.25
40 68 0.50
41 1 0.01
42 33 0.24
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (41 bp):
ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
Found at i:18768184 original size:79 final size:80
Alignment explanation
Indices: 18768005--18768202 Score: 209
Period size: 79 Copynumber: 2.5 Consensus size: 80
18767995 CTCGACGATG
* * * * * * *
18768005 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATATATCCGGGTTAAGTCCCGTAGAGC
1 ATCCGGACCAAGTCCCGAAGAGCATTCATGCTGGTG--ATATATCCGGGCTAAATCCCGAAGAGC
* * *
18768070 ATTCGTGCTGGTGTTAC
64 ATTCATGCTAGTGATAC
* * * *
18768087 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAAT-CCGAAGAGCAT
1 ATCCGGACCAAGTCCCGAAGAGCATTCATGCTGGTGATATATCCGGGCTAAATCCCGAAGAGCAT
**
18768151 TCATGCTAGTGATGT
66 TCATGCTAGTGATAC
* *
18768166 ATCCGGACCAGGTCCCGAAGAGCAGTCATGCTGGTGA
1 ATCCGGACCAAGTCCCGAAGAGCATTCATGCTGGTGA
18768203 CGTGTATTCG
Statistics
Matches: 98, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 51 0.52
80 15 0.15
82 32 0.33
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
ATCCGGACCAAGTCCCGAAGAGCATTCATGCTGGTGATATATCCGGGCTAAATCCCGAAGAGCAT
TCATGCTAGTGATAC
Found at i:18768245 original size:43 final size:43
Alignment explanation
Indices: 18768205--18768399 Score: 372
Period size: 43 Copynumber: 4.5 Consensus size: 43
18768195 GCTGGTGACG
18768205 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATA
1 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATA
18768248 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATA
1 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATA
18768291 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATA
1 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATA
18768334 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATA
1 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATA
* *
18768377 TGTATTTGGGCCTTCGAGCCTAG
1 TGTATTCGGGCCTTCGTGCCTAG
18768400 TGATATGTAT
Statistics
Matches: 150, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 150 1.00
ACGTcount: A:0.12, C:0.23, G:0.32, T:0.33
Consensus pattern (43 bp):
TGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATA
Found at i:18768411 original size:28 final size:28
Alignment explanation
Indices: 18768371--18768427 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
18768361 CTTTGTGCCG
*
18768371 GTGATATGTATTTGGGCCTTCGAGCCTA
1 GTGATATGTATTTGAGCCTTCGAGCCTA
* *
18768399 GTGATATGTATTTGAGTCTTCGTGCCTA
1 GTGATATGTATTTGAGCCTTCGAGCCTA
18768427 G
1 G
18768428 CAGGCTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.39
Consensus pattern (28 bp):
GTGATATGTATTTGAGCCTTCGAGCCTA
Found at i:18772015 original size:48 final size:48
Alignment explanation
Indices: 18771950--18772082 Score: 248
Period size: 48 Copynumber: 2.8 Consensus size: 48
18771940 GCTGAAATTG
18771950 ATGTATAAGATACGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATAAGATACGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
18771998 ATGTATAAGATACGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATAAGATACGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
* *
18772046 ATGTATAAGATACGTATATGTGATAAGGCCGAATGGC
1 ATGTATAAGATACGTATATGTGGTAAAGCCGAATGGC
18772083 CAATGTGATG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 83 1.00
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (48 bp):
ATGTATAAGATACGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
Found at i:18772090 original size:48 final size:48
Alignment explanation
Indices: 18771950--18772285 Score: 323
Period size: 47 Copynumber: 7.1 Consensus size: 48
18771940 GCTGAAATTG
* * * *
18771950 ATGT-ATAAGATACGTATATGTGGTAAAGCCGAATGGCTAGTGTGA--A
1 ATGTGATAAG-TACGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * * *
18771996 ATATGTATAAGATACGTATATGTGGTAAAGCCGAATGGCTAGTGTGA--A
1 ATGTG-ATAAG-TACGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
18772044 ATATGTATAAGATACGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTG-ATAAG-TACGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
**
18772094 ATGTGACTGTGT-C-TATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGA-TAAGTACGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
* **
18772141 ATGTGA-ATGTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGATAAGTACGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
* **
18772188 ATGTGA-ATGTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGATAAGTACGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *** * * *
18772235 ATGCGA-AAGTGTATATATGTGATAAGGCCAAATGGCCTATGTGATGG
1 ATGTGATAAGTACGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
18772282 ATGT
1 ATGT
18772286 AAAAGTGTAT
Statistics
Matches: 266, Mismatches: 17, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
45 3 0.01
46 3 0.01
47 165 0.62
48 86 0.32
49 2 0.01
50 7 0.03
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (48 bp):
ATGTGATAAGTACGTATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:18772121 original size:47 final size:47
Alignment explanation
Indices: 18772059--18772307 Score: 390
Period size: 47 Copynumber: 5.3 Consensus size: 47
18772049 TATAAGATAC
*
18772059 GTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGACTGTGT
1 GTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGT
*
18772106 CTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGT
1 GTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGT
18772153 GTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGT
1 GTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGT
* *
18772200 GTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGCGAAAGTGT
1 GTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGT
* * * * * *
18772247 ATATATGTGATAAGGCCAAATGGCCTATGTGATGGATGTAAAAGTGT
1 GTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGT
* *
18772294 ATAAATGTGATAAG
1 GTATATGTGATAAG
18772308 TCCCGAAGGG
Statistics
Matches: 190, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 190 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGT
Found at i:18772241 original size:22 final size:22
Alignment explanation
Indices: 18772075--18772241 Score: 97
Period size: 22 Copynumber: 7.2 Consensus size: 22
18772065 GTGATAAGGC
18772075 CGAATGGCCAATGTGATGAATG
1 CGAATGGCCAATGTGATGAATG
* * * *
18772097 TGACTGTGTCTATATGTGAT-AAGG
1 CGAATG-G-CCA-ATGTGATGAATG
18772121 CCGAATGGCCAATGTGATGAATG
1 -CGAATGGCCAATGTGATGAATG
* ** *
18772144 TGAATGTGTGTATATGTGAT-AAGG
1 CGAATG-G-CCA-ATGTGATGAATG
18772168 CCGAATGGCCAATGTGATGAATG
1 -CGAATGGCCAATGTGATGAATG
* ** *
18772191 TGAATGTGTGTATATGTGAT-AAGG
1 CGAATG-G-CCA-ATGTGATGAATG
18772215 CCGAATGGCCAATGTGATGAATG
1 -CGAATGGCCAATGTGATGAATG
18772238 CGAA
1 CGAA
18772242 AGTGTATATA
Statistics
Matches: 106, Mismatches: 24, Indels: 30
0.66 0.15 0.19
Matches are distributed among these distances:
22 39 0.37
23 16 0.15
24 16 0.15
25 35 0.33
ACGTcount: A:0.30, C:0.11, G:0.31, T:0.28
Consensus pattern (22 bp):
CGAATGGCCAATGTGATGAATG
Found at i:18772278 original size:22 final size:22
Alignment explanation
Indices: 18772203--18772279 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
18772193 AATGTGTGTA
*
18772203 TATGTGATAAGGCCGAATGGCC
1 TATGTGATAAGGCCAAATGGCC
* * * ***
18772225 AATGTGATGAATGCGAAAGTGTATA
1 TATGTGAT-AAGGCCAAA-TG-GCC
18772250 TATGTGATAAGGCCAAATGGCC
1 TATGTGATAAGGCCAAATGGCC
18772272 TATGTGAT
1 TATGTGAT
18772280 GGATGTAAAA
Statistics
Matches: 39, Mismatches: 13, Indels: 6
0.67 0.22 0.10
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 9 0.23
25 7 0.18
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (22 bp):
TATGTGATAAGGCCAAATGGCC
Found at i:18777071 original size:40 final size:40
Alignment explanation
Indices: 18776992--18777149 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
18776982 TTCGAATGAT
* * * *
18776992 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
18777032 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
18777072 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
18777112 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
18777150 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:18777170 original size:80 final size:80
Alignment explanation
Indices: 18776992--18777179 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
18776982 TTCGAATGAT
* *
18776992 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
18777057 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
18777072 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
18777133 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
18777153 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
18777180 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:18783047 original size:46 final size:46
Alignment explanation
Indices: 18782997--18783168 Score: 210
Period size: 45 Copynumber: 3.7 Consensus size: 46
18782987 TGGTTGAGCA
18782997 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18783043 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
18783088 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
18783136 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
18783169 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 34 0.31
46 29 0.27
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18783429 original size:19 final size:20
Alignment explanation
Indices: 18783392--18783429 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
18783382 ATAAGGTGGT
18783392 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
18783412 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
18783430 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:18790622 original size:46 final size:46
Alignment explanation
Indices: 18790572--18790744 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
18790562 TGGTTGAGCA
*
18790572 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
18790618 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
18790665 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
18790711 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
18790745 GGGCGGGTTA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:18790728 original size:93 final size:93
Alignment explanation
Indices: 18790569--18790739 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
18790559 GGATGGTTGA
* *
18790569 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
18790634 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
18790662 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
18790727 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
18790740 ACTTAGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18791005 original size:19 final size:20
Alignment explanation
Indices: 18790968--18791005 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
18790958 ATAAGGTGGT
18790968 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
18790988 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
18791006 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:18794720 original size:17 final size:18
Alignment explanation
Indices: 18794693--18794726 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18794683 GATGGACACA
18794693 TTTTTTCTTTTATTTTCC
1 TTTTTTCTTTTATTTTCC
*
18794711 TTTTTT-TTTTCTTTTC
1 TTTTTTCTTTTATTTTC
18794727 ATTACCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTTCTTTTATTTTCC
Found at i:18796721 original size:30 final size:29
Alignment explanation
Indices: 18796677--18796737 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
18796667 TAAGTAGCCG
18796677 AAGCTAGCTAAATCGCACACTTAGTGCCA
1 AAGCTAGCTAAATCGCACACTTAGTGCCA
*
18796706 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-CTAAATCGCACACTTAGTGCCA
18796736 AA
1 AA
18796738 ACTTTCGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (29 bp):
AAGCTAGCTAAATCGCACACTTAGTGCCA
Found at i:18798785 original size:116 final size:116
Alignment explanation
Indices: 18798581--18798809 Score: 431
Period size: 116 Copynumber: 2.0 Consensus size: 116
18798571 AGGCTATTTG
*
18798581 CCAAGCCATTTGCCGCCCTTAAACACCCACATACTTACACTCATATCATGGCATGCAACATGGCA
1 CCAAGCCATTTGCCACCCTTAAACACCCACATACTTACACTCATATCATGGCATGCAACATGGCA
*
18798646 CATTTGATTACTCAAACATTCTTATTCATGGATAAATTGTGACTTAACTTT
66 CATTTGATTACTCAAACATTCTTATTCATGAATAAATTGTGACTTAACTTT
*
18798697 CCAAGCCATTTGCCACCCTTAAACACTCACATACTTACACTCATATCATGGCATGCAACATGGCA
1 CCAAGCCATTTGCCACCCTTAAACACCCACATACTTACACTCATATCATGGCATGCAACATGGCA
18798762 CATTTGATTACTCAAACATTCTTATTCATGAATAAATTGTGACTTAAC
66 CATTTGATTACTCAAACATTCTTATTCATGAATAAATTGTGACTTAAC
18798810 AATATCAACA
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 110 1.00
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.31
Consensus pattern (116 bp):
CCAAGCCATTTGCCACCCTTAAACACCCACATACTTACACTCATATCATGGCATGCAACATGGCA
CATTTGATTACTCAAACATTCTTATTCATGAATAAATTGTGACTTAACTTT
Found at i:18802408 original size:48 final size:48
Alignment explanation
Indices: 18802337--18802464 Score: 211
Period size: 48 Copynumber: 2.7 Consensus size: 48
18802327 CATTGGGGAA
* *
18802337 TACATTGATTTGGCTTCGGGCCATGATATTGGTACTTCGGGTGTGAGT
1 TACATTGATTTGGCTTCGGGCCATGATATCGGTACTTCGGGTGCGAGT
* *
18802385 TACATTAATTTGGCTTTGGGCCATGATATCGGTACTTCGGGTGCGAGT
1 TACATTGATTTGGCTTCGGGCCATGATATCGGTACTTCGGGTGCGAGT
*
18802433 TACATTGATTTGGCTTCGAGCCATGATATCGG
1 TACATTGATTTGGCTTCGGGCCATGATATCGG
18802465 ATAGTACATT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.19, C:0.16, G:0.29, T:0.36
Consensus pattern (48 bp):
TACATTGATTTGGCTTCGGGCCATGATATCGGTACTTCGGGTGCGAGT
Found at i:18809286 original size:21 final size:20
Alignment explanation
Indices: 18809260--18809298 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
18809250 GTGTTTTTTG
18809260 ATGTTTGATGATAGATTATGA
1 ATGTTTGATGATAG-TTATGA
18809281 ATGTTTGATGATAGTTAT
1 ATGTTTGATGATAGTTAT
18809299 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (20 bp):
ATGTTTGATGATAGTTATGA
Found at i:18809308 original size:21 final size:21
Alignment explanation
Indices: 18809260--18809306 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
18809250 GTGTTTTTTG
*
18809260 ATGTTTGATGATAGATTATGA
1 ATGTTTGATGATAGATTATCA
18809281 ATGTTTGATGATAG-TTATACA
1 ATGTTTGATGATAGATTAT-CA
18809302 A-GTTT
1 ATGTTT
18809307 TGTTAAGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (21 bp):
ATGTTTGATGATAGATTATCA
Found at i:18811538 original size:10 final size:10
Alignment explanation
Indices: 18811523--18811550 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
18811513 TCATTGCGAC
18811523 TATATGTGAT
1 TATATGTGAT
18811533 TATATGTGAT
1 TATATGTGAT
18811543 TATATGTG
1 TATATGTG
18811551 GTTAATGCAT
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:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (10 bp):
TATATGTGAT
Found at i:18813883 original size:2 final size:2
Alignment explanation
Indices: 18813878--18813914 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
18813868 CATAATAAGA
18813878 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18813915 AACTAATGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18814096 original size:18 final size:19
Alignment explanation
Indices: 18814051--18814097 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
18814041 AATTGAAATC
*
18814051 AATTTTTT-ATTATTTTAT
1 AATTTTTTAATTATTTAAT
*
18814069 TATTTTTTAATT-TTTAAT
1 AATTTTTTAATTATTTAAT
18814087 AATTTTTTAAT
1 AATTTTTTAAT
18814098 CTAACCGGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
AATTTTTTAATTATTTAAT
Found at i:18815364 original size:26 final size:27
Alignment explanation
Indices: 18815307--18815370 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
18815297 ATTTTAAATA
*
18815307 AAAAAATGAAAAAATTAAGAAATTATT
1 AAAAAATTAAAAAATTAAGAAATTATT
*
18815334 -AAAAATTAAAAAATCT-TGAAATT-TT
1 AAAAAATTAAAAAAT-TAAGAAATTATT
18815359 AAAAAA-TAAAAA
1 AAAAAATTAAAAA
18815371 TGATTTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 8 0.24
26 24 0.73
27 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.27
Consensus pattern (27 bp):
AAAAAATTAAAAAATTAAGAAATTATT
Found at i:18815402 original size:20 final size:21
Alignment explanation
Indices: 18815350--18815403 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
18815340 TAAAAAATCT
* *
18815350 TGAAATTTTAAAAAATAAAAA
1 TGAAATTTCAAAATATAAAAA
* *
18815371 TG-ATTTTGAAAATATAAAAA
1 TGAAATTTCAAAATATAAAAA
18815391 -GAAATTTCAAAAT
1 TGAAATTTCAAAAT
18815404 TCAATGTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 1 0.04
20 24 0.89
21 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.31
Consensus pattern (21 bp):
TGAAATTTCAAAATATAAAAA
Found at i:18815929 original size:32 final size:32
Alignment explanation
Indices: 18815856--18815940 Score: 84
Period size: 32 Copynumber: 2.6 Consensus size: 32
18815846 AAATATATAT
* *
18815856 ATTTTTTAAAATGAAAAAGTAAAAAAATAGAA
1 ATTTTTTAAAATTAAAAAATAAAAAAATAGAA
* *
18815888 ACTTATTAAAATTAAAAAATAAAAATAA-A-AA
1 ATTTTTTAAAATTAAAAAATAAAAA-AATAGAA
*
18815919 GATTTTTTAAAAATATAAAAAT
1 -ATTTTTTAAAATTA-AAAAAT
18815941 TTCAAAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
31 2 0.05
32 33 0.77
33 8 0.19
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.31
Consensus pattern (32 bp):
ATTTTTTAAAATTAAAAAATAAAAAAATAGAA
Found at i:18815947 original size:8 final size:8
Alignment explanation
Indices: 18815936--18816098 Score: 56
Period size: 8 Copynumber: 18.9 Consensus size: 8
18815926 TAAAAATATA
18815936 AAAATTTC
1 AAAATTTC
*
18815944 AAAAATTC
1 AAAATTTC
*
18815952 AATATTTTC
1 AA-AATTTC
* *
18815961 TAAAAATATA
1 --AAAATTTC
18815971 AAAATTTC
1 AAAATTTC
*
18815979 AATATTTC
1 AAAATTTC
*
18815987 AATATTTTC
1 AA-AATTTC
* *
18815996 TAAAAATATA
1 --AAAATTTC
18816006 AAAATTTC
1 AAAATTTC
*
18816014 AATATTTC
1 AAAATTTC
*
18816022 AATATTTTC
1 AA-AATTTC
* *
18816031 TAAAAATATA
1 --AAAATTTC
18816041 AAAATTTC
1 AAAATTTC
*
18816049 AAAAATTC
1 AAAATTTC
*
18816057 AATATTTTC
1 AA-AATTTC
* *
18816066 TAAAAATATA
1 --AAAATTTC
18816076 AAAATTTC
1 AAAATTTC
*
18816084 AAAAATTC
1 AAAATTTC
*
18816092 AATATTT
1 AAAATTT
18816099 TCTAATTTGA
Statistics
Matches: 108, Mismatches: 35, Indels: 24
0.65 0.21 0.14
Matches are distributed among these distances:
8 72 0.67
9 16 0.15
10 12 0.11
11 8 0.07
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.40
Consensus pattern (8 bp):
AAAATTTC
Found at i:18815964 original size:27 final size:27
Alignment explanation
Indices: 18815934--18815985 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
18815924 TTTAAAAATA
*
18815934 TAAAAATTTCAAAAA-TTCAATATTTTC
1 TAAAAATAT-AAAAATTTCAATATTTTC
18815961 TAAAAATATAAAAATTTCAATATTT
1 TAAAAATATAAAAATTTCAATATTT
18815986 CAATATTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (27 bp):
TAAAAATATAAAAATTTCAATATTTTC
Found at i:18815965 original size:35 final size:35
Alignment explanation
Indices: 18815920--18816103 Score: 323
Period size: 35 Copynumber: 5.3 Consensus size: 35
18815910 AAATAAAAAG
*
18815920 ATTTTTTAAAAATATAAAAATTTCAAAAATTCAAT
1 ATTTTCTAAAAATATAAAAATTTCAAAAATTCAAT
* *
18815955 ATTTTCTAAAAATATAAAAATTTCAATATTTCAAT
1 ATTTTCTAAAAATATAAAAATTTCAAAAATTCAAT
* *
18815990 ATTTTCTAAAAATATAAAAATTTCAATATTTCAAT
1 ATTTTCTAAAAATATAAAAATTTCAAAAATTCAAT
18816025 ATTTTCTAAAAATATAAAAATTTCAAAAATTCAAT
1 ATTTTCTAAAAATATAAAAATTTCAAAAATTCAAT
18816060 ATTTTCTAAAAATATAAAAATTTCAAAAATTCAAT
1 ATTTTCTAAAAATATAAAAATTTCAAAAATTCAAT
18816095 ATTTTCTAA
1 ATTTTCTAA
18816104 TTTGACCAAT
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 144 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (35 bp):
ATTTTCTAAAAATATAAAAATTTCAAAAATTCAAT
Found at i:18821806 original size:13 final size:13
Alignment explanation
Indices: 18821788--18821815 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18821778 AATATAGGGG
18821788 AAAATGTACCATT
1 AAAATGTACCATT
18821801 AAAATGTACCATT
1 AAAATGTACCATT
18821814 AA
1 AA
18821816 CGAATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (13 bp):
AAAATGTACCATT
Found at i:18833943 original size:27 final size:27
Alignment explanation
Indices: 18833913--18834187 Score: 219
Period size: 27 Copynumber: 9.8 Consensus size: 27
18833903 ATTACCAAAG
* *
18833913 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
18833940 TACCCTCGATTTATAGAAGTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
18833967 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
18833994 TACCCTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
18834021 TACCCCCGATTTACATAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
18834048 TACCC-CGTTTTACTCTCGACTTACAAAATTACCGTTT
1 TACCCTCG----A-T-T-TAC--A--GAATTACCGTTT
* **
18834085 TACCCTCGATTTACAAAATTATTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
18834112 TACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
18834139 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
18834166 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
18834188 AGAAATACCC
Statistics
Matches: 207, Mismatches: 29, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
26 2 0.01
27 176 0.85
29 1 0.00
30 1 0.00
31 3 0.01
32 2 0.01
33 3 0.01
34 1 0.00
35 1 0.00
37 15 0.07
38 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:18833971 original size:54 final size:54
Alignment explanation
Indices: 18833913--18834187 Score: 253
Period size: 54 Copynumber: 4.9 Consensus size: 54
18833903 ATTACCAAAG
* * * * * *
18833913 TACCCCCGATTTACATAATTACCGTTTTACCCTCGATTTATAGAAGTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCATTT
* * *
18833967 TACCCTTGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCATTT
* * * * * *
18834021 TACCCCCGATTTACATAATTACCATTTTACCCCGTTTTACTCTCGACTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTA-C----T-----GTTTTACCCTCGATTTACAGAATTACCATTT
* * * * *
18834085 TACCCTCGATTTACAAAATTATTGTTTTACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCATTT
* * *
18834139 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTAC
18834188 AGAAATACCC
Statistics
Matches: 176, Mismatches: 35, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
54 128 0.73
55 1 0.01
59 2 0.01
64 45 0.26
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCATTT
Found at i:18834059 original size:37 final size:38
Alignment explanation
Indices: 18834018--18834098 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 38
18834008 AGAATTACCA
* *
18834018 TTTTACCCCCGATTTACATAATTACCATTTTACCC-CG
1 TTTTACCCCCGACTTACAAAATTACCATTTTACCCTCG
* * *
18834055 TTTTACTCTCGACTTACAAAATTACCGTTTTACCCTCG
1 TTTTACCCCCGACTTACAAAATTACCATTTTACCCTCG
*
18834093 ATTTAC
1 TTTTAC
18834099 AAAATTATTG
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
37 30 0.81
38 7 0.19
ACGTcount: A:0.25, C:0.30, G:0.06, T:0.40
Consensus pattern (38 bp):
TTTTACCCCCGACTTACAAAATTACCATTTTACCCTCG
Found at i:18834096 original size:118 final size:118
Alignment explanation
Indices: 18833934--18834179 Score: 321
Period size: 118 Copynumber: 2.1 Consensus size: 118
18833924 TACATAATTA
* * * * * *
18833934 CCGTTTTACCCTCGATTTATAGAAGTACCGTTTTACCCTTGATTTATAGAATTACTGTTTTACCC
1 CCGTTTTACCCTCGACTTACAAAAGTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCC
* *
18833999 TTGATTTACAGAATTACCATTTTACCCCCGATTTACATAATTACCATTTTACC
66 TCGATTTACAGAATTACCATTTTACCCCCGATTTACAGAATTACCATTTTACC
* * * *
18834052 CCGTTTTACTCTCGACTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTATTGTTTTACCG
1 CCGTTTTACCCTCGACTTACAAAAGTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCC
* * ** *
18834117 TCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACC
66 TCGATTTACAGAATTACCATTTTACCCCCGATTTACAGAATTACCATTTTACC
*
18834170 CTCGATTTAC
1 C-CGTTTTAC
18834180 AAAATTACAG
Statistics
Matches: 109, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
118 102 0.94
119 7 0.06
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (118 bp):
CCGTTTTACCCTCGACTTACAAAAGTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCC
TCGATTTACAGAATTACCATTTTACCCCCGATTTACAGAATTACCATTTTACC
Found at i:18834186 original size:145 final size:145
Alignment explanation
Indices: 18833923--18834187 Score: 422
Period size: 145 Copynumber: 1.8 Consensus size: 145
18833913 TACCCCCGAT
* * * *
18833923 TTACATAATTACCGTTTTACCCTCGATTTATAGAAGTACCGTTTTACCCTTGATTTATAGAATTA
1 TTACAAAATTACCGTTTTACCCTCGATTTACAAAAGTACCGTTTTACCCTCGATTTATAGAATTA
* *
18833988 CTGTTTTACCCTTGATTTACAGAATTACCATTTTACCCCCGATTTACATAATTACCATTTTACCC
66 CTATTTTACCCTTGATTTACAGAATTACCATTTTACCCCCGATTTACAAAATTACCATTTTACCC
18834053 CGTTTTACTCTCGAC
131 CGTTTTACTCTCGAC
* ** *
18834068 TTACAAAATTACCGTTTTACCCTCGATTTACAAAATTATTGTTTTACCGTCGATTTATAGAATTA
1 TTACAAAATTACCGTTTTACCCTCGATTTACAAAAGTACCGTTTTACCCTCGATTTATAGAATTA
* *
18834133 CTATTTTACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
66 CTATTTTACCCTTGATTTACAGAATTACCATTTTACCCCCGATTTACAAAATTAC
18834188 AGAAATACCC
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
145 108 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (145 bp):
TTACAAAATTACCGTTTTACCCTCGATTTACAAAAGTACCGTTTTACCCTCGATTTATAGAATTA
CTATTTTACCCTTGATTTACAGAATTACCATTTTACCCCCGATTTACAAAATTACCATTTTACCC
CGTTTTACTCTCGAC
Found at i:18834224 original size:81 final size:80
Alignment explanation
Indices: 18834139--18834331 Score: 194
Period size: 81 Copynumber: 2.4 Consensus size: 80
18834129 ATTACTATTT
* ***
18834139 TACCCTTGATTTACAGAATTACTATTTTACC-CTCGATTTACAAAATTACAGAAATACCCTCAAT
1 TACCCTTGATTTACA-AATTACCAAAATACCACT-GATTTACAAAATTACAGAAATACCCTCAAT
18834203 TTGTAAAATTACCAAAA
64 TTGTAAAATTACCAAAA
* * * *** *
18834220 TACCCCTAGTTTGTA-AAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAAT
1 TA-CCCTTGATT-TACAAATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCCTCAAT
*
18834284 TTTTAAAATTACCAAAA
64 TTGTAAAATTACCAAAA
*
18834301 TACCCCTGATTTACAAAGTTA-CAGAAATACC
1 TACCCTTGATTTACAAA-TTACCA-AAATACC
18834332 CTTGACTTTC
Statistics
Matches: 91, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
79 2 0.02
80 11 0.12
81 66 0.73
82 10 0.11
83 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (80 bp):
TACCCTTGATTTACAAATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCCTCAATTT
GTAAAATTACCAAAA
Found at i:18834395 original size:27 final size:27
Alignment explanation
Indices: 18834139--18834391 Score: 136
Period size: 27 Copynumber: 9.3 Consensus size: 27
18834129 ATTACTATTT
* * **
18834139 TACCCTTGATTTACAGAATTA-CTATTT
1 TACCCTTGATTTACAAAATTACCGA-AA
* *
18834166 TACCCTCGATTTACAAAATTACAGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
** ** *
18834193 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCGAAA
* ** *
18834220 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACCGAAA
* ***
18834247 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGATTTACAAAATTACCGAAA
** ** *
18834274 TACCCTCAATTTTTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCGAAA
* * *
18834301 TACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
**
18834328 TACCCTTGACTTT-CTAAAAATTATAGAAA
1 TACCCTTGA-TTTAC--AAAATTACCGAAA
* * *
18834357 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
18834384 TACCCTTG
1 TACCCTTG
18834392 GTTTGTAGAT
Statistics
Matches: 179, Mismatches: 38, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
26 2 0.01
27 150 0.84
28 8 0.04
29 19 0.11
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCGAAA
Found at i:18834479 original size:27 final size:26
Alignment explanation
Indices: 18834448--18834540 Score: 114
Period size: 27 Copynumber: 3.5 Consensus size: 26
18834438 TACCCTTATT
*
18834448 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAA-CCCCTGTA
* *
18834475 GGGTAAAGTGACCGTAAAACCCCTGTA
1 AGGTAAAATGACCGT-AAACCCCTGTA
*
18834502 AGGTAAAGTGACCGTAATACCCCTGTA
1 AGGTAAAATGACCGTAA-ACCCCTGTA
*
18834529 TGGTAAAATGAC
1 AGGTAAAATGAC
18834541 GAATATGCCC
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.03
27 53 0.91
28 3 0.05
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (26 bp):
AGGTAAAATGACCGTAAACCCCTGTA
Found at i:18836539 original size:124 final size:124
Alignment explanation
Indices: 18836317--18836541 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
18836307 GAATTATGTG
* * * * * * *
18836317 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
18836382 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
*
18836441 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
18836506 GCTAAGTCCCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTAGAAATTATAT
18836542 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 3 0.03
124 85 0.97
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:18836663 original size:40 final size:40
Alignment explanation
Indices: 18836536--18836665 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
18836526 TTGCTGGAAA
* * *
18836536 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
18836576 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
18836616 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
18836656 TTATATCCGG
1 TTATATCCGG
18836666 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:18852091 original size:40 final size:40
Alignment explanation
Indices: 18851964--18852093 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
18851954 ATGCTGGAAA
* *
18851964 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
18852004 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
18852044 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
18852084 TTATATCCGG
1 TTATATCCGG
18852094 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Done.