Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 54 of 129
Found at i:10611423 original size:19 final size:19
Alignment explanation
Indices: 10611395--10611432 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
10611385 TAAATAAAGT
*
10611395 TTTTACATAAAGATTCTTA
1 TTTTAAATAAAGATTCTTA
*
10611414 TTTTAAATAAAGTTTCTTA
1 TTTTAAATAAAGATTCTTA
10611433 CATAAAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (19 bp):
TTTTAAATAAAGATTCTTA
Found at i:10613375 original size:19 final size:18
Alignment explanation
Indices: 10613351--10613386 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
10613341 CTAGCCTCTA
10613351 TTTTTTTTCTTTATTGTTC
1 TTTTTTTTCTTT-TTGTTC
10613370 TTTTTTTTCTTTTTGTT
1 TTTTTTTTCTTTTTGTT
10613387 TTACATTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.03, C:0.08, G:0.06, T:0.83
Consensus pattern (18 bp):
TTTTTTTTCTTTTTGTTC
Found at i:10614951 original size:12 final size:12
Alignment explanation
Indices: 10614934--10614971 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
10614924 ACTGTTAAAA
10614934 ATATATTTATTT
1 ATATATTTATTT
*
10614946 ATATATTTA-TG
1 ATATATTTATTT
10614957 ATATATTT-TTT
1 ATATATTTATTT
10614968 ATAT
1 ATAT
10614972 TAAATCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (12 bp):
ATATATTTATTT
Found at i:10616047 original size:14 final size:14
Alignment explanation
Indices: 10616024--10616054 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10616014 GTTCCTTTTT
*
10616024 AAATATATTTTATA
1 AAATACATTTTATA
10616038 AAATACATTTTATA
1 AAATACATTTTATA
10616052 AAA
1 AAA
10616055 AAGAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATACATTTTATA
Found at i:10616219 original size:31 final size:32
Alignment explanation
Indices: 10616146--10616250 Score: 106
Period size: 32 Copynumber: 3.3 Consensus size: 32
10616136 TCTATTTTTA
* ** *
10616146 AAAATGATATGAAAATTTCCACATAATATT-TT
1 AAAATGATATAAAAATTTTTACTTAAT-TTATT
* * *
10616178 AACATGATAT-AAAGTTTTTATTTAATTTATT
1 AAAATGATATAAAAATTTTTACTTAATTTATT
* *
10616209 AAACTGATATAAAAATTTTTACTTAATTTTTT
1 AAAATGATATAAAAATTTTTACTTAATTTATT
10616241 AAAATGATAT
1 AAAATGATAT
10616251 GTAATTTTAA
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
30 2 0.03
31 21 0.36
32 36 0.61
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.45
Consensus pattern (32 bp):
AAAATGATATAAAAATTTTTACTTAATTTATT
Found at i:10616397 original size:16 final size:15
Alignment explanation
Indices: 10616364--10616397 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
10616354 AAAATTAAAA
*
10616364 AATATTTTAAATTAT
1 AATATTTTAAAATAT
10616379 AATATTTTAAAAATAT
1 AATATTTT-AAAATAT
10616395 AAT
1 AAT
10616398 TGAGAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAAAATAT
Found at i:10617707 original size:14 final size:14
Alignment explanation
Indices: 10617684--10617714 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10617674 GTTCCTTTTT
*
10617684 AAATATATTTTATA
1 AAATACATTTTATA
10617698 AAATACATTTTATA
1 AAATACATTTTATA
10617712 AAA
1 AAA
10617715 AAGAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATACATTTTATA
Found at i:10617879 original size:31 final size:32
Alignment explanation
Indices: 10617806--10617910 Score: 108
Period size: 32 Copynumber: 3.3 Consensus size: 32
10617796 TCTATTTTTA
* *
10617806 AAAATGATAT-GAAATTTTTCACATAATATT-TT
1 AAAATGATATAAAAATTTTT-ACTTAAT-TTATT
* * *
10617838 AACATGATAT-AAAGTTTTTATTTAATTTATT
1 AAAATGATATAAAAATTTTTACTTAATTTATT
* *
10617869 AAACTGATATAAAAATTTTTACTTAATTTTTT
1 AAAATGATATAAAAATTTTTACTTAATTTATT
10617901 AAAATGATAT
1 AAAATGATAT
10617911 GTAATTTTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
30 2 0.03
31 15 0.25
32 43 0.72
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.47
Consensus pattern (32 bp):
AAAATGATATAAAAATTTTTACTTAATTTATT
Found at i:10618057 original size:16 final size:15
Alignment explanation
Indices: 10618024--10618057 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
10618014 AAAATTAAAA
*
10618024 AATATTTTAAATTAT
1 AATATTTTAAAATAT
10618039 AATATTTTAAAAATAT
1 AATATTTT-AAAATAT
10618055 AAT
1 AAT
10618058 TGAGAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAAAATAT
Found at i:10620493 original size:6 final size:6
Alignment explanation
Indices: 10620484--10620572 Score: 70
Period size: 6 Copynumber: 14.8 Consensus size: 6
10620474 ATTACTATTT
* * * * * *
10620484 ATTATC ATTATC GTTATC ATCATC ATCATC ATCATC ATCATC ATTATT
1 ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC
* * * * * *
10620532 ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTAT
1 ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC ATTAT
10620573 TATTGTTATT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 78 1.00
ACGTcount: A:0.33, C:0.12, G:0.01, T:0.54
Consensus pattern (6 bp):
ATTATC
Found at i:10620505 original size:3 final size:3
Alignment explanation
Indices: 10620499--10620527 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10620489 CATTATCGTT
10620499 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
10620528 TATTATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:10620532 original size:3 final size:3
Alignment explanation
Indices: 10620526--10620582 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
10620516 CATCATCATC
10620526 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
10620574 ATT GTT ATT
1 ATT ATT ATT
10620583 TGTTATTAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10620699 original size:19 final size:19
Alignment explanation
Indices: 10620675--10620713 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
10620665 ATTTAAAGGC
* *
10620675 TAATACATTTGTAAATTTA
1 TAATACATGTGCAAATTTA
10620694 TAATACATGTGCAAATTTA
1 TAATACATGTGCAAATTTA
10620713 T
1 T
10620714 TAAACAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (19 bp):
TAATACATGTGCAAATTTA
Found at i:10623137 original size:72 final size:71
Alignment explanation
Indices: 10623045--10623210 Score: 181
Period size: 71 Copynumber: 2.3 Consensus size: 71
10623035 AGATGACACT
10623045 GTAAGTAAAAAAATAAAGAATGACCAAAACAACACTGCAAGTTAAAAAATAAAGAATGA-CTGAG
1 GTAAGTAAAAAAATAAAGAATGACCAAAACAACA-TGCAAGTTAAAAAATAAAGAATGACCT-AG
10623109 ACGACATC
64 ACGACATC
** * * ** * * * *
10623117 GTAAGTAAAGTAATTAAGAATGACTAGGACGACATGCAAGTTGAAATATGAAGAATGACCTAGAC
1 GTAAGTAAAAAAATAAAGAATGACCAAAACAACATGCAAGTTAAAAAATAAAGAATGACCTAGAC
*
10623182 GACATT
66 GACATC
* **
10623188 GCAAGTTGAAAAATAAAGAATGA
1 GTAAGTAAAAAAATAAAGAATGA
10623211 TTAATATGAC
Statistics
Matches: 76, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
71 47 0.62
72 29 0.38
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.19
Consensus pattern (71 bp):
GTAAGTAAAAAAATAAAGAATGACCAAAACAACATGCAAGTTAAAAAATAAAGAATGACCTAGAC
GACATC
Found at i:10623198 original size:36 final size:35
Alignment explanation
Indices: 10623053--10623278 Score: 163
Period size: 36 Copynumber: 6.3 Consensus size: 35
10623043 CTGTAAGTAA
* * * * *
10623053 AAAAATAAAGAATGACCAAAACAACACTGCAAGTTA
1 AAAAATAAAGAATGA-CTAGACGACATTGCAAGTTG
* *
10623089 AAAAATAAAGAATGACTGAGACGACATCGTAAG-T-
1 AAAAATAAAGAATGACT-AGACGACATTGCAAGTTG
*
10623123 AAAGTAATTAAGAATGACTAGGACGACA-TGCAAGTTG
1 AAA--AATAAAGAATGACTA-GACGACATTGCAAGTTG
* *
10623160 AAATATGAAGAATGACCTAGACGACATTGCAAGTTG
1 AAAAATAAAGAATGA-CTAGACGACATTGCAAGTTG
* * * * *
10623196 AAAAATAAAGAATGATTAATATGACAATGCAAG-TC
1 AAAAATAAAGAATGACT-AGACGACATTGCAAGTTG
* * * * *
10623231 AAGTAATTAAGAATGACTAGGATGATATTGCATGTTG
1 AA-AAATAAAGAATGACTA-GACGACATTGCAAGTTG
10623268 AAAAATAAAGA
1 AAAAATAAAGA
10623279 TGAATAGGAT
Statistics
Matches: 150, Mismatches: 28, Indels: 24
0.74 0.14 0.12
Matches are distributed among these distances:
34 3 0.02
35 29 0.19
36 112 0.75
37 6 0.04
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (35 bp):
AAAAATAAAGAATGACTAGACGACATTGCAAGTTG
Found at i:10623203 original size:107 final size:108
Alignment explanation
Indices: 10623060--10623270 Score: 273
Period size: 107 Copynumber: 2.0 Consensus size: 108
10623050 TAAAAAAATA
* *
10623060 AAGAATGACCAAAACAACACTGCAAGTTAAAAAATAAAGAATGACTGAGACGAC-ATCGTAAGTA
1 AAGAATGACCAAAACAACACTGCAAGTTAAAAAATAAAGAATGACTAAGACGACAAT-GCAAGTA
10623124 AAGTAATTAAGAATGACTAGGACGACA-TGCAAGTTGAAATATG
65 AAGTAATTAAGAATGACTAGGACGACATTGCAAGTTGAAATATG
* * * * * * * * *
10623167 AAGAATGACCTAGACGACATTGCAAGTTGAAAAATAAAGAATGATTAATATGACAATGCAAGTCA
1 AAGAATGACCAAAACAACACTGCAAGTTAAAAAATAAAGAATGACTAAGACGACAATGCAAGTAA
* * *
10623232 AGTAATTAAGAATGACTAGGATGATATTGCATGTTGAAA
66 AGTAATTAAGAATGACTAGGACGACATTGCAAGTTGAAA
10623271 AATAAAGATG
Statistics
Matches: 88, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
107 75 0.85
108 13 0.15
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (108 bp):
AAGAATGACCAAAACAACACTGCAAGTTAAAAAATAAAGAATGACTAAGACGACAATGCAAGTAA
AGTAATTAAGAATGACTAGGACGACATTGCAAGTTGAAATATG
Found at i:10623207 original size:71 final size:70
Alignment explanation
Indices: 10623053--10623278 Score: 190
Period size: 72 Copynumber: 3.2 Consensus size: 70
10623043 CTGTAAGTAA
* * * * *
10623053 AAAAATAAAGAATGACCAAAACAACACTGCAAGTTAAAAAATAAAGAATGACTGAGACGACATCG
1 AAAAATAAAGAATGACTAAGACGACA-TGCAAGTTAAAATATAAAGAATGACT-AGACGACATTG
*
10623118 TAAG-T-
64 CAAGTTG
* * * *
10623123 AAAGTAATTAAGAATGACTAGGACGACATGCAAGTTGAAATATGAAGAATGACCTAGACGACATT
1 AAA--AATAAAGAATGACTAAGACGACATGCAAGTTAAAATATAAAGAATGA-CTAGACGACATT
10623188 GCAAGTTG
63 GCAAGTTG
* * * * * *
10623196 AAAAATAAAGAATGATTAATATGACAATGCAAGTCAAGTAAT-T-AAGAATGACTAGGATGATAT
1 AAAAATAAAGAATGACTAAGACGAC-ATGCAAGTTAA--AATATAAAGAATGACTA-GACGACAT
*
10623259 TGCATGTTG
62 TGCAAGTTG
10623268 AAAAATAAAGA
1 AAAAATAAAGA
10623279 TGAATAGGAT
Statistics
Matches: 127, Mismatches: 20, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
70 3 0.02
71 54 0.43
72 63 0.50
73 4 0.03
74 3 0.02
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (70 bp):
AAAAATAAAGAATGACTAAGACGACATGCAAGTTAAAATATAAAGAATGACTAGACGACATTGCA
AGTTG
Found at i:10623247 original size:72 final size:72
Alignment explanation
Indices: 10623167--10623318 Score: 191
Period size: 71 Copynumber: 2.1 Consensus size: 72
10623157 TTGAAATATG
* * *
10623167 AAGAATGACCTA-GACGACATTGCAAGTTGAAAAATAAAGAATGATTAATATGACAATGCAAGTC
1 AAGAATGACCTAGGACGACATTGCAAGTTGAAAAATAAAG-ATGAATAAGATGACAATACAAGTC
10623231 AAGTAATT
65 AAGTAATT
* * * * * *
10623239 AAGAATGA-CTAGGATGATATTGCATGTTGAAAAATAAAGATGAATAGGATGACATTACCAGTCA
1 AAGAATGACCTAGGACGACATTGCAAGTTGAAAAATAAAGATGAATAAGATGACAATACAAGTCA
10623303 AGTAATT
66 AGTAATT
*
10623310 AAAAATGAC
1 AAGAATGAC
10623319 AGGAATGATA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
71 36 0.53
72 32 0.47
ACGTcount: A:0.47, C:0.10, G:0.19, T:0.24
Consensus pattern (72 bp):
AAGAATGACCTAGGACGACATTGCAAGTTGAAAAATAAAGATGAATAAGATGACAATACAAGTCA
AGTAATT
Found at i:10623293 original size:107 final size:107
Alignment explanation
Indices: 10623053--10623294 Score: 267
Period size: 107 Copynumber: 2.3 Consensus size: 107
10623043 CTGTAAGTAA
* * * *
10623053 AAAAATAAAGAATGACCA-AAACAACACTGCAAGTTAAAAAATAAAGAATGACTGAGACGACATC
1 AAAAATAAAGAATGA-CATAGACGACATTGCAAGTTAAAAAATAAAGAATGACTAAGACGACATC
*
10623117 GTAAGTAAAGTAATTAAGAATGACTAGGACGACATGCAAGTTG
65 GCAAGTAAAGTAATTAAGAATGACTAGGACGACATGCAAGTTG
* * * * * * *
10623160 AAATATGAAGAATGACCTAGACGACATTGCAAGTTGAAAAATAAAGAATGATTAATATGACAAT-
1 AAAAATAAAGAATGACATAGACGACATTGCAAGTTAAAAAATAAAGAATGACTAAGACGAC-ATC
* * * *
10623224 GCAAGTCAAGTAATTAAGAATGACTAGGATGATATTGCATGTTG
65 GCAAGTAAAGTAATTAAGAATGACTAGGACGACA-TGCAAGTTG
*
10623268 AAAAATAAAG-ATGA-ATAGGATGACATT
1 AAAAATAAAGAATGACATA-GACGACATT
10623295 ACCAGTCAAG
Statistics
Matches: 111, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
106 3 0.03
107 90 0.81
108 18 0.16
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.22
Consensus pattern (107 bp):
AAAAATAAAGAATGACATAGACGACATTGCAAGTTAAAAAATAAAGAATGACTAAGACGACATCG
CAAGTAAAGTAATTAAGAATGACTAGGACGACATGCAAGTTG
Found at i:10623327 original size:71 final size:72
Alignment explanation
Indices: 10623185--10623328 Score: 193
Period size: 71 Copynumber: 2.0 Consensus size: 72
10623175 CCTAGACGAC
* * * *
10623185 ATTGCAAGTTGAAAAATAAAGAATGATTAATATGACAATGCAAGTCAAGTAATTAAGAATGACTA
1 ATTGCAAGTTGAAAAATAAAGAATGAATAAGATGACAATACAAGTCAAGTAATTAAAAATGACTA
10623250 GGATGAT
66 GGATGAT
* * * *
10623257 ATTGCATGTTGAAAAATAAAG-ATGAATAGGATGACATTACCAGTCAAGTAATTAAAAATGAC-A
1 ATTGCAAGTTGAAAAATAAAGAATGAATAAGATGACAATACAAGTCAAGTAATTAAAAATGACTA
10623320 GGAATGAT
66 GG-ATGAT
10623328 A
1 A
10623329 CCGTAAGTCA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
70 3 0.05
71 40 0.63
72 20 0.32
ACGTcount: A:0.47, C:0.08, G:0.19, T:0.26
Consensus pattern (72 bp):
ATTGCAAGTTGAAAAATAAAGAATGAATAAGATGACAATACAAGTCAAGTAATTAAAAATGACTA
GGATGAT
Found at i:10623349 original size:35 final size:37
Alignment explanation
Indices: 10623309--10623501 Score: 143
Period size: 36 Copynumber: 5.4 Consensus size: 37
10623299 GTCAAGTAAT
*
10623309 TAAA-AATGA-CAGGAATGATACCGTAAGTCAAAAAA
1 TAAAGAATGATCAGGAATGATATCGTAAGTCAAAAAA
* * * * * **
10623344 TAAAAAATGATC-GGGATGATATTGCAAGCCAAGTAA
1 TAAAGAATGATCAGGAATGATATCGTAAGTCAAAAAA
** **
10623380 TAAAGAACAAT-A-GAATGATATCACAAGTCAAAAAA
1 TAAAGAATGATCAGGAATGATATCGTAAGTCAAAAAA
* *
10623415 TAAAGAATGATC-GGGATGACATCGTAAGTCAAAAAA
1 TAAAGAATGATCAGGAATGATATCGTAAGTCAAAAAA
* * * *
10623451 TAAAGAATGAT-TGGAA-CACACCGTAAGTTC-AAAAA
1 TAAAGAATGATCAGGAATGATATCGTAAG-TCAAAAAA
*
10623486 TAAAAAATGATCAGGA
1 TAAAGAATGATCAGGA
10623502 TAACACCATA
Statistics
Matches: 123, Mismatches: 27, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
35 54 0.44
36 68 0.55
37 1 0.01
ACGTcount: A:0.51, C:0.11, G:0.18, T:0.19
Consensus pattern (37 bp):
TAAAGAATGATCAGGAATGATATCGTAAGTCAAAAAA
Found at i:10623508 original size:36 final size:37
Alignment explanation
Indices: 10623407--10623514 Score: 125
Period size: 36 Copynumber: 3.0 Consensus size: 37
10623397 ATATCACAAG
* * *
10623407 TCAAAAAATAAAGAATGATCGGGATGACATCGTAAG-
1 TCAAAAAATAAAGAATGATCAGGATAACACCGTAAGT
*
10623443 TCAAAAAATAAAGAATGAT-TGGA-ACACACCGTAAGT
1 TCAAAAAATAAAGAATGATCAGGATA-ACACCGTAAGT
* *
10623479 TC-AAAAATAAAAAATGATCAGGATAACACCATAAGT
1 TCAAAAAATAAAGAATGATCAGGATAACACCGTAAGT
10623515 CAAGTAATTA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
35 27 0.44
36 34 0.55
37 1 0.02
ACGTcount: A:0.51, C:0.13, G:0.17, T:0.19
Consensus pattern (37 bp):
TCAAAAAATAAAGAATGATCAGGATAACACCGTAAGT
Found at i:10623600 original size:36 final size:36
Alignment explanation
Indices: 10623510--10623601 Score: 96
Period size: 36 Copynumber: 2.6 Consensus size: 36
10623500 GATAACACCA
* *
10623510 TAAGTCAAGTAATTAAGAATAATTAGGACGACATTG
1 TAAGTCAAGTAATTAAGAACAATGAGGACGACATTG
* * ** * *
10623546 CAAATCAAAAAATAAAGAACAATCGA-GATGACATTG
1 TAAGTCAAGTAATTAAGAACAAT-GAGGACGACATTG
10623582 TAAGTCAAGTAATTAAGAAC
1 TAAGTCAAGTAATTAAGAAC
10623602 GACCAGGACA
Statistics
Matches: 42, Mismatches: 13, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
36 41 0.98
37 1 0.02
ACGTcount: A:0.50, C:0.11, G:0.16, T:0.23
Consensus pattern (36 bp):
TAAGTCAAGTAATTAAGAACAATGAGGACGACATTG
Found at i:10623760 original size:32 final size:31
Alignment explanation
Indices: 10623718--10623831 Score: 113
Period size: 32 Copynumber: 3.5 Consensus size: 31
10623708 CCAGTAATTC
10623718 AGGCTTAAATTTTCATTGGTGCCATCTAGATT
1 AGGCTTAAATTTTCATTGGTGCCA-CTAGATT
* * *
10623750 GGGCTTAAATTTTCCTTGGTGCTACCTA-ATCT
1 AGGCTTAAATTTTCATTGGTGCCA-CTAGAT-T
* * *
10623782 AGGCTTAAATTTTTATTGGGTACCACATAGACT
1 AGGCTTAAATTTTCATT-GGTGCCAC-TAGATT
*
10623815 AGGCTTAAATCTTCATT
1 AGGCTTAAATTTTCATT
10623832 TATGCTAGCT
Statistics
Matches: 66, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
31 2 0.03
32 40 0.61
33 23 0.35
34 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (31 bp):
AGGCTTAAATTTTCATTGGTGCCACTAGATT
Found at i:10623849 original size:65 final size:64
Alignment explanation
Indices: 10623718--10623862 Score: 157
Period size: 65 Copynumber: 2.2 Consensus size: 64
10623708 CCAGTAATTC
* * * * * * * *
10623718 AGGCTTAAATTTTCATTGGTGCCATCTAGATTGGGCTTAAATTTTCCTTGGTGCTACCTAATCT
1 AGGCTTAAATTTTTATTGGTACCATCTAGACTAGGCTTAAATCTTCATTGATGCTACCTAAACT
* *
10623782 AGGCTTAAATTTTTATTGGGTACCA-CATAGACTAGGCTTAAATCTTCATTTATGCTAGCTAAAC
1 AGGCTTAAATTTTTATT-GGTACCATC-TAGACTAGGCTTAAATCTTCATTGATGCTACCTAAAC
10623846 T
64 T
10623847 AGGGCTTAAATCTTTT
1 A-GGCTTAAAT-TTTT
10623863 GAGAATTATT
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
64 17 0.25
65 37 0.55
66 9 0.13
67 4 0.06
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.39
Consensus pattern (64 bp):
AGGCTTAAATTTTTATTGGTACCATCTAGACTAGGCTTAAATCTTCATTGATGCTACCTAAACT
Found at i:10624679 original size:9 final size:9
Alignment explanation
Indices: 10624665--10624725 Score: 52
Period size: 10 Copynumber: 6.4 Consensus size: 9
10624655 ATTTATTTTC
10624665 TTTTCCTTT
1 TTTTCCTTT
10624674 TTTTCCTTT
1 TTTTCCTTT
10624683 GTTATT-CTTT
1 -TT-TTCCTTT
*
10624693 CTTTCCTTT
1 TTTTCCTTT
*
10624702 TTCTTCATTT
1 TT-TTCCTTT
*
10624712 TCTTCACTTT
1 TTTTC-CTTT
10624722 TTTT
1 TTTT
10624726 TTTGCATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
8 2 0.05
9 18 0.44
10 19 0.46
11 2 0.05
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.72
Consensus pattern (9 bp):
TTTTCCTTT
Found at i:10625006 original size:17 final size:19
Alignment explanation
Indices: 10624981--10625019 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
10624971 TTTTTTCTTC
*
10624981 TTTTTTCTTG-ATTTTT-A
1 TTTTGTCTTGAATTTTTCA
10624998 TTTTGTCTTGAATTTTTCA
1 TTTTGTCTTGAATTTTTCA
10625017 TTT
1 TTT
10625020 GGCTTTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 6 0.32
19 4 0.21
ACGTcount: A:0.13, C:0.08, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTGTCTTGAATTTTTCA
Found at i:10625158 original size:13 final size:13
Alignment explanation
Indices: 10625140--10625172 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
10625130 TTCTTTATCT
10625140 TTTCTTTTTTTTC
1 TTTCTTTTTTTTC
10625153 TTTCTTTTTTTTC
1 TTTCTTTTTTTTC
10625166 -TTCTTTT
1 TTTCTTTT
10625173 GATTTTTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Found at i:10628808 original size:236 final size:235
Alignment explanation
Indices: 10628377--10628835 Score: 625
Period size: 236 Copynumber: 1.9 Consensus size: 235
10628367 ACTTATCACT
* * ** * *
10628377 AAATTGATTTGTTGGAAAATTTTTTTGTGATGTCTTTTTATTTTATCTGACATTATAATTTTGTC
1 AAATTGATTTGGTGGAAAAATTTTTTGTGACATCTTTTTATATTATCTGACATTATAATTTTGAC
*
10628442 ACCAATTTAAAATTGTCTATGACAAATATTTTCTTATAAATTTTAGGTGACATTATTAATTTTTG
66 ACCAATTTAAAATTATCTATGACAAATATTTTCTTATAAATTTTAGGTGACATTATTAATTTTTG
* *
10628507 TCACAAATTAAACACTTTAGTTAACTATTAATGACGTTGCAATTTCGTCATATCAATGTATGGTG
131 TCACAAATTAAACACTTTAGTTAACTATTAATAACATTGCAATTTCGTCATATCAATGTATGGTG
**
10628572 TTATATGATGAAAACATAAATATCACAAACTTTTGCCTCC
196 TTATATGACAAAAACATAAATATCACAAACTTTTGCCTCC
* * * **
10628612 AAATTTATTTGGT-GAAAAATTTTTTGTGACATTTTTTTATATTATGTGATGTTATAATTTTGAC
1 AAATTGATTTGGTGGAAAAATTTTTTGTGACATCTTTTTATATTATCTGACATTATAATTTTGAC
* * ** * *
10628676 ACCAATTTAAAATTTTATTTGTGATGAATTTTTTCTTATAGATTTTAGGTGA-AGTTATTAATTT
66 ACCAATTTAAAA--TTATCTATGACAAATATTTTCTTATAAATTTTAGGTGACA-TTATTAATTT
* * ** * *
10628740 TTGTTACAAATTGAATGCTTTAGTTAACTATTAATAACATTGCAATTTTGTCATGTCAATGTATG
128 TTGTCACAAATTAAACACTTTAGTTAACTATTAATAACATTGCAATTTCGTCATATCAATGTATG
10628805 GTGTTATATGACAAAAACATAAATATCACAA
193 GTGTTATATGACAAAAACATAAATATCACAA
10628836 CGAAATTTTT
Statistics
Matches: 193, Mismatches: 28, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
234 54 0.28
235 12 0.06
236 127 0.66
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (235 bp):
AAATTGATTTGGTGGAAAAATTTTTTGTGACATCTTTTTATATTATCTGACATTATAATTTTGAC
ACCAATTTAAAATTATCTATGACAAATATTTTCTTATAAATTTTAGGTGACATTATTAATTTTTG
TCACAAATTAAACACTTTAGTTAACTATTAATAACATTGCAATTTCGTCATATCAATGTATGGTG
TTATATGACAAAAACATAAATATCACAAACTTTTGCCTCC
Found at i:10629086 original size:449 final size:446
Alignment explanation
Indices: 10628412--10629222 Score: 1238
Period size: 448 Copynumber: 1.8 Consensus size: 446
10628402 TGTGATGTCT
* * * *
10628412 TTTTATTTTATCTGACATTATAATTTTGTCACCAATTTAAAATTGTCTATGACAAATATTTTCTT
1 TTTTATTTTAGCTGACATTATAATTTTGTCACCAATTAAAAATTATCTATGACAAATATTTTCTG
10628477 ATAAATTTTAGGTGACATTATTAATTTTTGTCACAAATTAAACACTTTAGTTAACTATTAATGAC
66 ATAAATTTTAGGTGACATTATTAATTTTTGTCACAAATTAAACACTTTAGTTAACTATTAATGAC
* * * *
10628542 GTTGCAATTTCGTCATATCAATGTATGGTGTTATATGATGAAAACATAAATATCACAAACTTTTG
131 ATTGCAATTTCGTCACATCAATGTATGGTGTTATATGACGAAAACATAAATATCACAAACTTTTA
** * *
10628607 CCTCCAAATTTATTTGGTGAAAAATTTTTTGTGACATTTTTTTATATTATGTGA-TGTTATAATT
196 CAGCCAAATTTATTTGGTGAAAAATTTTTTGTGACA-TTTTTTATATTAGGT-ATTGTTATAACT
* *
10628671 TTGACACCAATTTAAAATTTTATTTGTGATGAATTTTTTCT-TATAGATTTTAGGTGAAGTTATT
259 TTGACACCAATTTAAAATTTTATTTATGATGAATTTTTT-TGGATAGATTTTAGGTGAAGTTATT
10628735 AATTTTTGTTACAAATTGAATGC-TT-TAGTTAACTATTAATAACATTGCAATTTTGTCATGTCA
323 AATTTTTGTTACAAATTGAA--CATTGTAGTTAACTATTAATAACATTGCAATTTTGTCATGTCA
10628798 ATGTATGGTGTTATATGACAAAAACATAAATATCACAACGAAATTTTTTTTATGTTTTTTA
386 ATGTATGGTGTTATATGACAAAAACATAAATATCACAACGAAATTTTTTTTATGTTTTTTA
* * * *
10628859 TTTTATTTTAGGTGATATTATAATTTTGTCACCAATTAAAAATTTTATCTATGACGAATTTTTTC
1 TTTTATTTTAGCTGACATTATAATTTTGTCACCAATTAAAAA--TTATCTATGACAAATATTTTC
* *
10628924 TGATAAATTTTAGGTGA-AGTTATTAATTTTTGTCACAAATTGAACATTTTAGTTAACTATTAAT
64 TGATAAATTTTAGGTGACA-TTATTAATTTTTGTCACAAATTAAACACTTTAGTTAACTATTAAT
* * *
10628988 GACATTGTAATTTCGTCACATCAATGTATGGTGTTATATGACG-AAACATAAATGTCATAAACTT
128 GACATTGCAATTTCGTCACATCAATGTATGGTGTTATATGACGAAAACATAAATATCACAAACTT
* * *
10629052 TTATAGCCGAATTTATTTGGTGAAAAATTTTTTTGTGACATTTTTTATTTTAGGTATTGTTATAA
193 TTACAGCCAAATTTATTTGGTGAAAAA-TTTTTTGTGACATTTTTTATATTAGGTATTGTTATAA
* *
10629117 CTTTGTCACCAATTTAAAATTTTATTTATGATGAATTTTTTTGGATAGATTTTAGGTGATGTTAT
257 CTTTGACACCAATTTAAAATTTTATTTATGATGAATTTTTTTGGATAGATTTTAGGTGAAGTTAT
*
10629182 TAATTTTTGTTTCAAATTGAACATTGTAGTTAACTATTAAT
322 TAATTTTTGTTACAAATTGAACATTGTAGTTAACTATTAAT
10629223 TCTGTCACGT
Statistics
Matches: 327, Mismatches: 29, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
446 1 0.00
447 42 0.13
448 156 0.48
449 128 0.39
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (446 bp):
TTTTATTTTAGCTGACATTATAATTTTGTCACCAATTAAAAATTATCTATGACAAATATTTTCTG
ATAAATTTTAGGTGACATTATTAATTTTTGTCACAAATTAAACACTTTAGTTAACTATTAATGAC
ATTGCAATTTCGTCACATCAATGTATGGTGTTATATGACGAAAACATAAATATCACAAACTTTTA
CAGCCAAATTTATTTGGTGAAAAATTTTTTGTGACATTTTTTATATTAGGTATTGTTATAACTTT
GACACCAATTTAAAATTTTATTTATGATGAATTTTTTTGGATAGATTTTAGGTGAAGTTATTAAT
TTTTGTTACAAATTGAACATTGTAGTTAACTATTAATAACATTGCAATTTTGTCATGTCAATGTA
TGGTGTTATATGACAAAAACATAAATATCACAACGAAATTTTTTTTATGTTTTTTA
Found at i:10633200 original size:28 final size:27
Alignment explanation
Indices: 10633145--10633196 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
10633135 GAATTTGTGG
10633145 GATTGCATGTGAATGCTCTTGATATTGA
1 GATTGCA-GTGAATGCTCTTGATATTGA
*
10633173 GATTGCA-TGAATGCTTTTGATATT
1 GATTGCAGTGAATGCTCTTGATATT
10633197 TTGATATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 16 0.70
28 7 0.30
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.42
Consensus pattern (27 bp):
GATTGCAGTGAATGCTCTTGATATTGA
Found at i:10640165 original size:16 final size:16
Alignment explanation
Indices: 10640144--10640176 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10640134 GAAAAGGCTT
10640144 TCAAAATTTTTAATTA
1 TCAAAATTTTTAATTA
*
10640160 TCAAAATTTTTATTTA
1 TCAAAATTTTTAATTA
10640176 T
1 T
10640177 GTCTTTATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
TCAAAATTTTTAATTA
Found at i:10642448 original size:203 final size:202
Alignment explanation
Indices: 10641767--10642536 Score: 775
Period size: 201 Copynumber: 3.8 Consensus size: 202
10641757 ATGATGTTAT
* *
10641767 TTGTGTCACCAATACTATGACGATTTACCTTTGTTC-CTAATATATAAAATTTTATCATTTCTTT
1 TTGTGTCACCAATACTATGACGATTTACCTTCG-TCACTAATATATAAAATTTTATCATTTATTT
* * * * * * * *
10641831 TGTGACGATTATAGCATTTAATAACGTTTATTTTCATATATAGCTGACGAAATCTAATGTCAC--
65 TGTGATGATTATAGCCTTTAATGACATTTTTTTTCATAAATAACTGATGAAATCTAATGTCACAA
** * * * *
10641894 -AAAAAAAGGGTGAGATGATGTTTGATTTTATTGTCACATTTGACGTTATCTTACAATCATTTGT
130 AAAAAAAAGTATAAGATGACGTTTGATTTTATTGTCACATTTGACATTATCTTACAATCATTAGT
* *
10641958 AACGTTAA
195 GACGATAA
* * *
10641966 TTGTGTCACCAATATTATGACAATTTACCTTTTCGTCACTAATATATAAGATTTTATCATTTATT
1 TTGTGTCACCAATACTATGACGATTTACC--TTCGTCACTAATATATAAAATTTTATCATTTATT
* * * * * * *
10642031 TTGTGATGATTATAGCCATCAATGACTTTTTTTTTCATAAATAACTGATGAAAACTAACGTTA-T
64 TTGTGATGATTATAGCCTTTAATGACATTTTTTTTCATAAATAACTGATGAAATCTAATGTCACA
*** * * * * ** *
10642095 AAAAAAAACCCATAAGGTGAC-TTTGGTTTTATTGTCACGTTTGACATTATTTTATTATCATTAA
129 AAAAAAAAAGTATAAGATGACGTTTGATTTTATTGTCACATTTGACATTATCTTACAATCATTAG
* *
10642159 TGGCAATAA
194 TGACGATAA
* * * * * * * * *
10642168 TTATGTCATCAATACTGTGATGATTTACCTATCATTATTAATAAATCAAATTTTATCATTTATTT
1 TTGTGTCACCAATACTATGACGATTTACCT-TCGTCACTAATATATAAAATTTTATCATTTATTT
* *
10642233 TGTGATGATTATACCCTTTAATGACATTTTTTTTTATAAATAACTGATGAAAAT-TAATGTCACA
65 TGTGATGATTATAGCCTTTAATGACATTTTTTTTCATAAATAACTGATG-AAATCTAATGTCACA
* * * * * * *
10642297 AAAAAAAAATTATAAGGTGACATTTGATTTTATTATCACATTTTATATTATCTTACAAAT-ATTG
129 AAAAAAAAAGTATAAGATGACGTTTGATTTTATTGTCACATTTGACATTATCTTAC-AATCATTA
10642361 GTGACGATAA
193 GTGACGATAA
* * * * * * *
10642371 TTGTGTCACAAATACTATAATGGTTTACCATTCGTCACTAATATATCAGATTTTATAATTTATTT
1 TTGTGTCACCAATACTATGACGATTTACC-TTCGTCACTAATATATAAAATTTTATCATTTATTT
* * * **
10642436 TGTGAAGATTATAGCTTTTAATGACA-TTTTTTCCATAAATAGTTGATGAAATCTAATGTCACAA
65 TGTGATGATTATAGCCTTTAATGACATTTTTTTTCATAAATAACTGATGAAATCTAATGTCACAA
*
10642500 AAAAAAAGGTATAAGATGACGTTTGATTTTATTGTCA
130 AAAAAAAAGTATAAGATGACGTTTGATTTTATTGTCA
10642537 TGGTAGATTC
Statistics
Matches: 461, Mismatches: 97, Indels: 23
0.79 0.17 0.04
Matches are distributed among these distances:
199 27 0.06
200 3 0.01
201 160 0.35
202 145 0.31
203 123 0.27
204 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (202 bp):
TTGTGTCACCAATACTATGACGATTTACCTTCGTCACTAATATATAAAATTTTATCATTTATTTT
GTGATGATTATAGCCTTTAATGACATTTTTTTTCATAAATAACTGATGAAATCTAATGTCACAAA
AAAAAAAGTATAAGATGACGTTTGATTTTATTGTCACATTTGACATTATCTTACAATCATTAGTG
ACGATAA
Found at i:10645495 original size:19 final size:19
Alignment explanation
Indices: 10645483--10645554 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
10645473 AGGTCTTGGC
10645483 TTTTACCTAAGGTTTAGGG
1 TTTTACCTAAGGTTTAGGG
* * * *
10645502 TTCTACCTAGGGTCTCA-GT
1 TTTTACCTAAGGT-TTAGGG
*
10645521 TTTTACCTAAAGTTTAGGG
1 TTTTACCTAAGGTTTAGGG
10645540 TTTTACCTAAGGTTT
1 TTTTACCTAAGGTTT
10645555 CGTTATCAAT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
18 2 0.05
19 37 0.90
20 2 0.05
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.43
Consensus pattern (19 bp):
TTTTACCTAAGGTTTAGGG
Found at i:10645588 original size:13 final size:13
Alignment explanation
Indices: 10645570--10645657 Score: 61
Period size: 13 Copynumber: 6.5 Consensus size: 13
10645560 TCAATTAAGA
*
10645570 TTTAGGATTTTGT
1 TTTAGGGTTTTGT
*
10645583 TTTAGGTTTTTGATT
1 TTTAGGGTTTTG--T
*
10645598 TTACCTAGGGTTTAGT
1 TT---TAGGGTTTTGT
10645614 TTTAGGGTTTTGT
1 TTTAGGGTTTTGT
*
10645627 ATTAGGGTTTT-T
1 TTTAGGGTTTTGT
* * *
10645639 CTTAGGATTTTAT
1 TTTAGGGTTTTGT
10645652 TTTAGG
1 TTTAGG
10645658 TTTCCAAAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
12 10 0.16
13 37 0.61
15 3 0.05
16 3 0.05
18 8 0.13
ACGTcount: A:0.16, C:0.03, G:0.24, T:0.57
Consensus pattern (13 bp):
TTTAGGGTTTTGT
Found at i:10646141 original size:2 final size:2
Alignment explanation
Indices: 10646134--10646162 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10646124 GATATTTAAC
10646134 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 A
10646163 ACCTAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10648231 original size:20 final size:20
Alignment explanation
Indices: 10648206--10648244 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
10648196 AAATTAATCT
10648206 ATAAAT-TTTTTTAATATTTG
1 ATAAATATTTTTT-ATATTTG
10648226 ATAAATATTTTTTATATTT
1 ATAAATATTTTTTATATTT
10648245 TTACTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
ATAAATATTTTTTATATTTG
Found at i:10650018 original size:14 final size:16
Alignment explanation
Indices: 10649999--10650033 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
10649989 AAGTGGGGTC
10649999 TATTTAATAT-TA-TT
1 TATTTAATATATATTT
10650013 TATTTAATATATATTT
1 TATTTAATATATATTT
10650029 TATTT
1 TATTT
10650034 GATAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.53
15 2 0.11
16 7 0.37
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTTAATATATATTT
Found at i:10650729 original size:8 final size:8
Alignment explanation
Indices: 10650704--10650763 Score: 68
Period size: 8 Copynumber: 7.5 Consensus size: 8
10650694 TGCTTTTTCC
*
10650704 TTTTCCTT
1 TTTTCATT
**
10650712 TTTTTTTT
1 TTTTCATT
10650720 TTTTCATT
1 TTTTCATT
10650728 TTTTCATT
1 TTTTCATT
*
10650736 TTTTCATC
1 TTTTCATT
10650744 TTTTCACTT
1 TTTTCA-TT
10650753 TTTT-ATT
1 TTTTCATT
10650760 TTTT
1 TTTT
10650764 AAAATTAGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
7 6 0.13
8 34 0.76
9 5 0.11
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTCATT
Found at i:10650729 original size:16 final size:16
Alignment explanation
Indices: 10650682--10650747 Score: 53
Period size: 16 Copynumber: 4.0 Consensus size: 16
10650672 CTATATACTC
10650682 TTTTTTTTTC-TTTGCTT
1 TTTTTTTTTCATTT--TT
** *
10650699 TTTCCTTTTCCTTTTT
1 TTTTTTTTTCATTTTT
10650715 TTTTTTTTTCATTTTT
1 TTTTTTTTTCATTTTT
**
10650731 TCATTTTTTCATCTTTT
1 TTTTTTTTTCAT-TTTT
10650748 CACTTTTTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
16 25 0.62
17 12 0.30
18 3 0.08
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTTTTTTCATTTTT
Found at i:10650731 original size:30 final size:28
Alignment explanation
Indices: 10650681--10650737 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
10650671 TCTATATACT
*
10650681 CTTTTTTTTTCTTTGCTTTTTCCTTTTC
1 CTTTTTTTTTCTTTGCTTTTTCATTTTC
* *
10650709 CTTTTTTTTTTTTTTCATTTTTTCATTTT
1 CTTTTTTTTTCTTTGC--TTTTTCATTTT
10650738 TTCATCTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 14 0.58
30 10 0.42
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.79
Consensus pattern (28 bp):
CTTTTTTTTTCTTTGCTTTTTCATTTTC
Found at i:10652724 original size:29 final size:29
Alignment explanation
Indices: 10652667--10652724 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
10652657 CAGTCAGGCG
* **
10652667 TGGATTACATTTAATGGTCCTAGGTAAGT
1 TGGACTACATTTAATGGTCCTAGCCAAGT
* *
10652696 TGGACTACGTTTAATGGTCTTAGCCAAGT
1 TGGACTACATTTAATGGTCCTAGCCAAGT
10652725 GTTTAGCTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (29 bp):
TGGACTACATTTAATGGTCCTAGCCAAGT
Found at i:10655967 original size:18 final size:18
Alignment explanation
Indices: 10655938--10655976 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
10655928 ATGAGATCAA
10655938 GTTGGTTTTAGGGTTTAAG
1 GTTGGTTTTAGGGTTT-AG
10655957 GTTGG-TTTAGGGTTTAG
1 GTTGGTTTTAGGGTTTAG
10655974 GTT
1 GTT
10655977 AGGGTTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.25
18 10 0.50
19 5 0.25
ACGTcount: A:0.13, C:0.00, G:0.38, T:0.49
Consensus pattern (18 bp):
GTTGGTTTTAGGGTTTAG
Found at i:10655970 original size:7 final size:7
Alignment explanation
Indices: 10655944--10656243 Score: 97
Period size: 7 Copynumber: 45.4 Consensus size: 7
10655934 TCAAGTTGGT
10655944 TTTAGGG
1 TTTAGGG
*
10655951 TTTAAGG
1 TTTAGGG
10655958 -TT--GG
1 TTTAGGG
10655962 TTTAGGG
1 TTTAGGG
10655969 TTTA-GG
1 TTTAGGG
10655975 -TTAGGG
1 TTTAGGG
**
10655981 TTTCA-AT
1 TTT-AGGG
*
10655988 TTTAGGA
1 TTTAGGG
10655995 TTTAGGG
1 TTTAGGG
10656002 -TTAGGG
1 TTTAGGG
10656008 -TTAGGG
1 TTTAGGG
*
10656014 TTT-TGG
1 TTTAGGG
*
10656020 TTTAAGG
1 TTTAGGG
10656027 TTTA-GG
1 TTTAGGG
10656033 TTTAGGG
1 TTTAGGG
* *
10656040 TCTA-AG
1 TTTAGGG
10656046 TTTAGGG
1 TTTAGGG
*
10656053 TTTAAGG
1 TTTAGGG
*
10656060 TTTAAGGT
1 TTT-AGGG
10656068 TTTA--G
1 TTTAGGG
10656073 TTTAGGG
1 TTTAGGG
*
10656080 TTTTGGG
1 TTTAGGG
*
10656087 TTATGGGG
1 TT-TAGGG
*
10656095 TTT-GGA
1 TTTAGGG
10656101 TTTAGGG
1 TTTAGGG
*
10656108 TTT-GTGA
1 TTTAG-GG
*
10656115 TTTAGTG
1 TTTAGGG
*
10656122 TTT-TGG
1 TTTAGGG
**
10656128 TTTAAAG
1 TTTAGGG
*
10656135 TTTAGGA
1 TTTAGGG
*
10656142 TTTATGG
1 TTTAGGG
*
10656149 TTT-CGG
1 TTTAGGG
* *
10656155 CTTAAGG
1 TTTAGGG
*
10656162 TTTAAGG
1 TTTAGGG
*
10656169 TTT-GGA
1 TTTAGGG
*
10656175 TTTAGGA
1 TTTAGGG
**
10656182 TTTA-AA
1 TTTAGGG
*
10656188 TCTAGGG
1 TTTAGGG
*
10656195 TTTAGAG
1 TTTAGGG
*
10656202 TTT-GGA
1 TTTAGGG
10656208 TTT-GGG
1 TTTAGGG
*
10656214 ATTT-GGT
1 -TTTAGGG
10656221 TTTAGGG
1 TTTAGGG
*
10656228 TTT-GGA
1 TTTAGGG
10656234 TTTAGGG
1 TTTAGGG
10656241 TTT
1 TTT
10656244 TAGTTTTGAT
Statistics
Matches: 217, Mismatches: 51, Indels: 50
0.68 0.16 0.16
Matches are distributed among these distances:
4 2 0.01
5 9 0.04
6 70 0.32
7 123 0.57
8 13 0.06
ACGTcount: A:0.18, C:0.02, G:0.33, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:10656034 original size:13 final size:13
Alignment explanation
Indices: 10655988--10656171 Score: 72
Period size: 13 Copynumber: 13.7 Consensus size: 13
10655978 GGGTTTCAAT
10655988 TTTAGGATTT-AGG
1 TTTAGG-TTTAAGG
* * *
10656001 GTTAGGGTTAGGG
1 TTTAGGTTTAAGG
*
10656014 TTTTGGTTTAAGG
1 TTTAGGTTTAAGG
*
10656027 TTTAGGTTTAGGG
1 TTTAGGTTTAAGG
* * *
10656040 TCTAAGTTTAGGG
1 TTTAGGTTTAAGG
10656053 TTTAAGGTTTAAGG
1 TTT-AGGTTTAAGG
*
10656067 TTTTA-GTTTAGGG
1 -TTTAGGTTTAAGG
* **
10656080 TTTTGGGTTATGGGG
1 -TTTAGGTT-TAAGG
*
10656095 TTT-GGATTTAGGG
1 TTTAGG-TTTAAGG
10656108 TTT-GTGATTT-AGTG
1 TTTAG-G-TTTAAG-G
* *
10656122 TTTTGGTTTAAAG
1 TTTAGGTTTAAGG
*
10656135 TTTAGGATTTATGG
1 TTTAGG-TTTAAGG
* *
10656149 TTTCGGCTTAAGG
1 TTTAGGTTTAAGG
10656162 TTTAAGGTTT
1 TTT-AGGTTT
10656172 GGATTTAGGA
Statistics
Matches: 131, Mismatches: 28, Indels: 23
0.72 0.15 0.13
Matches are distributed among these distances:
12 2 0.02
13 79 0.60
14 42 0.32
15 8 0.06
ACGTcount: A:0.18, C:0.02, G:0.33, T:0.47
Consensus pattern (13 bp):
TTTAGGTTTAAGG
Found at i:10656081 original size:20 final size:20
Alignment explanation
Indices: 10655960--10656082 Score: 98
Period size: 20 Copynumber: 6.2 Consensus size: 20
10655950 GTTTAAGGTT
*
10655960 GGTTTAGGGTTTAGG-TTAG
1 GGTTTAAGGTTTAGGTTTAG
*
10655979 GGTTTCAA-TTTTAGGATTTAG
1 GGTTT-AAGGTTTAGG-TTTAG
* *
10656000 GG-TT-AGGGTTAGGGTTT-T
1 GGTTTAAGGTTTA-GGTTTAG
10656018 GGTTTAAGGTTTAGGTTTAG
1 GGTTTAAGGTTTAGGTTTAG
* *
10656038 GGTCTAA-GTTTAGGGTTTAA
1 GGTTTAAGGTTTA-GGTTTAG
10656058 GGTTTAAGGTTTTA-GTTTAG
1 GGTTTAAGG-TTTAGGTTTAG
10656078 GGTTT
1 GGTTT
10656083 TGGGTTATGG
Statistics
Matches: 82, Mismatches: 11, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
18 3 0.04
19 29 0.35
20 39 0.48
21 7 0.09
22 4 0.05
ACGTcount: A:0.19, C:0.02, G:0.34, T:0.46
Consensus pattern (20 bp):
GGTTTAAGGTTTAGGTTTAG
Found at i:10656116 original size:14 final size:13
Alignment explanation
Indices: 10655992--10656243 Score: 69
Period size: 13 Copynumber: 19.0 Consensus size: 13
10655982 TTCAATTTTA
*
10655992 GGATTTAGGGTTA
1 GGATTTAGGGTTT
*
10656005 GG-GTTAGGGTTTT
1 GGATTTAGGG-TTT
*
10656018 GG-TTTAAGGTTT
1 GGATTTAGGGTTT
*
10656030 AGG-TTTAGGGTCT
1 -GGATTTAGGGTTT
*
10656043 -AAGTTTAGGGTTT
1 GGA-TTTAGGGTTT
*
10656056 AAGG-TTTAAGGTTT
1 --GGATTTAGGGTTT
*
10656070 -TAGTTTAGGGTTTT
1 GGA-TTTAGGG-TTT
* *
10656084 GGGTTATGGGGTTT
1 GGATT-TAGGGTTT
10656098 GGATTTAGGGTTT
1 GGATTTAGGGTTT
*
10656111 GTGATTTAGTGTTTT
1 G-GATTTAG-GGTTT
**
10656126 GG-TTTAAAGTTT
1 GGATTTAGGGTTT
*
10656138 AGGATTTATGGTTT
1 -GGATTTAGGGTTT
* *
10656152 CGG-CTTAAGGTTT
1 -GGATTTAGGGTTT
*
10656165 AAGG-TTT-GGATTT
1 --GGATTTAGGGTTT
** *
10656178 AGGATTTA-AATCTA
1 -GGATTTAGGGT-TT
* *
10656192 GGGTTTAGAGTTT
1 GGATTTAGGGTTT
10656205 GGATTT-GGGATTT
1 GGATTTAGGG-TTT
*
10656218 GGTTTTAGGGTTT
1 GGATTTAGGGTTT
10656231 GGATTTAGGGTTT
1 GGATTTAGGGTTT
10656244 TAGTTTTGAT
Statistics
Matches: 177, Mismatches: 39, Indels: 46
0.68 0.15 0.18
Matches are distributed among these distances:
12 17 0.10
13 102 0.58
14 49 0.28
15 9 0.05
ACGTcount: A:0.18, C:0.02, G:0.34, T:0.46
Consensus pattern (13 bp):
GGATTTAGGGTTT
Found at i:10656151 original size:27 final size:27
Alignment explanation
Indices: 10656113--10656165 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
10656103 TAGGGTTTGT
* *
10656113 GATTTAGTGTTTTGGTTTAAAGTTTAG
1 GATTTAGTGTTTCGGCTTAAAGTTTAG
*
10656140 GATTTA-TGGTTTCGGCTTAAGGTTTA
1 GATTTAGT-GTTTCGGCTTAAAGTTTA
10656166 AGGTTTGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.21, C:0.04, G:0.26, T:0.49
Consensus pattern (27 bp):
GATTTAGTGTTTCGGCTTAAAGTTTAG
Found at i:10656185 original size:20 final size:21
Alignment explanation
Indices: 10656135--10656186 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
10656125 TGGTTTAAAG
* *
10656135 TTTAGGATTTATGGTTTCGGC
1 TTTAGGATTTAAGGTTTCGGA
*
10656156 TTAAGG-TTTAAGGTTT-GGA
1 TTTAGGATTTAAGGTTTCGGA
10656175 TTTAGGATTTAA
1 TTTAGGATTTAA
10656187 ATCTAGGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.27
20 14 0.54
21 5 0.19
ACGTcount: A:0.23, C:0.04, G:0.27, T:0.46
Consensus pattern (21 bp):
TTTAGGATTTAAGGTTTCGGA
Found at i:10656224 original size:26 final size:27
Alignment explanation
Indices: 10656195--10656250 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
10656185 AAATCTAGGG
*
10656195 TTTAGAGTTTGGATTT-GGGATTTGGT
1 TTTAGAGTTTGGATTTAGGGATTTAGT
* *
10656221 TTTAGGGTTTGGATTTAGGGTTTTAGT
1 TTTAGAGTTTGGATTTAGGGATTTAGT
10656248 TTT
1 TTT
10656251 GATGCATAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.14, C:0.00, G:0.32, T:0.54
Consensus pattern (27 bp):
TTTAGAGTTTGGATTTAGGGATTTAGT
Found at i:10657130 original size:144 final size:144
Alignment explanation
Indices: 10656966--10657233 Score: 340
Period size: 144 Copynumber: 1.9 Consensus size: 144
10656956 AGTTTTTGTG
* * * *
10656966 AAAAATCGACCTCGAAAAAGTCAAATTATGAAATTAAATTTTAAGGGCATTTTAGTAATTTTACA
1 AAAAATCAACCTCGAAAAAGTCAAATTATAAAAATAAATTTTAAGGGCATTTTAGTAATTTCACA
* *
10657031 CCTTTCA-ATGTGCAATCAAGGTTTTCAATGCACCAAAAATCATCAAATATTATGAAAACATGAT
66 CCTTTCAGATGTGCAATCAAGATTTTCAATGCACCAAAAATCATCAAATAATAT-AAAACATGAT
10657095 TTGAAATATTTCGTA
130 TTGAAATATTTCGTA
* ** * *
10657110 AAAAATCAACCTCGAGAAAGTCAAATTATAAAAATACCTTTTGAGGGTATTTTAGTAATTTCACA
1 AAAAATCAACCTCGAAAAAGTCAAATTATAAAAATAAATTTTAAGGGCATTTTAGTAATTTCACA
** * ** * * * *
10657175 TTTTTTAGATGTGTGATCAAGATTTTTAATGGACCAAAAATTATGAAATAATATAAAAC
66 CCTTTCAGATGTGCAATCAAGATTTTCAATGCACCAAAAATCATCAAATAATATAAAAC
10657234 CATAATCTGG
Statistics
Matches: 103, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
144 65 0.63
145 38 0.37
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (144 bp):
AAAAATCAACCTCGAAAAAGTCAAATTATAAAAATAAATTTTAAGGGCATTTTAGTAATTTCACA
CCTTTCAGATGTGCAATCAAGATTTTCAATGCACCAAAAATCATCAAATAATATAAAACATGATT
TGAAATATTTCGTA
Found at i:10658185 original size:41 final size:41
Alignment explanation
Indices: 10658064--10658930 Score: 511
Period size: 41 Copynumber: 21.1 Consensus size: 41
10658054 AGGATTCTAT
* * ** * *
10658064 ATTCACAACAAAGAAAACAATTCATAGTTTGAA-ACTTTGG
1 ATTCACAACAGAGTAAATGATTCACAGTTGGAAGACTTTGG
* ** * * *
10658104 ATTCACAACAGAGAAAACAATTCACAATT-AAAGAATTTTGG
1 ATTCACAACAGAGTAAATGATTCACAGTTGGAAG-ACTTTGG
* * * *
10658145 GTTCACAATAAAGTAAATAATTCACAGTTGGAAGACTTTGG
1 ATTCACAACAGAGTAAATGATTCACAGTTGGAAGACTTTGG
* * *
10658186 ATTCACAGCAGAGTAAATGAATT-ATAGTTGAAAGACTCTT-G
1 ATTCACAACAGAGTAAATG-ATTCACAGTTGGAAGACT-TTGG
** * * * *
10658227 ATTCACAGTAGAGTAAATAATTCACAGTT-TATAGGACTCTAG
1 ATTCACAACAGAGTAAATGATTCACAGTTGGA-A-GACTTTGG
* * * * *
10658269 ATTTATAACAGAGTAAACGATTCA-AGTTGAAAGACTCTAGG
1 ATTCACAACAGAGTAAATGATTCACAGTTGGAAGACT-TTGG
* * ** *
10658310 -TTCACAACAGAGTAAACGATTCATAGTTAAAAAACTTTGG
1 ATTCACAACAGAGTAAATGATTCACAGTTGGAAGACTTTGG
* *
10658350 ATTCACAACAGAGT-AACGAATTCACAGTT-GCAGAACTTTGG
1 ATTCACAACAGAGTAAATG-ATTCACAGTTGGAAG-ACTTTGG
* * * * * *
10658391 GTTCATAACAAAGTAAATGATTCATAGTTGGAAGACTCTAG
1 ATTCACAACAGAGTAAATGATTCACAGTTGGAAGACTTTGG
** * * *
10658432 ATTCACAGTAGAGTAAATGATTTACAGTTGAAAGACTCTT-T
1 ATTCACAACAGAGTAAATGATTCACAGTTGGAAGACT-TTGG
* ** * * * * ** *
10658473 ATTCTCGGCAAAATAAATAATTCATAGTTTAAAGGACTTTAG
1 ATTCACAACAGAGTAAATGATTCACAGTTGGAA-GACTTTGG
* *
10658515 ATTCACAACAGAGTAAATGATTTA-AGTTGGAAGACTCTAGG
1 ATTCACAACAGAGTAAATGATTCACAGTTGGAAGACT-TTGG
* *
10658556 -TTCACAATAGAGTAAATGATTCACAGTTGAAAGACTTTGG
1 ATTCACAACAGAGTAAATGATTCACAGTTGGAAGACTTTGG
* ** ** * * *
10658596 GTTTGCAACAGAGTAAACAATCCATAGTTGGAAGACTTTAG
1 ATTCACAACAGAGTAAATGATTCACAGTTGGAAGACTTTGG
* * * * * * * *
10658637 ATTAACAGCAGATTAAACGATTCATAATTTGGAAGACTCTAG
1 ATTCACAACAGAGTAAATGATTCA-CAGTTGGAAGACTTTGG
* * *
10658679 ATTCACAACAGATTAAATGATTCATAGTTGAAAGA-TTCTGG
1 ATTCACAACAGAGTAAATGATTCACAGTTGGAAGACTT-TGG
** * * * * * *
10658720 ATTCACAGTAGAGTAAACGATTCATAGTTTAGAGGACTCTGT
1 ATTCACAACAGAGTAAATGATTCACAG-TTGGAAGACTTTGG
** * ***
10658762 ATTCACAACAGAGTAAACAATTCACAGTTAGAAGAC-TCAA
1 ATTCACAACAGAGTAAATGATTCACAGTTGGAAGACTTTGG
* * * * *
10658802 AGTTCATAATAGAGTAAATGATTCATAGTTAGAAGACTTTAG
1 A-TTCACAACAGAGTAAATGATTCACAGTTGGAAGACTTTGG
* * ** * *
10658844 ATTCACAATAGTGTAAACAATTCACAATTTGAAGACTTTGG
1 ATTCACAACAGAGTAAATGATTCACAGTTGGAAGACTTTGG
* * * *
10658885 ATTAACAACAAAGTAAATGATTAACAGTTTGAAGACTTTGG
1 ATTCACAACAGAGTAAATGATTCACAGTTGGAAGACTTTGG
10658926 ATTCA
1 ATTCA
10658931 ATGATTCATT
Statistics
Matches: 642, Mismatches: 156, Indels: 57
0.75 0.18 0.07
Matches are distributed among these distances:
39 2 0.00
40 93 0.14
41 418 0.65
42 128 0.20
43 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.29
Consensus pattern (41 bp):
ATTCACAACAGAGTAAATGATTCACAGTTGGAAGACTTTGG
Found at i:10658297 original size:123 final size:123
Alignment explanation
Indices: 10658064--10658930 Score: 650
Period size: 123 Copynumber: 7.0 Consensus size: 123
10658054 AGGATTCTAT
* * ** *
10658064 ATTCACAACAAAGAAAACAATTCATAGTTTG-AA-ACTTTGGATTCACAACAGAGAAAACAATTC
1 ATTCACAACAGAGTAAATGATTCATAG-TTGAAAGACTTTGGATTCACAACAGAGTAAACAATTC
* * * * * * * * **
10658127 ACAATTAAAGAATTTTGGGTTCACAATAAAGTAAATAATTCACAGTTGGAAGACTTTGG
65 ACAGTTTAAGGACTTTAGATTCACAACAGAGTAAACGATTCACAGTTGGAAGACTTTGG
* ** *
10658186 ATTCACAGCAGAGTAAATGAATT-ATAGTTGAAAGACTCTT-GATTCACAGTAGAGTAAATAATT
1 ATTCACAACAGAGTAAATG-ATTCATAGTTGAAAGACT-TTGGATTCACAACAGAGTAAACAATT
* * * * *
10658249 CACAGTTTATAGGACTCTAGATTTATAACAGAGTAAACGATTCA-AGTTGAAAGACTCTAGG
64 CACAGTTTA-AGGACTTTAGATTCACAACAGAGTAAACGATTCACAGTTGGAAGACT-TTGG
* * *
10658310 -TTCACAACAGAGTAAACGATTCATAGTTAAAAAACTTTGGATTCACAACAGAGT-AACGAATTC
1 ATTCACAACAGAGTAAATGATTCATAGTTGAAAGACTTTGGATTCACAACAGAGTAAAC-AATTC
** * * * * * * * * *
10658373 ACAGTTGCAGAACTTTGGGTTCATAACAAAGTAAATGATTCATAGTTGGAAGACTCTAG
65 ACAGTTTAAGGACTTTAGATTCACAACAGAGTAAACGATTCACAGTTGGAAGACTTTGG
** * * * * ** * * *
10658432 ATTCACAGTAGAGTAAATGATTTACAGTTGAAAGACTCTT-TATTCTCGGCAAAATAAATAATTC
1 ATTCACAACAGAGTAAATGATTCATAGTTGAAAGACT-TTGGATTCACAACAGAGTAAACAATTC
* * * *
10658496 ATAGTTTAAAGGACTTTAGATTCACAACAGAGTAAATGATTTA-AGTTGGAAGACTCTAGG
65 ACAGTTT-AAGGACTTTAGATTCACAACAGAGTAAACGATTCACAGTTGGAAGACT-TTGG
* * * ** *
10658556 -TTCACAATAGAGTAAATGATTCACAGTTGAAAGACTTTGGGTTTGCAACAGAGTAAACAATCCA
1 ATTCACAACAGAGTAAATGATTCATAGTTGAAAGACTTTGGATTCACAACAGAGTAAACAATTCA
* * * * * * * * *
10658620 TAGTTGGAA-GACTTTAGATTAACAGCAGATTAAACGATTCATAATTTGGAAGACTCTAG
66 CAGTT-TAAGGACTTTAGATTCACAACAGAGTAAACGATTCA-CAGTTGGAAGACTTTGG
* ** *
10658679 ATTCACAACAGATTAAATGATTCATAGTTGAAAGA-TTCTGGATTCACAGTAGAGTAAACGATTC
1 ATTCACAACAGAGTAAATGATTCATAGTTGAAAGACTT-TGGATTCACAACAGAGTAAACAATTC
* * * * ***
10658743 ATAGTTTAGAGGACTCT-GTATTCACAACAGAGTAAACAATTCACAGTTAGAAGAC-TCAA
65 ACAGTTTA-AGGACTTTAG-ATTCACAACAGAGTAAACGATTCACAGTTGGAAGACTTTGG
* * * * *
10658802 AGTTCATAATAGAGTAAATGATTCATAGTT-AGAAGACTTTAGATTCACAATAGTGTAAACAATT
1 A-TTCACAACAGAGTAAATGATTCATAGTTGA-AAGACTTTGGATTCACAACAGAGTAAACAATT
* * * * * * *
10658866 CACAATTTGAA-GACTTTGGATTAACAACAAAGTAAATGATTAACAGTTTGAAGACTTTGG
64 CACAGTTT-AAGGACTTTAGATTCACAACAGAGTAAACGATTCACAGTTGGAAGACTTTGG
10658926 ATTCA
1 ATTCA
10658931 ATGATTCATT
Statistics
Matches: 582, Mismatches: 133, Indels: 59
0.75 0.17 0.08
Matches are distributed among these distances:
121 3 0.01
122 84 0.14
123 268 0.46
124 199 0.34
125 28 0.05
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.29
Consensus pattern (123 bp):
ATTCACAACAGAGTAAATGATTCATAGTTGAAAGACTTTGGATTCACAACAGAGTAAACAATTCA
CAGTTTAAGGACTTTAGATTCACAACAGAGTAAACGATTCACAGTTGGAAGACTTTGG
Found at i:10658354 original size:164 final size:165
Alignment explanation
Indices: 10658103--10658918 Score: 593
Period size: 164 Copynumber: 5.0 Consensus size: 165
10658093 TGAAACTTTG
* * * * * * * * **
10658103 GATTCACAACAGAGAAAACAATTCACAATT-AAAGAATTTTGGGTTCACAATAAAGTAAATAATT
1 GATTCACAACAGAGTAAACAATTCACAGTTGAAAG-ACTCTAGATTCACAACAGAGTAAACGATT
* ** * *
10658167 CACAGTTGGAAGACTTTGGATTCACAGCAGAGTAAATGAATT-ATAGTTGAAAGACTCTTGATTC
65 CATAGTTAAAAGACTTTAGATTCACAACAGAGTAAATGAATTCATAGTTGAAAGACTCTTGATTC
* * *
10658231 ACAGTAGAGTAAATAATTCACAGTTTATAGGACTCTA
130 ACAATAGAGTAAATGATTCACAGTTGA-AGGACTCTA
* * * *
10658268 GATTTATAACAGAGTAAACGATTCA-AGTTGAAAGACTCTAGGTTCACAACAGAGTAAACGATTC
1 GATTCACAACAGAGTAAACAATTCACAGTTGAAAGACTCTAGATTCACAACAGAGTAAACGATTC
* * * * * *
10658332 ATAGTTAAAAAACTTTGGATTCACAACAGAGT-AACGAATTCACAGTTG-CAGAACT-TTGGGTT
66 ATAGTTAAAAGACTTTAGATTCACAACAGAGTAAATGAATTCATAGTTGAAAG-ACTCTT-GATT
* * * *
10658394 CATAACAAAGTAAATGATTCATAGTTGGAA-GACTCTA
129 CACAATAGAGTAAATGATTCACAGTT-GAAGGACTCTA
** ** * ** * ** * * **
10658431 GATTCACAGTAGAGTAAATGATTTACAGTTGAAAGACTCTTTATTCTCGGCAAAATAAATAATTC
1 GATTCACAACAGAGTAAACAATTCACAGTTGAAAGACTCTAGATTCACAACAGAGTAAACGATTC
* * * * *
10658496 ATAGTTTAAAGGACTTTAGATTCACAACAGAGTAAATG-ATTTA-AGTTGGAAGACTCTAGGTTC
66 ATAG-TTAAAAGACTTTAGATTCACAACAGAGTAAATGAATTCATAGTTGAAAGACTCTTGATTC
* * *
10658559 ACAATAGAGTAAATGATTCACAGTTGAAAGACTTTG
130 ACAATAGAGTAAATGATTCACAGTTGAAGGACTCTA
* ** * * * * * * *
10658595 GGTTTGCAACAGAGTAAACAATCCATAGTTGGAAGACTTTAGATTAACAGCAGATTAAACGATTC
1 GATTCACAACAGAGTAAACAATTCACAGTTGAAAGACTCTAGATTCACAACAGAGTAAACGATTC
* ** * * * *
10658660 ATAATTTGGAAGACTCTAGATTCACAACAGATTAAATG-ATTCATAGTTGAAAGATTCTGGATTC
66 AT-AGTTAAAAGACTTTAGATTCACAACAGAGTAAATGAATTCATAGTTGAAAGACTCTTGATTC
* * * *
10658724 ACAGTAGAGTAAACGATTCATAGTTTAGAGGACTCT-
130 ACAATAGAGTAAATGATTCACAGTTGA-AGGACTCTA
* * * *
10658760 GTATTCACAACAGAGTAAACAATTCACAGTT-AGAAGACTC-AAAGTTCATAATAGAGTAAATGA
1 G-ATTCACAACAGAGTAAACAATTCACAGTTGA-AAGACTCTAGA-TTCACAACAGAGTAAACGA
* * * * * *
10658823 TTCATAGTTAGAAGACTTTAGATTCACAATAGTGTAAA-CAATTCACAATTTG-AAGACT-TTGG
63 TTCATAGTTAAAAGACTTTAGATTCACAACAGAGTAAATGAATTCA-TAGTTGAAAGACTCTT-G
* * * *
10658885 ATTAACAACAAAGTAAATGATTAACAGTTTGAAG
126 ATTCACAATAGAGTAAATGATTCACAG-TTGAAG
10658919 ACTTTGGATT
Statistics
Matches: 502, Mismatches: 128, Indels: 42
0.75 0.19 0.06
Matches are distributed among these distances:
163 40 0.08
164 237 0.47
165 161 0.32
166 64 0.13
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (165 bp):
GATTCACAACAGAGTAAACAATTCACAGTTGAAAGACTCTAGATTCACAACAGAGTAAACGATTC
ATAGTTAAAAGACTTTAGATTCACAACAGAGTAAATGAATTCATAGTTGAAAGACTCTTGATTCA
CAATAGAGTAAATGATTCACAGTTGAAGGACTCTA
Found at i:10658374 original size:246 final size:246
Alignment explanation
Indices: 10658013--10658930 Score: 925
Period size: 246 Copynumber: 3.7 Consensus size: 246
10658003 TTACGATGAG
* * ** * * * ** *
10658013 AAGG-CTCTAGATTTACAATAGAACAAACGATTCATAGTTGAAGGATTCTATATTCACAACAAAG
1 AAGGACTCTAGATTCACAACAGAGTAAACGATTCACAGTTGAAAGACTCTAGGTTCACAACAGAG
* * ** * * *
10658077 AAAACAATTCATAGTT-TGAAACTTTGGATTCACAACAGAGAAAACAATTCACAATTAAAGAATT
66 TAAACGATTCATAGTTAAAAAACTTTGGATTCACAACAGAGTAAACAATTCACAATTGAAG-ACT
* * * * * *
10658141 TTGGGTTCACAATAAAGTAAATAATTCACAGTTGGAAGACTTTGGATTCACAGCAGAGTAAATGA
130 TTGGATTAACAACAAAGTAAATGATTCACAGTTGGAAGACTCTAGATTCACAGCAGAGTAAATGA
*
10658206 ATTATAGTTGAAAGACTCTTGATTCACAGTAGAGTAAATAATTCACAGTTTA
195 ATTATAGTTGAAAGACTCTTGATTCACAGTAGAGTAAATAATTCATAGTTTA
* * *
10658258 TAGGACTCTAGATTTATAACAGAGTAAACGATTCA-AGTTGAAAGACTCTAGGTTCACAACAGAG
1 AAGGACTCTAGATTCACAACAGAGTAAACGATTCACAGTTGAAAGACTCTAGGTTCACAACAGAG
* *
10658322 TAAACGATTCATAGTTAAAAAACTTTGGATTCACAACAGAGT-AACGAATTCACAGTTGCAGAAC
66 TAAACGATTCATAGTTAAAAAACTTTGGATTCACAACAGAGTAAAC-AATTCACAATTGAAG-AC
* * * * *
10658386 TTTGGGTTCATAACAAAGTAAATGATTCATAGTTGGAAGACTCTAGATTCACAGTAGAGTAAATG
129 TTTGGATTAACAACAAAGTAAATGATTCACAGTTGGAAGACTCTAGATTCACAGCAGAGTAAATG
* * * * * * * *
10658451 ATTTACAGTTGAAAGACTCTTTATTCTCGGCAAAATAAATAATTCATAGTTTA
194 AATTATAGTTGAAAGACTCTTGATTCACAGTAGAGTAAATAATTCATAGTTTA
* * * * *
10658504 AAGGACTTTAGATTCACAACAGAGTAAATGATTTA-AGTTGGAAGACTCTAGGTTCACAATAGAG
1 AAGGACTCTAGATTCACAACAGAGTAAACGATTCACAGTTGAAAGACTCTAGGTTCACAACAGAG
* * * * * ** * * *
10658568 TAAATGATTCACAGTTGAAAGACTTTGGGTTTGCAACAGAGTAAACAATCCATAGTTGGAAGACT
66 TAAACGATTCATAGTTAAAAAACTTTGGATTCACAACAGAGTAAACAATTCACAATT-GAAGACT
* * * * * * * * *
10658633 TTAGATTAACAGCAGATTAAACGATTCATAATTTGGAAGACTCTAGATTCACAACAGATTAAATG
130 TTGGATTAACAACAAAGTAAATGATTCA-CAGTTGGAAGACTCTAGATTCACAGCAGAGTAAATG
* * **
10658698 -ATTCATAGTTGAAAGATTCTGGATTCACAGTAGAGTAAACGATTCATAGTTTA
194 AATT-ATAGTTGAAAGACTCTTGATTCACAGTAGAGTAAATAATTCATAGTTTA
* * * * * *
10658751 GAGGACTCT-GTATTCACAACAGAGTAAACAATTCACAGTT-AGAAGACTCAAAGTTCATAATAG
1 AAGGACTCTAG-ATTCACAACAGAGTAAACGATTCACAGTTGA-AAGACTCTAGGTTCACAACAG
* * * * * *
10658814 AGTAAATGATTCATAGTTAGAAGACTTTAGATTCACAATAGTGTAAACAATTCACAATTTGAAGA
64 AGTAAACGATTCATAGTTAAAAAACTTTGGATTCACAACAGAGTAAACAATTCACAA-TTGAAGA
* * * *
10658879 CTTTGGATTAACAACAAAGTAAATGATTAACAGTTTGAAGACTTTGGATTCA
128 CTTTGGATTAACAACAAAGTAAATGATTCACAGTTGGAAGACTCTAGATTCA
10658931 ATGATTCATT
Statistics
Matches: 552, Mismatches: 110, Indels: 20
0.81 0.16 0.03
Matches are distributed among these distances:
245 44 0.08
246 290 0.53
247 120 0.22
248 96 0.17
249 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (246 bp):
AAGGACTCTAGATTCACAACAGAGTAAACGATTCACAGTTGAAAGACTCTAGGTTCACAACAGAG
TAAACGATTCATAGTTAAAAAACTTTGGATTCACAACAGAGTAAACAATTCACAATTGAAGACTT
TGGATTAACAACAAAGTAAATGATTCACAGTTGGAAGACTCTAGATTCACAGCAGAGTAAATGAA
TTATAGTTGAAAGACTCTTGATTCACAGTAGAGTAAATAATTCATAGTTTA
Found at i:10659183 original size:17 final size:18
Alignment explanation
Indices: 10659163--10659208 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
10659153 GTAAAAACCC
10659163 AAGATTCACAAAAT-CTA
1 AAGATTCACAAAATACTA
**
10659180 AAGATTC-TTAAATACTA
1 AAGATTCACAAAATACTA
*
10659197 AAGATCCACAAA
1 AAGATTCACAAA
10659209 CTTCAAATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
16 4 0.18
17 16 0.73
18 2 0.09
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (18 bp):
AAGATTCACAAAATACTA
Found at i:10659289 original size:17 final size:17
Alignment explanation
Indices: 10659267--10659326 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
10659257 AGAAGGGATT
*
10659267 AAAGATTCACAAATCTC
1 AAAGATTCAAAAATCTC
* **
10659284 AAAGATTTAAAAAAGTC
1 AAAGATTCAAAAATCTC
* *
10659301 AAAGATTTAAAAATTTC
1 AAAGATTCAAAAATCTC
10659318 AAAGATTCA
1 AAAGATTCA
10659327 TAAGATGAGC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.27
Consensus pattern (17 bp):
AAAGATTCAAAAATCTC
Found at i:10659341 original size:71 final size:68
Alignment explanation
Indices: 10659266--10659502 Score: 208
Period size: 71 Copynumber: 3.4 Consensus size: 68
10659256 TAGAAGGGAT
* *
10659266 TAAAGATTCACAAATCTCAAAGATTTAAAAAAGTCAAAGATTTAAAAATTTCAAAGATTCATAAG
1 TAAAGATTCACAAATTTCAAAGATTTAAAAAAGTCAAAGATTTAAAAATTTCCAAG-TT-ATAAG
10659331 ATGAGC
64 A-GAGC
* * *** * * * *
10659337 TAAAGAGTCATAAATTTCAAAGATTCGTAAGAGTCTAACATTTAAAAATTTCCAAGTTTTGCAAG
1 TAAAGATTCACAAATTTCAAAGATTTAAAAAAGTCAAAGATTTAAAAATTTCCAAGTTAT--AAG
*
10659402 A-AGGG
64 AGA-GC
* * * * * *
10659407 TGAACGATTCACAAATTTTAAAAATTTACAAAAGTCCAAGATTTAAAAATTTCCAAGTTTTGAAG
1 T-AAAGATTCACAAATTTCAAAGATTTAAAAAAGTCAAAGATTTAAAAATTTCCAAGTTAT-AAG
*
10659472 A-ATGT
64 AGA-GC
10659477 TAAAGATTCACAAATTTCAAAGATTT
1 TAAAGATTCACAAATTTCAAAGATTT
10659503 GCAAACATAA
Statistics
Matches: 133, Mismatches: 29, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
69 24 0.18
70 11 0.08
71 98 0.74
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (68 bp):
TAAAGATTCACAAATTTCAAAGATTTAAAAAAGTCAAAGATTTAAAAATTTCCAAGTTATAAGAG
AGC
Found at i:10661047 original size:17 final size:19
Alignment explanation
Indices: 10661012--10661062 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
10661002 TCATTTATTT
10661012 TTTCTT-TTCTTTCTTTTCC-
1 TTTCTTCTT-TTT-TTTTCCA
*
10661031 TTTGTT-TTTTTTTTTCCA
1 TTTCTTCTTTTTTTTTCCA
10661049 TTTCTTCTTTTTTT
1 TTTCTTCTTTTTTT
10661063 CTTTTTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 6 0.21
18 8 0.29
19 14 0.50
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTCTTCTTTTTTTTTCCA
Found at i:10661061 original size:18 final size:17
Alignment explanation
Indices: 10661018--10661082 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 17
10661008 ATTTTTTCTT
* *
10661018 TTCTTTCTTTTCCTTTG
1 TTCTTTTTTTTCCTTTC
*
10661035 TTTTTTTTTTTCCATTTC
1 TTCTTTTTTTTCC-TTTC
10661053 TTC-TTTTTTT-CTTT-
1 TTCTTTTTTTTCCTTTC
*
10661067 TTCTTTCATTTTCCTT
1 TTCTTT-TTTTTCCTT
10661083 ATTTTCTCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
14 3 0.08
15 5 0.13
16 5 0.13
17 21 0.54
18 5 0.13
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (17 bp):
TTCTTTTTTTTCCTTTC
Found at i:10661069 original size:17 final size:16
Alignment explanation
Indices: 10661009--10661072 Score: 60
Period size: 17 Copynumber: 4.0 Consensus size: 16
10660999 CATTCATTTA
10661009 TTTTTTC-TTTTCTTT
1 TTTTTTCTTTTTCTTT
* *
10661024 CTTTTCCTTTGTT-TTT
1 TTTTTTCTTT-TTCTTT
**
10661040 TTTTTTCCATTTCTTCT
1 TTTTTTCTTTTTCTT-T
10661057 TTTTTTCTTTTTCTTT
1 TTTTTTCTTTTTCTTT
10661073 CATTTTCCTT
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
15 7 0.19
16 14 0.38
17 16 0.43
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTTTCTTTTTCTTT
Found at i:10661087 original size:26 final size:25
Alignment explanation
Indices: 10661009--10661089 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 25
10660999 CATTCATTTA
10661009 TTTTTTC-TTTTCTTTC-TTTTCCT
1 TTTTTTCTTTTTCTTTCATTTTCCT
* *
10661032 TTGTTTT-TTTTT-TTCCATTTCTTCT
1 TT-TTTTCTTTTTCTTTCATTT-TCCT
10661057 TTTTTTCTTTTTCTTTCATTTTCCT
1 TTTTTTCTTTTTCTTTCATTTTCCT
*
10661082 TATTTTCT
1 TTTTTTCT
10661090 CATTATTTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
23 5 0.11
24 15 0.32
25 20 0.43
26 7 0.15
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.77
Consensus pattern (25 bp):
TTTTTTCTTTTTCTTTCATTTTCCT
Found at i:10661605 original size:5 final size:5
Alignment explanation
Indices: 10661590--10661656 Score: 59
Period size: 5 Copynumber: 13.8 Consensus size: 5
10661580 ATAAAAAAAA
* * * * *
10661590 TTTTC TCTTC TTTTC TTTTC TTTTC CTTTC ATTTC ATTTC ATTT- TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
10661639 -TTT- TTTTC TTCTTC TTTT
1 TTTTC TTTTC TT-TTC TTTT
10661657 TCCTTCACAT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
4 9 0.17
5 39 0.74
6 5 0.09
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTC
Found at i:10663726 original size:20 final size:19
Alignment explanation
Indices: 10663701--10663738 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
10663691 TATGATGATG
10663701 ATGCAAGAGAATGTC-AAGAA
1 ATGCAA-AG-ATGTCTAAGAA
10663721 ATGCAAAGATGTCTAAGA
1 ATGCAAAGATGTCTAAGA
10663739 CAATAGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 6 0.35
20 6 0.35
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.18
Consensus pattern (19 bp):
ATGCAAAGATGTCTAAGAA
Found at i:10664136 original size:38 final size:39
Alignment explanation
Indices: 10664094--10664248 Score: 124
Period size: 38 Copynumber: 4.3 Consensus size: 39
10664084 GGAATGTACG
10664094 TATTAAGATGTGTGCA-AAATGGAATGCATGTATTATCT
1 TATTAAGATGTGTGCAGAAATGGAATGCATGTATTATCT
* * *
10664132 TATTAA-A-ATATGCATGAAATGG-A---ATG---TA-CG
1 TATTAAGATGTGTGCA-GAAATGGAATGCATGTATTATCT
10664162 TATTAAGATGTGTGC-GAAATGGAATGCATGTATTATCT
1 TATTAAGATGTGTGCAGAAATGGAATGCATGTATTATCT
* * * *
10664200 TATTAA-A-ATATGCATGAAATGGAATACATGTACTATC-
1 TATTAAGATGTGTGCA-GAAATGGAATGCATGTATTATCT
10664237 TATTAAGATGTG
1 TATTAAGATGTG
10664249 AATGTGATAG
Statistics
Matches: 89, Mismatches: 12, Indels: 31
0.67 0.09 0.23
Matches are distributed among these distances:
30 14 0.16
31 4 0.04
32 4 0.04
34 6 0.07
36 9 0.10
37 11 0.12
38 40 0.45
39 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (39 bp):
TATTAAGATGTGTGCAGAAATGGAATGCATGTATTATCT
Found at i:10664185 original size:68 final size:68
Alignment explanation
Indices: 10664076--10664224 Score: 289
Period size: 68 Copynumber: 2.2 Consensus size: 68
10664066 GTAAGATTTA
10664076 CATGAAATGGAATGTACGTATTAAGATGTGTGCAAAATGGAATGCATGTATTATCTTATTAAAAT
1 CATGAAATGGAATGTACGTATTAAGATGTGTGCAAAATGGAATGCATGTATTATCTTATTAAAAT
10664141 ATG
66 ATG
*
10664144 CATGAAATGGAATGTACGTATTAAGATGTGTGCGAAATGGAATGCATGTATTATCTTATTAAAAT
1 CATGAAATGGAATGTACGTATTAAGATGTGTGCAAAATGGAATGCATGTATTATCTTATTAAAAT
10664209 ATG
66 ATG
10664212 CATGAAATGGAAT
1 CATGAAATGGAAT
10664225 ACATGTACTA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 80 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.33
Consensus pattern (68 bp):
CATGAAATGGAATGTACGTATTAAGATGTGTGCAAAATGGAATGCATGTATTATCTTATTAAAAT
ATG
Found at i:10664315 original size:39 final size:39
Alignment explanation
Indices: 10664177--10664319 Score: 157
Period size: 39 Copynumber: 3.7 Consensus size: 39
10664167 AGATGTGTGC
*
10664177 GAAATGGAATGCATGTA-TTATCTTATTAAAATATGCAT
1 GAAATGGAATGCATGTACTTATCTTATTAAAATGTGCAT
* * *
10664215 GAAATGGAATACATGTAC-TATC-TATTAAGATGTGAAT
1 GAAATGGAATGCATGTACTTATCTTATTAAAATGTGCAT
** * * * *
10664252 GTGATAGAGTGCATATACTTATCTTGTTAAAATGTGCAT
1 GAAATGGAATGCATGTACTTATCTTATTAAAATGTGCAT
* *
10664291 GAAATGGAATGTATGTACTAATCTTATTA
1 GAAATGGAATGCATGTACTTATCTTATTA
10664320 TTTCCAATTC
Statistics
Matches: 81, Mismatches: 21, Indels: 5
0.76 0.20 0.05
Matches are distributed among these distances:
37 24 0.30
38 24 0.30
39 33 0.41
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.36
Consensus pattern (39 bp):
GAAATGGAATGCATGTACTTATCTTATTAAAATGTGCAT
Found at i:10664563 original size:13 final size:13
Alignment explanation
Indices: 10664545--10664569 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10664535 AAAAAAACTC
10664545 TCTTATTCTTTCT
1 TCTTATTCTTTCT
10664558 TCTTATTCTTTC
1 TCTTATTCTTTC
10664570 CCTTTTTTTT
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:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (13 bp):
TCTTATTCTTTCT
Found at i:10667899 original size:14 final size:14
Alignment explanation
Indices: 10667882--10667912 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10667872 GTTAGATTAA
10667882 TAACATTAGCATAC
1 TAACATTAGCATAC
*
10667896 TAACATTAGCATCC
1 TAACATTAGCATAC
10667910 TAA
1 TAA
10667913 TTATGGCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.29
Consensus pattern (14 bp):
TAACATTAGCATAC
Found at i:10670681 original size:9 final size:9
Alignment explanation
Indices: 10670669--10670703 Score: 61
Period size: 9 Copynumber: 3.8 Consensus size: 9
10670659 AAAATGTGAA
10670669 AAAAAAATT
1 AAAAAAATT
10670678 AAAAAAAATT
1 -AAAAAAATT
10670688 AAAAAAATT
1 AAAAAAATT
10670697 AAAAAAA
1 AAAAAAA
10670704 ATGAGAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (9 bp):
AAAAAAATT
Found at i:10670681 original size:10 final size:10
Alignment explanation
Indices: 10670668--10670705 Score: 69
Period size: 10 Copynumber: 3.9 Consensus size: 10
10670658 GAAAATGTGA
10670668 AAAAAAAATT
1 AAAAAAAATT
10670678 AAAAAAAATT
1 AAAAAAAATT
10670688 -AAAAAAATT
1 AAAAAAAATT
10670697 AAAAAAAAT
1 AAAAAAAAT
10670706 GAGAAATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.33
10 18 0.67
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAAAAAATT
Found at i:10670691 original size:19 final size:19
Alignment explanation
Indices: 10670669--10670705 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
10670659 AAAATGTGAA
10670669 AAAAAAATTAAAAAAAATT
1 AAAAAAATTAAAAAAAATT
10670688 AAAAAAATTAAAAAAAAT
1 AAAAAAATTAAAAAAAAT
10670706 GAGAAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAAAAATTAAAAAAAATT
Found at i:10670739 original size:18 final size:18
Alignment explanation
Indices: 10670698--10670739 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10670688 AAAAAAATTA
*
10670698 AAAAAAATGAGAAATGTG
1 AAAAAAATGAGAAATGAG
*
10670716 AAAAAAATGTGAAATGAG
1 AAAAAAATGAGAAATGAG
10670734 AGAAAA
1 A-AAAA
10670740 TGAAGACTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.14
Consensus pattern (18 bp):
AAAAAAATGAGAAATGAG
Found at i:10671898 original size:16 final size:17
Alignment explanation
Indices: 10671870--10671901 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10671860 TAATCCTCAA
10671870 ATGAGGAAAAATATTTT
1 ATGAGGAAAAATATTTT
10671887 ATGAGG-AAAATATTT
1 ATGAGGAAAAATATTT
10671902 AGAATTCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (17 bp):
ATGAGGAAAAATATTTT
Found at i:10672020 original size:45 final size:45
Alignment explanation
Indices: 10671968--10672097 Score: 156
Period size: 45 Copynumber: 2.8 Consensus size: 45
10671958 AGAATATTTG
10671968 AATTTTAAATGAGAATCTTTAAGTTTTAAATGAGAATCCTTAA-A
1 AATTTTAAATGAGAATCTTTAAGTTTTAAATGAGAATCCTTAAGA
* * * *
10672012 ACGTTTTAAATGAGAATCTTTGAGTTTTAAATGA-AAGGCTTTAAGA
1 A-ATTTTAAATGAGAATCTTTAAGTTTTAAATGAGAA-TCCTTAAGA
*
10672058 AATTTTAAATGTGAATCTTTAAAAAGTTTTAAATGAGAAT
1 AATTTTAAATGAGAATCTTT---AAGTTTTAAATGAGAAT
10672098 ATTTGAATAA
Statistics
Matches: 71, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
44 3 0.04
45 52 0.73
46 2 0.03
48 12 0.17
49 2 0.03
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (45 bp):
AATTTTAAATGAGAATCTTTAAGTTTTAAATGAGAATCCTTAAGA
Found at i:10672022 original size:24 final size:23
Alignment explanation
Indices: 10671970--10672097 Score: 113
Period size: 24 Copynumber: 5.6 Consensus size: 23
10671960 AATATTTGAA
*
10671970 TTTTAAATGAGAAT-CTT-TAAG
1 TTTTAAATGAGAATCCTTAAAAG
10671991 TTTTAAATGAGAATCCTTAAAACG
1 TTTTAAATGAGAATCCTTAAAA-G
**
10672015 TTTTAAATGAGAAT-CTT-TGAG
1 TTTTAAATGAGAATCCTTAAAAG
* * *
10672036 TTTTAAATGA-AAGGCTTTAAGAAA
1 TTTTAAATGAGAA-TCCTTAA-AAG
* *
10672060 TTTTAAATGTGAATCTTTAAAAAG
1 TTTTAAATGAGAATCCTT-AAAAG
10672084 TTTTAAATGAGAAT
1 TTTTAAATGAGAAT
10672098 ATTTGAATAA
Statistics
Matches: 86, Mismatches: 12, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
20 2 0.02
21 25 0.29
22 6 0.07
23 5 0.06
24 44 0.51
25 4 0.05
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (23 bp):
TTTTAAATGAGAATCCTTAAAAG
Found at i:10672080 original size:69 final size:66
Alignment explanation
Indices: 10671958--10672105 Score: 199
Period size: 69 Copynumber: 2.2 Consensus size: 66
10671948 AAAAATGATA
* *
10671958 AGAATATTTGAATTTTAAATGAGAATCTTTAAGTTTTAAATGAGAATCCTTAAAACGTTTTAAAT
1 AGAATATTTGAATTTTAAATGAGAAGCTTTAAGTTTTAAATGAGAATCCTTAAAAAGTTTTAAAT
10672023 G
66 G
* * * *
10672024 AGAATCTTTGAGTTTTAAATGA-AAGGCTTTAAGAAATTTTAAATGTGAATCTTTAAAAAGTTTT
1 AGAATATTTGAATTTTAAATGAGAA-GCTTTAAG---TTTTAAATGAGAATCCTTAAAAAGTTTT
10672088 AAATG
62 AAATG
10672093 AGAATATTTGAAT
1 AGAATATTTGAAT
10672106 AAGAATCTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
65 2 0.03
66 27 0.39
69 41 0.59
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (66 bp):
AGAATATTTGAATTTTAAATGAGAAGCTTTAAGTTTTAAATGAGAATCCTTAAAAAGTTTTAAAT
G
Found at i:10672257 original size:21 final size:21
Alignment explanation
Indices: 10672228--10672291 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 21
10672218 GAATGAGAAG
10672228 CTTTGAAATTTTGGATGTGAAC
1 CTTT-AAATTTTGGATGTGAAC
* **
10672250 CTTTAAATTTTTTGAATGAAAAC
1 CTTTAAA--TTTTGGATGTGAAC
*
10672273 CTTTAAA-TTTAGATGTGAA
1 CTTTAAATTTTGGATGTGAA
10672292 ACTCTAAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
20 8 0.24
21 3 0.09
22 4 0.12
23 18 0.55
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (21 bp):
CTTTAAATTTTGGATGTGAAC
Found at i:10672302 original size:44 final size:45
Alignment explanation
Indices: 10672208--10672311 Score: 113
Period size: 45 Copynumber: 2.3 Consensus size: 45
10672198 GTGAATCACC
* * * * * *
10672208 AAAAGTTTTCGAATGAGAAGCTTTGAAATTTTGGATGTGAACCTT
1 AAAATTTTTTGAATGAAAACCTTTGAAATTTTAGATGTGAAACTT
*
10672253 TAAATTTTTTGAATGAAAACCTTT-AAA-TTTAGATGTGAAACTCT
1 AAAATTTTTTGAATGAAAACCTTTGAAATTTTAGATGTGAAACT-T
*
10672297 AAAATTTATTGAATG
1 AAAATTTTTTGAATG
10672312 TGAATATTTG
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
43 13 0.27
44 17 0.35
45 19 0.39
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (45 bp):
AAAATTTTTTGAATGAAAACCTTTGAAATTTTAGATGTGAAACTT
Found at i:10672708 original size:16 final size:15
Alignment explanation
Indices: 10672692--10672720 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10672682 TGTGAAACAA
10672692 AAATT-TTGAGAATC
1 AAATTCTTGAGAATC
10672706 AAATTCTTGAGAATC
1 AAATTCTTGAGAATC
10672721 TTTAATCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.34
Consensus pattern (15 bp):
AAATTCTTGAGAATC
Found at i:10672805 original size:16 final size:16
Alignment explanation
Indices: 10672784--10672817 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
10672774 AACTTTTGTG
10672784 AATTTG-AAGTCTTGCA
1 AATTTGAAAG-CTTGCA
10672800 AATTTGAAAGCTTGCA
1 AATTTGAAAGCTTGCA
10672816 AA
1 AA
10672818 ACTTAAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (16 bp):
AATTTGAAAGCTTGCA
Found at i:10672879 original size:34 final size:35
Alignment explanation
Indices: 10672817--10672904 Score: 110
Period size: 34 Copynumber: 2.6 Consensus size: 35
10672807 AAGCTTGCAA
* *
10672817 AACTT-AAATTCTTGCGAAT-TTGTGTGTCTGGCG
1 AACTTGAAATCCTTGAGAATCTTGTGTGTCTGGCG
* * *
10672850 AACTTGAAATCCTTGTGAATCTT-TGTGTCTTGTG
1 AACTTGAAATCCTTGAGAATCTTGTGTGTCTGGCG
10672884 AACTTGAAATCCTTGAGAATC
1 AACTTGAAATCCTTGAGAATC
10672905 AAATTCTTGT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
33 5 0.10
34 41 0.85
35 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (35 bp):
AACTTGAAATCCTTGAGAATCTTGTGTGTCTGGCG
Found at i:10672898 original size:17 final size:17
Alignment explanation
Indices: 10672849--10672898 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
10672839 TGTGTCTGGC
10672849 GAACTTGAAATCCTTGT
1 GAACTTGAAATCCTTGT
**
10672866 GAATCTTTG-TGT-CTTGT
1 GAA-C-TTGAAATCCTTGT
10672883 GAACTTGAAATCCTTG
1 GAACTTGAAATCCTTG
10672899 AGAATCAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
15 3 0.12
16 2 0.08
17 15 0.60
18 2 0.08
19 3 0.12
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (17 bp):
GAACTTGAAATCCTTGT
Found at i:10673969 original size:23 final size:24
Alignment explanation
Indices: 10673943--10674002 Score: 61
Period size: 26 Copynumber: 2.5 Consensus size: 24
10673933 AAAAGATATC
10673943 AAAAATAGAAAAGG-AGAAGAATA
1 AAAAATAGAAAAGGAAGAAGAATA
* * *
10673966 AAAAATGGTGAAAGGGAAGAAGAGTA
1 AAAAAT--AGAAAAGGAAGAAGAATA
10673992 AAAAA-AGAAAA
1 AAAAATAGAAAA
10674003 AAAAAACTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
23 10 0.34
25 6 0.21
26 13 0.45
ACGTcount: A:0.67, C:0.00, G:0.25, T:0.08
Consensus pattern (24 bp):
AAAAATAGAAAAGGAAGAAGAATA
Found at i:10677253 original size:6 final size:6
Alignment explanation
Indices: 10677244--10677349 Score: 72
Period size: 6 Copynumber: 16.2 Consensus size: 6
10677234 TTTTGGGGTT
*
10677244 GGTTTA GGTTTCAA GGTTTA GGGTTA GGGTTTTA -GTTTA GGGTTT- GGTTTAA
1 GGTTTA GGTTT--A GGTTTA GGTTTA -GG-TTTA GGTTTA -GGTTTA GGTTT-A
* *
10677296 GGTTTA GGTTTAA GGTTTA GTTTTA GGGTTTTA GGTTTTGA GGTTTA GATTTA
1 GGTTTA GGTTT-A GGTTTA GGTTTA -GG-TTTA GG-TTT-A GGTTTA GGTTTA
10677349 G
1 G
10677350 AATTTGGAAT
Statistics
Matches: 83, Mismatches: 5, Indels: 24
0.74 0.04 0.21
Matches are distributed among these distances:
5 9 0.11
6 31 0.37
7 27 0.33
8 16 0.19
ACGTcount: A:0.18, C:0.01, G:0.33, T:0.48
Consensus pattern (6 bp):
GGTTTA
Found at i:10677268 original size:25 final size:25
Alignment explanation
Indices: 10677239--10677343 Score: 81
Period size: 25 Copynumber: 4.0 Consensus size: 25
10677229 TAGTTTTTTG
10677239 GGGTT-GGTTTAGGTTTCAAGGTTTA
1 GGGTTAGGTTTAGGTTT-AAGGTTTA
*
10677264 GGGTTAGGGTTTTA-GTTTAGGGTTT-
1 GGGTTA-GG-TTTAGGTTTAAGGTTTA
*
10677289 GGTTTAAGGTTTAGGTTTAAGGTTTA
1 GGGTT-AGGTTTAGGTTTAAGGTTTA
** *
10677315 GTTTTAGGGTTTTAGGTTTTGAGGTTTA
1 GGGTTA-GG-TTTAGG-TTTAAGGTTTA
10677343 G
1 G
10677344 ATTTAGAATT
Statistics
Matches: 66, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
24 4 0.06
25 22 0.33
26 13 0.20
27 12 0.18
28 15 0.23
ACGTcount: A:0.16, C:0.01, G:0.35, T:0.48
Consensus pattern (25 bp):
GGGTTAGGTTTAGGTTTAAGGTTTA
Found at i:10677283 original size:13 final size:12
Alignment explanation
Indices: 10677244--10677349 Score: 68
Period size: 14 Copynumber: 8.0 Consensus size: 12
10677234 TTTTGGGGTT
*
10677244 GGTTTAGGTTTCAA
1 GGTTTA-GTTT-AG
*
10677258 GGTTTAGGGTTAG
1 GGTTTA-GTTTAG
10677271 GGTTTTAGTTTAG
1 GG-TTTAGTTTAG
* *
10677284 GGTTTGGTTTAA
1 GGTTTAGTTTAG
*
10677296 GGTTTAGGTTTAA
1 GGTTTA-GTTTAG
10677309 GGTTTAGTTTTAG
1 GGTTTAG-TTTAG
*
10677322 GGTTTTAGGTTTTG
1 GG-TTTA-GTTTAG
10677336 AGGTTTAGATTTAG
1 -GGTTTAG-TTTAG
10677350 AATTTGGAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
12 14 0.18
13 29 0.38
14 30 0.39
15 3 0.04
ACGTcount: A:0.18, C:0.01, G:0.33, T:0.48
Consensus pattern (12 bp):
GGTTTAGTTTAG
Found at i:10677283 original size:19 final size:19
Alignment explanation
Indices: 10677259--10677325 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
10677249 AGGTTTCAAG
*
10677259 GTTTAGGGTTAGGGTTTTA
1 GTTTAGGGTTAAGGTTTTA
* *
10677278 GTTTAGGGTT-TGGTTTAA
1 GTTTAGGGTTAAGGTTTTA
*
10677296 GGTTTAGGTTTAAGG-TTTA
1 -GTTTAGGGTTAAGGTTTTA
10677315 GTTTTAGGGTT
1 G-TTTAGGGTT
10677326 TTAGGTTTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.18
19 30 0.77
20 2 0.05
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.49
Consensus pattern (19 bp):
GTTTAGGGTTAAGGTTTTA
Found at i:10677298 original size:38 final size:40
Alignment explanation
Indices: 10677244--10677343 Score: 125
Period size: 38 Copynumber: 2.5 Consensus size: 40
10677234 TTTTGGGGTT
*
10677244 GGTTTAGGTTTCAAGGTTTAGGGTTAGGGTTTTAG-TTTAG
1 GGTTTAGGTTTCAAGGTTTAGGGTTAAGG-TTTAGTTTTAG
*
10677284 GGTTT-GGTTT-AAGGTTTAGGTTTAAGGTTTAGTTTTAG
1 GGTTTAGGTTTCAAGGTTTAGGGTTAAGGTTTAGTTTTAG
**
10677322 GGTTTTAGGTTTTGAGGTTTAG
1 GG-TTTAGGTTTCAAGGTTTAG
10677344 ATTTAGAATT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
37 5 0.09
38 22 0.42
39 8 0.15
40 10 0.19
41 8 0.15
ACGTcount: A:0.17, C:0.01, G:0.34, T:0.48
Consensus pattern (40 bp):
GGTTTAGGTTTCAAGGTTTAGGGTTAAGGTTTAGTTTTAG
Found at i:10683091 original size:57 final size:57
Alignment explanation
Indices: 10683026--10683168 Score: 166
Period size: 57 Copynumber: 2.5 Consensus size: 57
10683016 GCACGTTGGG
* *
10683026 CATGTTGGCATAATAGCCTTAAAGCAATAAAAAAGATGGCACGT-GAGGCACATTAGC
1 CATGTTGGCATAATAGCCTTAAAGCAATAAAAAAGATGACACATAG-GGCACATTAGC
* * * *
10683083 CATGTTGGCATAATAGTCTTAACA-CAATAAAAAAGATGACGCATAGGGCACATTCGG
1 CATGTTGGCATAATAGCCTTAA-AGCAATAAAAAAGATGACACATAGGGCACATTAGC
* * *
10683140 CATGTTGGCCT-AGAGCCTTAATGCAATAA
1 CATGTTGGCATAATAGCCTTAAAGCAATAA
10683169 GGAATGACAC
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
56 14 0.19
57 57 0.78
58 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (57 bp):
CATGTTGGCATAATAGCCTTAAAGCAATAAAAAAGATGACACATAGGGCACATTAGC
Found at i:10690745 original size:25 final size:25
Alignment explanation
Indices: 10690711--10690761 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
10690701 TCAAAATTTA
10690711 TACAAGTTAAATTATTTATATAATT
1 TACAAGTTAAATTATTTATATAATT
*
10690736 TACAATTTAAATTATTTATATAATT
1 TACAAGTTAAATTATTTATATAATT
10690761 T
1 T
10690762 TAAATATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (25 bp):
TACAAGTTAAATTATTTATATAATT
Found at i:10697354 original size:20 final size:19
Alignment explanation
Indices: 10697327--10697387 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
10697317 AAAATTAAAC
* *
10697327 AAATAACAATAAATTGTAA
1 AAATAACAAGAAAATGTAA
10697346 AAATCAACAAGAAAATGTAA
1 AAAT-AACAAGAAAATGTAA
* * *
10697366 AACTAAATAAGAAAATGCAA
1 AAAT-AACAAGAAAATGTAA
10697386 AA
1 AA
10697388 CTTAACAAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
19 4 0.11
20 31 0.89
ACGTcount: A:0.66, C:0.08, G:0.08, T:0.18
Consensus pattern (19 bp):
AAATAACAAGAAAATGTAA
Found at i:10706155 original size:159 final size:161
Alignment explanation
Indices: 10705912--10706478 Score: 440
Period size: 161 Copynumber: 3.5 Consensus size: 161
10705902 CTTTATTATG
* * * * *
10705912 CCATTAAAAAGGCAAAACTGTAATTTTG-CAATTATATTTTTGTTTTAAT-GATTTAGATAGCTT
1 CCATT-AAAAGGCAAAAAT-AAAATTTGACAATTATATTTCTATTTTAATAG-TTTAGATAGCTT
* * * *
10705975 CAATACATAATATTACACTTGTTTGAAAGTTTGAACTTGGTTGCCACACTTGATATGCATGAATA
63 AAATACATGATATTAAACTTGTTTGAAAGTTTGAACTTGGTTTCCACACTTGATATGCATGAATA
* *
10706040 AGTTGCGA-TTTATATTTGTTTAAG-ATTTTTGTA
128 AGTTG-GAGTTTATATCTGTTTAAGAATTTTTGGA
* *
10706073 CCATTAAAAGGTAAAAATACAAATTTGA-AATTAT-TGTT-T-TCTTTAATAGTTTAGATAGTTT
1 CCATTAAAAGGCAAAAATA-AAATTTGACAATTATAT-TTCTAT-TTTAATAGTTTAGATAGCTT
* * * *
10706134 AAATACATGATATTAAACTTGTCTG-AATTATTAAACTTGGTTTCCACGCTTGATATGCATGAAT
63 AAATACATGATATTAAACTTGTTTGAAAGT-TTGAACTTGGTTTCCACACTTGATATGCATGAAT
* *
10706198 AAGTTGTAGTTTATATCTGTTTAAGACATTTTTGGG
127 AAGTTGGAGTTTATATCTGTTTAAGA-ATTTTTGGA
* * * * * * * *
10706234 CCGTTTAAGGGCAAATATATAATTTTACAATTATATTTCTATTTTAACAGTTTATATAGCTTAAA
1 CCATTAAAAGGCAAAAATAAAATTTGACAATTATATTTCTATTTTAATAGTTTAGATAGCTTAAA
* * * * * * * *
10706299 TACACGATATTAAACTT-ATTCAAATGATTGAATTTGGTTTCCACACTTAATATGTATGAAAAAG
66 TACATGATATTAAACTTGTTTGAAA-GTTTGAACTTGGTTTCCACACTTGATATGCATGAATAAG
*** * * ** * *
10706363 TTACCGTTTATGTTTG-TTACTATTTTTTATG-
130 TTGGAGTTTATATCTGTTTAAGAATTTTT-GGA
* * * * * * * * * *
10706394 CCGTTAAAGGGCAAAAAATGTAATTTTG-TAGTTATATTTTTATTTTAAAAGTTTAAATAGCTTT
1 CCATTAAAAGGC-AAAAAT-AAAATTTGACAATTATATTTCTATTTTAATAGTTTAGATAGCTTA
10706458 AATACATGATATTAAACTTGT
64 AATACATGATATTAAACTTGT
10706479 CTAAATCTTT
Statistics
Matches: 325, Mismatches: 62, Indels: 37
0.77 0.15 0.09
Matches are distributed among these distances:
158 5 0.02
159 92 0.28
160 48 0.15
161 93 0.29
162 86 0.26
163 1 0.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.43
Consensus pattern (161 bp):
CCATTAAAAGGCAAAAATAAAATTTGACAATTATATTTCTATTTTAATAGTTTAGATAGCTTAAA
TACATGATATTAAACTTGTTTGAAAGTTTGAACTTGGTTTCCACACTTGATATGCATGAATAAGT
TGGAGTTTATATCTGTTTAAGAATTTTTGGA
Found at i:10709333 original size:19 final size:19
Alignment explanation
Indices: 10709309--10709355 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
10709299 TGAATGACAG
10709309 TTATATTTAAATTA-TTTAT
1 TTATATTTAAA-TAGTTTAT
*
10709328 TTATATGTAAATAGTTTAT
1 TTATATTTAAATAGTTTAT
10709347 TTAATATTT
1 TT-ATATTT
10709356 TATGAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 17 0.71
20 5 0.21
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
TTATATTTAAATAGTTTAT
Found at i:10714931 original size:17 final size:18
Alignment explanation
Indices: 10714899--10714932 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10714889 ATTATCAAAT
10714899 TTTGGATTTTTCTATTTA
1 TTTGGATTTTTCTATTTA
*
10714917 TTTGTATTTTT-TATTT
1 TTTGGATTTTTCTATTT
10714933 GTCATGTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.15, C:0.03, G:0.09, T:0.74
Consensus pattern (18 bp):
TTTGGATTTTTCTATTTA
Found at i:10714958 original size:18 final size:16
Alignment explanation
Indices: 10714940--10714982 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
10714930 TTTGTCATGT
10714940 TTATTTTATCTTTATTG
1 TTATTTTATCTTT-TTG
10714957 TTA-TTTATCTTTTTGG
1 TTATTTTATCTTTTT-G
10714973 TTATATTTAT
1 TTAT-TTTAT
10714983 TGGTGAATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 2 0.09
16 13 0.57
17 3 0.13
18 5 0.22
ACGTcount: A:0.19, C:0.05, G:0.07, T:0.70
Consensus pattern (16 bp):
TTATTTTATCTTTTTG
Found at i:10716664 original size:30 final size:30
Alignment explanation
Indices: 10716628--10716687 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
10716618 TATTTTATGA
*
10716628 TTCTTTTATTTCTTATTTAGTCAC-TTATTT
1 TTCTTTT-TTTCATATTTAGTCACTTTATTT
*
10716658 TTCTTTTTTTGATATTTAGTCACTTTATTT
1 TTCTTTTTTTCATATTTAGTCACTTTATTT
10716688 CATGGATAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 14 0.52
30 13 0.48
ACGTcount: A:0.17, C:0.12, G:0.05, T:0.67
Consensus pattern (30 bp):
TTCTTTTTTTCATATTTAGTCACTTTATTT
Found at i:10716885 original size:13 final size:13
Alignment explanation
Indices: 10716867--10716892 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10716857 CTCTATAATG
10716867 ATGAAAATTTTAA
1 ATGAAAATTTTAA
10716880 ATGAAAATTTTAA
1 ATGAAAATTTTAA
10716893 TAAATGATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
ATGAAAATTTTAA
Found at i:10719728 original size:11 final size:11
Alignment explanation
Indices: 10719712--10719739 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
10719702 ATGAATTGCA
10719712 AAAAAAAAAAG
1 AAAAAAAAAAG
10719723 AAAAAAAAAAG
1 AAAAAAAAAAG
10719734 AAAAAA
1 AAAAAA
10719740 GGATGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:10721906 original size:20 final size:21
Alignment explanation
Indices: 10721881--10721920 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
10721871 CTACATGATA
10721881 ATTATTGCATAATA-TTTTAT
1 ATTATTGCATAATAGTTTTAT
*
10721901 ATTATTGCATGATAGTTTTA
1 ATTATTGCATAATAGTTTTA
10721921 CATAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.53
Consensus pattern (21 bp):
ATTATTGCATAATAGTTTTAT
Found at i:10721923 original size:47 final size:48
Alignment explanation
Indices: 10721845--10721945 Score: 125
Period size: 47 Copynumber: 2.1 Consensus size: 48
10721835 TATTTGTATG
* * *
10721845 ATATTATATTTTATTGCATCATATTTCTACATGATAATT-ATTGCATA
1 ATATTTTATATTATTGCATCATATTTCTACATAATAATTCATTGCATA
* * *
10721892 ATATTTTATATTATTGCATGATAGTTT-TACATAATAATTCTTTGCATG
1 ATATTTTATATTATTGCATCATA-TTTCTACATAATAATTCATTGCATA
10721940 ATATTT
1 ATATTT
10721946 AATGACGTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
47 31 0.67
48 15 0.33
ACGTcount: A:0.33, C:0.09, G:0.08, T:0.50
Consensus pattern (48 bp):
ATATTTTATATTATTGCATCATATTTCTACATAATAATTCATTGCATA
Found at i:10723093 original size:39 final size:40
Alignment explanation
Indices: 10723018--10723098 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 40
10723008 TGTAAATTTA
* *
10723018 TATATTGTTTCTTGTATATATTATGTGCATATTAACCCTTT
1 TATATTGTTTCTTATATATATTA-GTGCATACTAACCCTTT
* *
10723059 TATATT-TTTCCTTATATATATTA-TGCTTACTAACCTTTT
1 TATATTGTTT-CTTATATATATTAGTGCATACTAACCCTTT
10723098 T
1 T
10723099 CTTTTACTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
39 14 0.40
40 3 0.09
41 18 0.51
ACGTcount: A:0.25, C:0.14, G:0.06, T:0.56
Consensus pattern (40 bp):
TATATTGTTTCTTATATATATTAGTGCATACTAACCCTTT
Found at i:10723496 original size:139 final size:136
Alignment explanation
Indices: 10723332--10723773 Score: 437
Period size: 139 Copynumber: 3.3 Consensus size: 136
10723322 CATTATTTCA
* **
10723332 TTTGCCTTTTCAATTTTCTACATAGTTATGGGTATAAATTCTTGTTTTTCACTATGTATTGAATA
1 TTTGCCTTTTCAATTTTGTACATAGTTATGAATATAAATTCTTGTTTTTCACTATGTATTGAATA
*
10723397 CATGTATTTGCATTTACATTTTTATCCATGTAAACATTTTTGTATGTACATTATTTCATTTG-TT
66 CATGTATTTGCA-TTAAATTTTTATCCATGTAAA-ATTTTTGTATGTACATTATTT-ATTTGCTT
* *
10723461 CGAAAAATCC
128 AGGAAAAT-C
* * * *
10723471 TTTGCCTTTTCAATTTTGTATATAGTTTTGAATATGAATTCTTGTTTTTCACTATGTATTGCATA
1 TTTGCCTTTTCAATTTTGTACATAGTTATGAATATAAATTCTTGTTTTTCACTATGTATTGAATA
*
10723536 CATGTATTTGCATATAAATTTTTAT-C---T---ATTTTTGTATGTACATTATTTTATTGGCTTA
66 CATGTATTTGCAT-TAAATTTTTATCCATGTAAAATTTTTGTATGTACATTA-TTTATTTGCTTA
*
10723594 GGAGAATC
129 GGAAAATC
** * * * *
10723602 TTTGTATTTTCAATTTTGTACATAGTTATGAATATAAATTCTTATTGTT-ATTATGCATT-ATAT
1 TTTGCCTTTTCAATTTTGTACATAGTTATGAATATAAATTCTTGTTTTTCACTATGTATTGA-AT
* * * * *
10723665 ACTTGTA--T--A-TATATTTTTATCCATGTAAATATTTTTGTATATATATTATATTATTTGTTT
65 ACATGTATTTGCATTAAATTTTTATCCATGTAAA-ATTTTTGTATGTACATTAT-TTATTTGCTT
**
10723725 AGGGCAATC
128 AGGAAAATC
* ** *
10723734 TTTGCCTTTTCAATTTTGTAAATAGTCGTGAATATGAATT
1 TTTGCCTTTTCAATTTTGTACATAGTTATGAATATAAATT
10723774 TATTGCATAT
Statistics
Matches: 254, Mismatches: 36, Indels: 33
0.79 0.11 0.10
Matches are distributed among these distances:
124 10 0.04
125 1 0.00
126 1 0.00
128 2 0.01
130 16 0.06
131 66 0.26
132 75 0.30
135 1 0.00
138 2 0.01
139 80 0.31
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (136 bp):
TTTGCCTTTTCAATTTTGTACATAGTTATGAATATAAATTCTTGTTTTTCACTATGTATTGAATA
CATGTATTTGCATTAAATTTTTATCCATGTAAAATTTTTGTATGTACATTATTTATTTGCTTAGG
AAAATC
Found at i:10723538 original size:123 final size:124
Alignment explanation
Indices: 10723398--10723981 Score: 429
Period size: 123 Copynumber: 4.6 Consensus size: 124
10723388 TATTGAATAC
*
10723398 ATGTATTTGCATTTACATTTTTATCCATGTAAACATTTTTGTATGTACATTATTTCATTTG-TTC
1 ATGTATTTGCA--TACATTTTTATCCATGTAAACATTTTTGTATGTACATTATTT-ATTTGTTTA
* * * *
10723462 GAAAAATCCTTTGCCTTTTCAATTTTGTATATAGTTTTGAATATGAATTC-TTGTTTTTCACT
63 GGACAAT-CTTTGCCTTTTCAATTTTGTAAATAGTTGTGAATATGAATTCATTGTTTTTCACT
* * *
10723524 ATGTA-TTGCATACATGTATT-TGCATATAAATTTTTATCTATTTTTGTATGTACATTATTTTAT
1 ATGTATTTGCATACAT-TTTTATCCATGT-AA-----A-C-ATTTTTGTATGTACATTA-TTTAT
* * * ** * * *
10723587 TGGCTTAGGAGAATCTTTGTATTTTCAATTTTGTACATAGTTATGAATATAAATTCTTATTGTTA
56 TTGTTTAGGACAATCTTTGCCTTTTCAATTTTGTAAATAGTTGTGAATATGAATTC--ATTGTT-
*
10723652 TTATGCATT
118 TT-T-CACT
* ** * * * *
10723661 ATATACTTGTATATATATTTTTATCCATGTAAATATTTTTGTATATATATTATATTATTTGTTTA
1 ATGTA-TT-TGCATACATTTTTATCCATGTAAACATTTTTGTATGTACATTAT-TTATTTGTTTA
* * * **
10723726 GGGCAATCTTTGCCTTTTCAATTTTGTAAATAGTCGTGAATATGAATTTATTG--CAT-A-T
63 GGACAATCTTTGCCTTTTCAATTTTGTAAATAGTTGTGAATATGAATTCATTGTTTTTCACT
* * * * *
10723784 ATGTATTTGTATACACATTCTTATCCATGTAAATATTTTTGTATGTATATTATATTATTTGTTTG
1 ATGTATTTGCAT--ACATTTTTATCCATGTAAACATTTTTGTATGTACATTAT-TTATTTGTTTA
* * * *** **
10723849 GGGCAATCTTTGCCTTTTCAATTTTGTAAATAATTGTGAATATTACGACATTG--CAT-AC-
63 GGACAATCTTTGCCTTTTCAATTTTGTAAATAGTTGTGAATATGAATTCATTGTTTTTCACT
* * *
10723907 ATGTATTTGCACATAATTTTATCCATGTAAACATTTTTGTATGTACATTATTTCATTTGTTTAAG
1 ATGTATTTGCATACATTTTTATCCATGTAAACATTTTTGTATGTACATTATTT-ATTTGTTT-AG
10723972 G-CAATCTTTG
64 GACAATCTTTG
10723982 GTATATAAAT
Statistics
Matches: 374, Mismatches: 57, Indels: 59
0.76 0.12 0.12
Matches are distributed among these distances:
120 2 0.01
121 55 0.15
122 4 0.01
123 122 0.33
124 6 0.02
125 5 0.01
126 6 0.02
129 1 0.00
130 5 0.01
131 60 0.16
132 75 0.20
134 6 0.02
135 2 0.01
136 1 0.00
137 7 0.02
139 6 0.02
140 11 0.03
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (124 bp):
ATGTATTTGCATACATTTTTATCCATGTAAACATTTTTGTATGTACATTATTTATTTGTTTAGGA
CAATCTTTGCCTTTTCAATTTTGTAAATAGTTGTGAATATGAATTCATTGTTTTTCACT
Found at i:10723946 original size:121 final size:122
Alignment explanation
Indices: 10723679--10723981 Score: 430
Period size: 123 Copynumber: 2.5 Consensus size: 122
10723669 GTATATATAT
*
10723679 TTTTATCCATGTAAATATTTTTGTATATATATTATATTATTTGTTTAGGGCAATCTTTGCCTTTT
1 TTTTATCCATGTAAATATTTTTGTATGTATATTATATTATTTGTTTAGGGCAATCTTTGCCTTTT
* *** * * *
10723744 CAATTTTGTAAATAGTCGTGAATATGAATTTATTGCATATATGTATTTGTATACACA
66 CAATTTTGTAAATAATCGTGAATATGAAGACATTGCATACATGTATTTGCACACACA
*
10723801 TTCTTATCCATGTAAATATTTTTGTATGTATATTATATTATTTGTTTGGGGCAATCTTTGCCTTT
1 TT-TTATCCATGTAAATATTTTTGTATGTATATTATATTATTTGTTTAGGGCAATCTTTGCCTTT
* * * *
10723866 TCAATTTTGTAAATAATTGTGAATATTACGACATTGCATACATGTATTTGCACATA-A
65 TCAATTTTGTAAATAATCGTGAATATGAAGACATTGCATACATGTATTTGCACACACA
* * *
10723923 TTTTATCCATGTAAACATTTTTGTATGTACATTAT-TTCATTTGTTTAAGGCAATCTTTG
1 TTTTATCCATGTAAATATTTTTGTATGTATATTATATT-ATTTGTTTAGGGCAATCTTTG
10723982 GTATATAAAT
Statistics
Matches: 162, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
120 2 0.01
121 50 0.31
122 5 0.03
123 105 0.65
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.49
Consensus pattern (122 bp):
TTTTATCCATGTAAATATTTTTGTATGTATATTATATTATTTGTTTAGGGCAATCTTTGCCTTTT
CAATTTTGTAAATAATCGTGAATATGAAGACATTGCATACATGTATTTGCACACACA
Found at i:10726850 original size:18 final size:18
Alignment explanation
Indices: 10726827--10726868 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
10726817 CCTTTGAAAC
*
10726827 TTTGCAAATTTTAAATCT
1 TTTGCAAATCTTAAATCT
*
10726845 TTTGCAAATCTTGAATCT
1 TTTGCAAATCTTAAATCT
10726863 TTTGCA
1 TTTGCA
10726869 TTCACTCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.48
Consensus pattern (18 bp):
TTTGCAAATCTTAAATCT
Found at i:10726906 original size:18 final size:19
Alignment explanation
Indices: 10726864--10726906 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
10726854 CTTGAATCTT
**
10726864 TTGCATTCACTCCATTCAC
1 TTGCATTCACTAAATTCAC
10726883 TT-CATTCACTAAATTCA-
1 TTGCATTCACTAAATTCAC
10726900 TTGCATT
1 TTGCATT
10726907 GTATTCATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 17 0.81
19 2 0.10
ACGTcount: A:0.26, C:0.28, G:0.05, T:0.42
Consensus pattern (19 bp):
TTGCATTCACTAAATTCAC
Found at i:10727291 original size:22 final size:22
Alignment explanation
Indices: 10727226--10727361 Score: 100
Period size: 22 Copynumber: 6.2 Consensus size: 22
10727216 CATCTCCAAA
* *
10727226 ACCTCTGTGCATGA-TTATAAG
1 ACCTCTGAGCATGATTTGTAAG
* *
10727247 ACCTCT-AGACATAATCTT-CAAG
1 ACCTCTGAG-CATGAT-TTGTAAG
*
10727269 ACCTCTGGGCATGATTTGTAAG
1 ACCTCTGAGCATGATTTGTAAG
* * * * *
10727291 ACCTCCGATCATAATCTCTAAG
1 ACCTCTGAGCATGATTTGTAAG
*
10727313 ACCTCCT-AACATGATTTGTAAG
1 ACCT-CTGAGCATGATTTGTAAG
*
10727335 ACCTCCGAGCATGATTTGTAAG
1 ACCTCTGAGCATGATTTGTAAG
*
10727357 CCCTC
1 ACCTC
10727362 CGGGCATAAT
Statistics
Matches: 88, Mismatches: 20, Indels: 13
0.73 0.17 0.11
Matches are distributed among these distances:
20 1 0.01
21 13 0.15
22 70 0.80
23 4 0.05
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (22 bp):
ACCTCTGAGCATGATTTGTAAG
Found at i:10727305 original size:44 final size:43
Alignment explanation
Indices: 10727217--10727342 Score: 132
Period size: 44 Copynumber: 2.9 Consensus size: 43
10727207 TTCGAGTGTC
* * * * *
10727217 ATCTCCAAAACCTCTGTGCATGA-TTATAAGACCTCTAGACATA
1 ATCTTCAAGACCTCTGAGCATGATTTGTAAGACCTC-CGACATA
*
10727260 ATCTTCAAGACCTCTGGGCATGATTTGTAAGACCTCCGATCATA
1 ATCTTCAAGACCTCTGAGCATGATTTGTAAGACCTCCGA-CATA
*
10727304 ATC-TCTAAGACCTCCT-AACATGATTTGTAAGACCTCCGA
1 ATCTTC-AAGACCT-CTGAGCATGATTTGTAAGACCTCCGA
10727343 GCATGATTTG
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
43 24 0.33
44 46 0.64
45 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (43 bp):
ATCTTCAAGACCTCTGAGCATGATTTGTAAGACCTCCGACATA
Found at i:10727362 original size:22 final size:22
Alignment explanation
Indices: 10727266--10727368 Score: 116
Period size: 22 Copynumber: 4.7 Consensus size: 22
10727256 CATAATCTTC
* *
10727266 AAGACCTCTGGGCATGATTTGT
1 AAGACCTCCGAGCATGATTTGT
* * * *
10727288 AAGACCTCCGATCATAATCTCT
1 AAGACCTCCGAGCATGATTTGT
* *
10727310 AAGACCTCCTAACATGATTTGT
1 AAGACCTCCGAGCATGATTTGT
10727332 AAGACCTCCGAGCATGATTTGT
1 AAGACCTCCGAGCATGATTTGT
* *
10727354 AAGCCCTCCGGGCAT
1 AAGACCTCCGAGCAT
10727369 AATCTCCAAA
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 66 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (22 bp):
AAGACCTCCGAGCATGATTTGT
Found at i:10727404 original size:66 final size:66
Alignment explanation
Indices: 10727266--10727397 Score: 183
Period size: 66 Copynumber: 2.0 Consensus size: 66
10727256 CATAATCTTC
* * * * * *
10727266 AAGACCTCTGGGCATGATTTGTAAGACCTCCGATCATAATCTCTAAGACCTCCTAACATGATTTG
1 AAGACCTCCGAGCATGATTTGTAAGACCTCCGAGCATAATCTCCAAAACCTCCAAACATGATTTG
10727331 T
66 T
* * *
10727332 AAGACCTCCGAGCATGATTTGTAAGCCCTCCGGGCATAATCTCCAAAACCTTCAAACATGATTTG
1 AAGACCTCCGAGCATGATTTGTAAGACCTCCGAGCATAATCTCCAAAACCTCCAAACATGATTTG
10727397 T
66 T
10727398 TTGACCTTCA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (66 bp):
AAGACCTCCGAGCATGATTTGTAAGACCTCCGAGCATAATCTCCAAAACCTCCAAACATGATTTG
T
Found at i:10727508 original size:44 final size:44
Alignment explanation
Indices: 10727342--10727556 Score: 141
Period size: 44 Copynumber: 4.9 Consensus size: 44
10727332 AAGACCTCCG
* * * * * *
10727342 AGCATGATTTGTAAGCCCTCCGGGCATAATCTCCAAAACCT-TCA
1 AGCATGATTTGTAAGACCTTCAGACGTAATCTTCAAAACCTCT-A
* ** * * * *
10727386 AACATGATTTGTTTGACCTTCAGACGTAATCTCCAAGATCTCCTT
1 AGCATGATTTGTAAGACCTTCAGACGTAATCTTCAAAACCT-CTA
** *
10727431 A-CATGATTTGTAAGA-CTTCTAGGTGTAACCTTCAAAACCTCTA
1 AGCATGATTTGTAAGACCTTC-AGACGTAATCTTCAAAACCTCTA
* * * * *
10727474 AGCATGATTTGTAAAACCTTCAGACATAATCTTCAAGACCTTTG
1 AGCATGATTTGTAAGACCTTCAGACGTAATCTTCAAAACCTCTA
* * * *
10727518 GGCATGATTTGTAA-AACTTCCGAGCGTAATCTTTAAAAC
1 AGCATGATTTGTAAGACCTTCAGA-CGTAATCTTCAAAAC
10727557 TTTTGGGCAT
Statistics
Matches: 131, Mismatches: 34, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
43 14 0.11
44 111 0.85
45 5 0.04
46 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (44 bp):
AGCATGATTTGTAAGACCTTCAGACGTAATCTTCAAAACCTCTA
Found at i:10727569 original size:22 final size:22
Alignment explanation
Indices: 10727498--10727571 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 22
10727488 AACCTTCAGA
* * *
10727498 CATAATCTTCAAGACCTTTGGG
1 CATAATCTTTAAAACTTTTGGG
* ** *
10727520 CATGAT-TTGTAAAACTTCCGAG
1 CATAATCTT-TAAAACTTTTGGG
*
10727542 CGTAATCTTTAAAACTTTTGGG
1 CATAATCTTTAAAACTTTTGGG
10727564 CATAATCT
1 CATAATCT
10727572 CAAGAAAAAC
Statistics
Matches: 37, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (22 bp):
CATAATCTTTAAAACTTTTGGG
Found at i:10727887 original size:22 final size:22
Alignment explanation
Indices: 10727848--10727889 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10727838 AGAATGATCT
* * *
10727848 CAAAGACTTCCGAGCATAATCC
1 CAAAGACCTCCAAACATAATCC
10727870 CAAAGACCTCCAAACATAAT
1 CAAAGACCTCCAAACATAAT
10727890 TTATAAAACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.31, G:0.10, T:0.17
Consensus pattern (22 bp):
CAAAGACCTCCAAACATAATCC
Found at i:10727953 original size:22 final size:22
Alignment explanation
Indices: 10727913--10727970 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
10727903 GGATATAATT
* * * *
10727913 TTTAAGACCTCCAGGCATGTTC
1 TTTAAAACCTCAAGCCATGATC
10727935 TTTAAAACCTCAAGCCATGATC
1 TTTAAAACCTCAAGCCATGATC
*
10727957 TCTAAAACCTCAAG
1 TTTAAAACCTCAAG
10727971 GTGTCTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.28
Consensus pattern (22 bp):
TTTAAAACCTCAAGCCATGATC
Found at i:10728041 original size:42 final size:43
Alignment explanation
Indices: 10727978--10728299 Score: 322
Period size: 43 Copynumber: 7.5 Consensus size: 43
10727968 AAGGTGTCTT
*
10727978 TTTTATTTTTTCAAAA-TTCCAAAGCCTCAGTTGTGAAGGAGCA
1 TTTTA-TTTTTCAAAAGTTTCAAAGCCTCAGTTGTGAAGGAGCA
* * * * *
10728021 TTTTATTTTT-TAAAGTTCCAAAACCTCAGTTGTGGAGGAACA
1 TTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGAAGGAGCA
** *
10728063 TTTTATTTTTCAAAAGTTTCAAAGCCTCAGTT-TTTAGGAAGTA
1 TTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGAAGG-AGCA
* *
10728106 TTTTATTTTTC-AAAG-TTCTAAAGCCTCAGTTGT-AAGAAGTA
1 TTTTATTTTTCAAAAGTTTC-AAAGCCTCAGTTGTGAAGGAGCA
* * *
10728147 TTTTGTTTTTCAAAAGTTTCAAAGCCTCAATTGTGGAGGAGCA
1 TTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGAAGGAGCA
* * * *
10728190 TTTTATTTTTCAAAAGTTTAAAAGCCT-TGATTATGGAA-GAGAA
1 TTTTATTTTTCAAAAGTTTCAAAGCCTCAG-TTGT-GAAGGAGCA
* *
10728233 TTTTATTTTTCAAAAGTTTC-AAGACCTCACTTGT-AGGAGAGCA
1 TTTTATTTTTCAAAAGTTTCAAAG-CCTCAGTTGTGAAG-GAGCA
10728276 TTTTATTTTTTCAAAAGTTTCAAA
1 TTTTA-TTTTTCAAAAGTTTCAAA
10728300 CTTCTGTCAA
Statistics
Matches: 232, Mismatches: 31, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
41 21 0.09
42 81 0.35
43 111 0.48
44 17 0.07
45 2 0.01
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (43 bp):
TTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGAAGGAGCA
Found at i:10728214 original size:127 final size:127
Alignment explanation
Indices: 10727978--10728299 Score: 382
Period size: 127 Copynumber: 2.5 Consensus size: 127
10727968 AAGGTGTCTT
* * * * *
10727978 TTTTATTTTTTCAAAATTCCAAAGCCTCAGTTGTGAAGGAGCATTTTATTTTT-TAAAGTTCCAA
1 TTTTA-TTTTTCAAAGTTCTAAAGCCTCAGTTGT-AAGAAGCATTTTATTTTTCAAAAGTTTCAA
* * * * *
10728042 AACCTCAGTTGTGGAGGAACATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTTTTAGG-A-AGT
64 AACCTCAATTGTGGAGGAACATTTTATTTTTCAAAAGTTTAAAAGCCT-AGATTAT-GGAAGAGA
10728105 A
127 A
* * *
10728106 TTTTATTTTTCAAAGTTCTAAAGCCTCAGTTGTAAGAAGTATTTTGTTTTTCAAAAGTTTCAAAG
1 TTTTATTTTTCAAAGTTCTAAAGCCTCAGTTGTAAGAAGCATTTTATTTTTCAAAAGTTTCAAAA
* *
10728171 CCTCAATTGTGGAGGAGCATTTTATTTTTCAAAAGTTTAAAAGCCTTGATTATGGAAGAGAA
66 CCTCAATTGTGGAGGAACATTTTATTTTTCAAAAGTTTAAAAGCCTAGATTATGGAAGAGAA
* * *
10728233 TTTTATTTTTCAAAAGTT-TCAAGACCTCACTTGTAGGAGAGCATTTTATTTTTTCAAAAGTTTC
1 TTTTATTTTTC-AAAGTTCTAAAG-CCTCAGTTGTAAGA-AGCATTTTA-TTTTTCAAAAGTTTC
10728297 AAA
62 AAA
10728300 CTTCTGTCAA
Statistics
Matches: 167, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
125 2 0.01
126 20 0.12
127 97 0.58
128 23 0.14
129 7 0.04
130 18 0.11
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (127 bp):
TTTTATTTTTCAAAGTTCTAAAGCCTCAGTTGTAAGAAGCATTTTATTTTTCAAAAGTTTCAAAA
CCTCAATTGTGGAGGAACATTTTATTTTTCAAAAGTTTAAAAGCCTAGATTATGGAAGAGAA
Found at i:10728576 original size:12 final size:12
Alignment explanation
Indices: 10728561--10728590 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10728551 TACTTTAATT
*
10728561 TTTTTAGTTTAA
1 TTTTTAGTTCAA
10728573 TTTTTAGTTCAA
1 TTTTTAGTTCAA
10728585 TTTTTA
1 TTTTTA
10728591 TTTTTTAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.67
Consensus pattern (12 bp):
TTTTTAGTTCAA
Found at i:10730951 original size:15 final size:15
Alignment explanation
Indices: 10730927--10730958 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10730917 AAAAAATTTA
*
10730927 TTTTTAAAATTTTTC
1 TTTTTAAAATTCTTC
10730942 TTTTTAAAATTCTTC
1 TTTTTAAAATTCTTC
10730957 TT
1 TT
10730959 ATACAAGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTTAAAATTCTTC
Found at i:10731228 original size:14 final size:14
Alignment explanation
Indices: 10731211--10731240 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10731201 TCCACACCTG
10731211 AAAGCCAACACCAT
1 AAAGCCAACACCAT
*
10731225 AAAGCCAATACCAT
1 AAAGCCAACACCAT
10731239 AA
1 AA
10731241 GCACCCATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.30, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAGCCAACACCAT
Done.