Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2334
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: 268611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 2 of 2
Found at i:152749 original size:20 final size:20
Alignment explanation
Indices: 152720--152844 Score: 108
Period size: 20 Copynumber: 5.7 Consensus size: 20
152710 TTTTAACTAG
*
152720 ATGTAACGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
152740 ATGTATCGATACATCTAGCTAAAAA
1 ATGTATCGATACAT-T-G---AAAA
*
152765 GATAGAATGTATCGATACATT-AATAC
1 -AT-G--T--ATCGATACATTGAA-AA
152791 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
152811 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
152831 ATATATCGATACAT
1 ATGTATCGATACAT
152845 CTGGGTAAAA
Statistics
Matches: 88, Mismatches: 4, Indels: 26
0.75 0.03 0.22
Matches are distributed among these distances:
20 58 0.66
21 3 0.03
22 2 0.02
24 1 0.01
25 8 0.09
26 3 0.03
27 1 0.01
29 1 0.01
30 1 0.01
31 10 0.11
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:156066 original size:24 final size:24
Alignment explanation
Indices: 156038--156161 Score: 160
Period size: 24 Copynumber: 5.1 Consensus size: 24
156028 GATTGATCTC
*
156038 TTTATAACAATTGTTTCTTTATAT
1 TTTATAACAATTGTTTATTTATAT
*
156062 TTTATAATAATTGTTTATTTATAT
1 TTTATAACAATTGTTTATTTATAT
* *
156086 TTTATAACAATTATTTATGTATAT
1 TTTATAACAATTGTTTATTTATAT
*
156110 TTTATAACAATTGTTATTTCTTTATAT
1 TTTATAACAATTG---TTTATTTATAT
*
156137 TTTATAATAATT-TTTATTTATAT
1 TTTATAACAATTGTTTATTTATAT
156160 TT
1 TT
156162 AACTTTATTA
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
23 12 0.14
24 55 0.63
27 20 0.23
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.60
Consensus pattern (24 bp):
TTTATAACAATTGTTTATTTATAT
Found at i:157730 original size:20 final size:20
Alignment explanation
Indices: 157705--157821 Score: 119
Period size: 20 Copynumber: 5.7 Consensus size: 20
157695 TTTTACCTAG
157705 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* *** *
157725 ATGTATCGATATATGGATGA
1 ATGTATCGATACATTTTTCA
*
157745 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
**
157765 ATGTATCGATACATTCTACCTA
1 ATGTATCGATACATT-TTTC-A
157787 GATGTATCGATACATTGTTT-A
1 -ATGTATCGATACATT-TTTCA
157808 ATGTATCGATACAT
1 ATGTATCGATACAT
157822 CTAGTTAAAA
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
20 59 0.76
21 2 0.03
22 1 0.01
23 16 0.21
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:157802 original size:43 final size:43
Alignment explanation
Indices: 157698--157821 Score: 157
Period size: 43 Copynumber: 3.0 Consensus size: 43
157688 TCTATCCTTT
* * *
157698 TACCTAGATGTATCGATACATTTTTCAATGTATCGATATA-TG
1 TACCTAGATGTATCGATACATTCTTCAATGTATCGATACATTC
*
157740 GA--T-GAATGTATCGATACATTCTTCAATGTATCGATACATTC
1 TACCTAG-ATGTATCGATACATTCTTCAATGTATCGATACATTC
* *
157781 TACCTAGATGTATCGATACATTGTTTAATGTATCGATACAT
1 TACCTAGATGTATCGATACATTCTTCAATGTATCGATACAT
157822 CTAGTTAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
39 1 0.01
40 32 0.46
41 2 0.03
42 1 0.01
43 33 0.47
44 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (43 bp):
TACCTAGATGTATCGATACATTCTTCAATGTATCGATACATTC
Found at i:164485 original size:52 final size:51
Alignment explanation
Indices: 164400--164523 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
164390 ATATGAAAAG
* *
164400 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
*
164451 TTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
164503 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
164524 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 21 0.30
52 48 0.70
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:164536 original size:51 final size:51
Alignment explanation
Indices: 164400--164543 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
164390 ATATGAAAAG
*
164400 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
164452 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
164503 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
164544 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
50 2 0.02
51 34 0.40
52 48 0.57
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:164550 original size:13 final size:13
Alignment explanation
Indices: 164532--164556 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
164522 CAAAGATCAG
164532 TGTATCGATACAA
1 TGTATCGATACAA
164545 TGTATCGATACA
1 TGTATCGATACA
164557 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:164634 original size:33 final size:33
Alignment explanation
Indices: 164597--164663 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
164587 AGTAGCTTAA
164597 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
164630 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
164663 A
1 A
164664 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:164637 original size:13 final size:13
Alignment explanation
Indices: 164619--164643 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
164609 CAAAAAAATA
164619 TGTATCGATACAT
1 TGTATCGATACAT
164632 TGTATCGATACA
1 TGTATCGATACA
164644 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:165595 original size:174 final size:169
Alignment explanation
Indices: 165224--165597 Score: 405
Period size: 169 Copynumber: 2.2 Consensus size: 169
165214 CCACCGTGCA
* * * * * * * *
165224 GATTCAAGGCCTGCCACACTAGACTTAAAGATGATGAGGATGAAGAGCGATGAAAG--GACCAAT
1 GATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGA-GAAAAGTGAT-AAAGATG-CCAAT
* * *
165287 ACGTTGATTCACGGCCAACGATATTGGGTTTAGAGATGAGAAAAAGGATAAAGGAGCCAATATGC
63 ACGTCGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATAAAGGAGCCAATATGC
* * * *
165352 AGCTAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTCCT
128 AGCCAGCGACATTGAACTTAAAGATAAAGGTGCCAATATCCT
*
165394 GATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATG
1 GATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATACG
* * * **
165459 TCGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGAT-T-CA
66 TCGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA--TAAAGGAGCCAATATGC-
* *
165522 AGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCT
128 A-GCCAGCGACATTGAACTTAAAGAT---AAAGGTGCCAATATCCT
* *
165568 GATTCAAGGCCAGCTATATTGGACTTAAAG
1 GATTCAAGGCCAGCGACATTGGACTTAAAG
165598 GTGCCAATGT
Statistics
Matches: 170, Mismatches: 25, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
168 4 0.02
169 58 0.34
170 37 0.22
171 28 0.16
174 43 0.25
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.22
Consensus pattern (169 bp):
GATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATACG
TCGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATAAAGGAGCCAATATGCAGC
CAGCGACATTGAACTTAAAGATAAAGGTGCCAATATCCT
Found at i:165598 original size:22 final size:22
Alignment explanation
Indices: 165573--165641 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
165563 ATGCTGATTC
165573 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * *
165595 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTATAT-TG--GACTTA
165616 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
165638 AAGG
1 AAGG
165642 TGAAGGTGCC
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:165667 original size:49 final size:49
Alignment explanation
Indices: 165449--165735 Score: 318
Period size: 49 Copynumber: 5.8 Consensus size: 49
165439 GTGATAAAGA
* * * *
165449 TGCCAATATG-TCGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGG
1 TGCCAATATGCT-GATTCAAGGCCAGCTATATTGGACTTAAAGAT--G---AAGG
* * * *
165503 ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
165556 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
165599 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
165648 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
165697 TGCCAATATGGTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
165736 GAAGGGTTGC
Statistics
Matches: 205, Mismatches: 20, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
43 41 0.20
48 1 0.00
49 87 0.42
52 34 0.17
53 6 0.03
54 1 0.00
55 34 0.17
56 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
Found at i:165816 original size:33 final size:34
Alignment explanation
Indices: 165735--165838 Score: 192
Period size: 34 Copynumber: 3.1 Consensus size: 34
165725 TATTGGGCTT
165735 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
165769 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
165803 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
165837 AG
1 AG
165839 GGAGAAAGAT
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
33 26 0.38
34 43 0.62
ACGTcount: A:0.19, C:0.17, G:0.38, T:0.26
Consensus pattern (34 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
Found at i:165964 original size:37 final size:34
Alignment explanation
Indices: 165843--166136 Score: 330
Period size: 34 Copynumber: 8.8 Consensus size: 34
165833 AGGAAGGGAG
*
165843 AAAGA-TGCCACGGAGTTGTGGAC-TTAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAA--GAA
165877 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
* *
165911 AAA-AGTGCCACAGAGTTATGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA--GAA
165947 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA--GAA
*
165984 AAAGAGTGCCACAGAGTTGTGGGCTTTAAACAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AGAA
166019 AAAG-GTGCCACGGAGTTGTGGGCTTT-----AA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
166047 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAA
*
166082 GAAG-GTGCCACGGAGTTGTGGGCTTT----GAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
* *
166111 AAAGA-TGCCACTGACTTGTGGGCTTT
1 AAAGAGTGCCACGGAGTTGTGGGCTTT
166137 TGAAGGGTAA
Statistics
Matches: 234, Mismatches: 11, Indels: 35
0.84 0.04 0.12
Matches are distributed among these distances:
28 6 0.03
29 47 0.20
33 21 0.09
34 58 0.25
35 29 0.12
36 15 0.06
37 58 0.25
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.21
Consensus pattern (34 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAA
Found at i:166087 original size:63 final size:64
Alignment explanation
Indices: 165981--166136 Score: 246
Period size: 63 Copynumber: 2.5 Consensus size: 64
165971 TTTGAAAAGG
165981 GAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1 GAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
* *
166045 -AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAA-AGAAGAAGGTGCCACGGAGTTGTGGGCTTT
1 GAAAAAGAGTGCCACAGAGTTGTGGGCTTT-AAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
* *
166108 GAAAAAGA-TGCCACTGACTTGTGGGCTTT
1 GAAAAAGAGTGCCACAGAGTTGTGGGCTTT
166137 TGAAGGGTAA
Statistics
Matches: 86, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
63 76 0.88
64 10 0.12
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.23
Consensus pattern (64 bp):
GAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
Found at i:169499 original size:13 final size:13
Alignment explanation
Indices: 169481--169506 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
169471 ACACCAAAGT
169481 ATGTATCGATACA
1 ATGTATCGATACA
169494 ATGTATCGATACA
1 ATGTATCGATACA
169507 CAAAAAATAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:169504 original size:33 final size:34
Alignment explanation
Indices: 169462--169527 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
169452 TAGCCAAACT
* *
169462 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAATATGTATCGATACAA
169495 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACACAAAAAATATGTATCGATACA
169528 TTGGCTTGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.43
34 17 0.57
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (34 bp):
TGTATCGATACACAAAAAATATGTATCGATACAA
Found at i:175511 original size:13 final size:13
Alignment explanation
Indices: 175493--175518 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
175483 TTATGTTGAA
175493 ATGAATGATTTTG
1 ATGAATGATTTTG
175506 ATGAATGATTTTG
1 ATGAATGATTTTG
175519 TGTTTTTATT
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:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
ATGAATGATTTTG
Found at i:175696 original size:13 final size:13
Alignment explanation
Indices: 175678--175716 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
175668 ACATTTTTCT
175678 TTGTATCGATACA
1 TTGTATCGATACA
175691 TTGTATCGATACA
1 TTGTATCGATACA
*
175704 CTGTATCGATACA
1 TTGTATCGATACA
175717 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:178309 original size:13 final size:13
Alignment explanation
Indices: 178291--178316 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
178281 ACACCAAAGT
178291 ATGTATCGATACA
1 ATGTATCGATACA
178304 ATGTATCGATACA
1 ATGTATCGATACA
178317 CAAAAAATAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:178314 original size:33 final size:34
Alignment explanation
Indices: 178272--178337 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
178262 TAGCCAAACT
* *
178272 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAATATGTATCGATACAA
178305 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACACAAAAAATATGTATCGATACA
178338 TTGGCTTGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.43
34 17 0.57
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (34 bp):
TGTATCGATACACAAAAAATATGTATCGATACAA
Found at i:182413 original size:27 final size:27
Alignment explanation
Indices: 182373--183248 Score: 1095
Period size: 27 Copynumber: 31.9 Consensus size: 27
182363 TGGCATTTCT
* * *
182373 TTTTAAGTCTACAACTTCGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
182400 TTTTAAGTCCACAACTTCGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* ** *
182427 TTTTAAGTCCATAACTCTATGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
182454 TTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
182481 TTTTAAGTCCACAGCTCCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
182508 TTTTAAGTCCACAACTCTGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
182535 TTTTAAAGTCCACAACTCCATGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* *
182563 TTTTAAGTCTACAACTCCGTGGCACCT
1 TTTTAAGTCCACAACTCCGTGGCACCC
182590 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * **
182617 TTTAAAGTCCATAACTCCGTGGCACAT
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
182644 TTTTAAGTCCACAACTCCGCGACAGCCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCC
*
182672 ATTTTAATTCCACAACTCCGTGGCACCC
1 -TTTTAAGTCCACAACTCCGTGGCACCC
*
182700 TTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* **
182728 TTTTAAAGTCCACAACTCTGTGGCACAA
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
182756 TTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
182783 TTTTAAGTCCACAACTCCGTGACACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
182810 TTTTAAAGTCCACAACTCCGTGACACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
182838 TTTTAAAGTCCACAACTCTGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
** *
182866 TTTTAAAGTCCGTAACTCCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* * *
182894 TTTAAAGTCCATAACTCCGTGACACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
182921 TTTAAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
182948 TTTCAAAGTCCACAACTCCGTGGCACAC
1 TTT-TAAGTCCACAACTCCGTGGCACCC
* **
182976 TTTTAAAGTCTACAACTCTATGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* **
183004 TTTTAAGTCTACAACTTTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
**
183031 TTTTAAGTCCACAACTTTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
183058 TTTTAAGTCCACAACTCTGTGGTAGCCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCC
* *
183086 TTTTGAAGTCTACAACCCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* *
183114 TTTTAAAGTCCACAACTCTGTGGTACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
183142 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
183169 TTTTAAGTCCACAACTCCGTGGCAGCCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCC
*
183197 TTTTTAAGTCCACAAGTCCGTGGCACCC
1 -TTTTAAGTCCACAACTCCGTGGCACCC
* *
183225 TTTTAAGTCCACAAGTCAGTGGCA
1 TTTTAAGTCCACAACTCCGTGGCA
183249 TCATTTCAAA
Statistics
Matches: 758, Mismatches: 80, Indels: 22
0.88 0.09 0.03
Matches are distributed among these distances:
27 453 0.60
28 245 0.32
29 60 0.08
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.29
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCC
Found at i:182787 original size:248 final size:244
Alignment explanation
Indices: 182371--183248 Score: 1141
Period size: 248 Copynumber: 3.5 Consensus size: 244
182361 AATGGCATTT
* * * * * * *
182371 CTTTTTAAGTCTACAACTTCGTGGCAACCTTTTAAGTCCACAACTTCGTGGCAACCTTTTAAGTC
1 CTTTTAAAGTCCATAACTCCGTGGC-ACCTTTTAAGTCCACAACTCCGTGACACCCTTTTAAGTC
* ** * * * *
182436 CATAACTCTATGGCAACCTTTT-AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAGCTCCG
65 CACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTG
* *
182500 TGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAAGTCCACAACTCCATGGCACCCTT
130 TGGCA-CCTTTTAAGTCCACAACTCTGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTT
* *
182565 TTAAGTCTACAACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCACC
193 TTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
* * *
182616 C-TTTAAAGTCCATAACTCCGTGGCACATTTTTAAGTCCACAACTCCGCGACAGCCCATTTTAAT
1 CTTTTAAAGTCCATAACTCCGTGGCAC-CTTTTAAGTCCACAACTCCGTGACA-CCC-TTTTAAG
*
182680 TCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACT
63 TCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACT
* *
182745 CTGTGGCACAATTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGACACCC
127 CTGTGGCAC-CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* *
182810 TTTTAAAGTCCACAACTCCGTGACACCCTTTTAAAGTCCACAACTCTGTGGCACC
191 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
* * * *
182865 CTTTTAAAGTCCGTAACTCCGTGGCATCCTTTAAAGTCCATAACTCCGTGACACCCTTTAAAGTC
1 CTTTTAAAGTCCATAACTCCGTGGCA-CCTTTTAAGTCCACAACTCCGTGACACCCTTTTAAGTC
* * *
182930 CACAACTCCGTGGCACCCTTTCAAAGTCCACAACTCCGTGGCACACTTTTAAAGTCTACAACTCT
65 CACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCT
* * * **
182995 ATGGCACCCTTTTAAGTCTACAACTTTGTGGCACCCTTTTAAGTCCACAACTTTGTGGCACCCTT
129 GTGGCA-CCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTT
* * * * *
183060 TTAAGTCCACAACTCTGTGGTAGCCCTTTTGAAGTCTACAACCCCGTGGCACC
193 TTAAGTCCACAACTCCGTGGCA-CCCTTTTAAAGTCCACAACTCCGTGGCACC
* * * *
183113 CTTTTAAAGTCCACAACTCTGTGGTACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAAGTCCATAACTCCGTGGCA-CCTTTTAAGTCCACAACTCCGTGACACCCTTTTAAGTC
* * * *
183178 CACAACTCCGTGGCAGCCCTTTTTAAGTCCACAAGTCCGTGGCACCCTTTTAAGTCCACAAGTCA
65 CACAACTCCGTGGCA-CCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCT
183243 GTGGCA
129 GTGGCA
183249 TCATTTCAAA
Statistics
Matches: 552, Mismatches: 68, Indels: 23
0.86 0.11 0.04
Matches are distributed among these distances:
243 2 0.00
244 40 0.07
245 3 0.01
246 26 0.05
247 68 0.12
248 305 0.55
249 63 0.11
250 44 0.08
251 1 0.00
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.29
Consensus pattern (244 bp):
CTTTTAAAGTCCATAACTCCGTGGCACCTTTTAAGTCCACAACTCCGTGACACCCTTTTAAGTCC
ACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGT
GGCACCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTA
AGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
Found at i:182861 original size:138 final size:136
Alignment explanation
Indices: 182373--183266 Score: 1135
Period size: 138 Copynumber: 6.5 Consensus size: 136
182363 TGGCATTTCT
* * * * *
182373 TTTTAAGTCTACAACTTCGTGGCAACCTTTTAAGTCCACAACTTCGTGGCAACCTTTT-AAGTCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCC
* * * * *
182437 ATAACTCTATGGCAACCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAGCTCCGTG
66 ACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTG
*
182502 GCATCC
131 GCACCC
* * *
182508 TTTTAAGTCCACAACTCTGTGGCATCCTTTTAAAGTCCACAACTCCATGGCACCCTTTT-AAGTC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
* * * * *
182572 TACAACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCATAACTCCGT
65 CACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
**
182637 GGCACAT
130 GGCACCC
* * *
182644 TTTTAAGTCCACAACTCCGCGACAGCCCATTTTAATTCCACAACTCCGTGGCACCCTTTTAAAGT
1 TTTTAAGTCCACAACTCCGTGGCA-CCC-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGT
* * * ** *
182709 CCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCTGTGGCACAATTTTAAGTCCACAACTCT
64 CCACAACTCTGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCC
182774 GTGGCACCC
128 GTGGCACCC
* *
182783 TTTTAAGTCCACAACTCCGTGACACCCTTTTAAAGTCCACAACTCCGTGACACCCTTTTAAAGTC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
** * * *
182848 CACAACTCTGTGGCACCCTTTTAAAGTCCGTAACTCCGTGGCATCCTTTAAAGTCCATAACTCCG
65 CACAACTCTGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
*
182913 TGACACCC
129 TGGCACCC
* * *
182921 TTTAAAGTCCACAACTCCGTGGCACCCTTTCAAAGTCCACAACTCCGTGGCACACTTTTAAAGTC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
* * * ** **
182986 TACAACTCTATGGCACCCTTTTAAGTCTACAACTTTGTGGCACCCTTTTAAGTCCACAACTTTGT
65 CACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
183051 GGCACCC
130 GGCACCC
* * * *
183058 TTTTAAGTCCACAACTCTGTGGTAGCCCTTTTGAAGTCTACAACCCCGTGGCACCCTTTTAAAGT
1 TTTTAAGTCCACAACTCCGTGGCA-CCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGT
*
183123 CCACAACTCTGTGGTACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
64 CCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
183188 TGGCAGCCC
129 TGGCA-CCC
* * * * * * *
183197 TTTTTAAGTCCACAAGTCCGTGGCACCCTTTTAAGTCCACAAGTCAGTGGCATCATTTCAAAGCC
1 -TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
183262 CACAA
65 CACAA
183267 GTTAGTGGCA
Statistics
Matches: 652, Mismatches: 96, Indels: 19
0.85 0.13 0.02
Matches are distributed among these distances:
135 27 0.04
136 109 0.17
137 91 0.14
138 329 0.50
139 75 0.12
140 21 0.03
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (136 bp):
TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCC
ACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTG
GCACCC
Found at i:183349 original size:28 final size:28
Alignment explanation
Indices: 183105--183655 Score: 482
Period size: 28 Copynumber: 19.7 Consensus size: 28
183095 CTACAACCCC
* * *
183105 GTGGCACCCTTTT-AAAGTCCACAACTCT
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
* * * *
183133 GTGGTACCCTTTT--AAGTCCACAACTCC
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
* * *
183160 GTGGCACCCTTTT--AAGTCCACAACTCC
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
* * *
183187 GTGGCAGCCCTTTT-TAAGTCCACAAGTCC
1 GTGGCA--CCTTTTCAAAGCCCACAAGTCA
*
183216 GTGGCACCCTTTT--AAGTCCACAAGTCA
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
* * *
183243 GTGGCATCATTTCAAAGCCCACAAGTTA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* * *
183271 GTGGCATCATTTCAAAGCTCACAAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
183299 GTGGCATCCTTTTCAAAGCCCACGAA-TCA
1 GTGGCA-CCTTTTCAAAGCCCAC-AAGTCA
* * *
183328 GTGGCACCCTTTCAAAACCCACAAGTTA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* * *
183356 GTGGCATCTTTTCCAAGCTCACAAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* * *
183384 GTGGCACATTTTCATAGACCACAAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
*
183412 GTGGCATCC-TTTCAAAGCCCACAAGTTA
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
* *
183440 GTGGCATCTCTTCAAAGCCCACAAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
*
183468 GTGGCATCATTTT-AAAGCCCACAAGTCA
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
183496 GTGGCATCCTTTTCAAAGCCCACGAA-TCA
1 GTGGCA-CCTTTTCAAAGCCCAC-AAGTCA
* * * *
183525 GTGGCACCCTTTCATAGCCCACAAATTA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
*
183553 GTGGCACCTTTTCAAAGCCCACGAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* *
183581 GTGGCATCATTTCAAAGCCCACAAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* * *
183609 ATGGCATCTCTTT-AAAGCCCACAAGTTA
1 GTGGCACCT-TTTCAAAGCCCACAAGTCA
*
183637 GTGGCATCC-TTCCAAAGCC
1 GTGGCA-CCTTTTCAAAGCC
183656 TAAAAAGGGG
Statistics
Matches: 450, Mismatches: 57, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.01
27 71 0.16
28 304 0.68
29 67 0.15
30 4 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (28 bp):
GTGGCACCTTTTCAAAGCCCACAAGTCA
Found at i:183582 original size:197 final size:196
Alignment explanation
Indices: 183206--183655 Score: 672
Period size: 197 Copynumber: 2.3 Consensus size: 196
183196 CTTTTTAAGT
* * * * * *
183206 CCACAAGTCCGTGGCACCCTTTTAAGTCCACAAGTCAGTGGCATCAT-TTCAAAGCCCACAAGTT
1 CCACAAGTCAGTGGCATCCTTTAAAGCCCACAAGTTAGTGGCATC-TCTTCAAAGCCCACAAGTC
*
183270 AGTGGCATCATTTCAAAGCTCACAAGTCAGTGGCATCCTTTTCAAAGCCCACGAATCAGTGGCAC
65 AGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACGAATCAGTGGCAC
* * * * *
183335 CCTTTCAAAACCCACAAGTTAGTGGCATCTTTTCCAAGCTCACAAGTCAGTGGCA-CATTTTCAT
130 CCTTTCAAAACCCACAAATTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCA-TTTCAA
183399 AGA
194 AGA
183402 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCTCTTCAAAGCCCACAAGTC
1 CCACAAGTCAGTGGCATCCTTT-AAAGCCCACAAGTTAGTGGCATCTCTTCAAAGCCCACAAGTC
*
183467 AGTGGCATCATTTTAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACGAATCAGTGGCAC
65 AGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACGAATCAGTGGCAC
* * *
183532 CCTTTCATAGCCCACAAATTAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCATCATTTCAAA
130 CCTTTCAAAACCCACAAATTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAA
*
183597 GC
195 GA
*
183599 CCACAAGTCAATGGCATCTCTTTAAAGCCCACAAGTTAGTGGCATC-CTTCCAAAGCC
1 CCACAAGTCAGTGGCATC-CTTTAAAGCCCACAAGTTAGTGGCATCTCTT-CAAAGCC
183656 TAAAAAGGGG
Statistics
Matches: 231, Mismatches: 18, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
196 24 0.10
197 201 0.87
198 6 0.03
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (196 bp):
CCACAAGTCAGTGGCATCCTTTAAAGCCCACAAGTTAGTGGCATCTCTTCAAAGCCCACAAGTCA
GTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACGAATCAGTGGCACC
CTTTCAAAACCCACAAATTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAG
A
Found at i:184297 original size:20 final size:20
Alignment explanation
Indices: 184272--184388 Score: 108
Period size: 20 Copynumber: 5.7 Consensus size: 20
184262 TTTTACCTGG
* *
184272 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATTGTTCA
* * * * *
184292 ATGTATCAATATATGGATGA
1 ATGTATCGATACATTGTTCA
*
184312 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTGTTCA
* *
184332 ATGTATCGATACATTCTACCCA
1 ATGTATCGATACATTGT--TCA
*
184354 GATGTATCGATACATTGTTAA
1 -ATGTATCGATACATTGTTCA
184375 ATGTATCGATACAT
1 ATGTATCGATACAT
184389 CTAGTTAAAA
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
20 60 0.76
21 1 0.01
22 2 0.03
23 16 0.20
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTTCA
Found at i:185247 original size:22 final size:22
Alignment explanation
Indices: 185222--185276 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
185212 ACGCCTTTGA
185222 CCATGCATTTTTTTCCTATGTT
1 CCATGCATTTTTTTCCTATGTT
185244 CCATGCATTTTTTTCCTATGTT
1 CCATGCATTTTTTTCCTATGTT
185266 CCATGCATTTT
1 CCATGCATTTT
185277 AACATGTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.15, C:0.24, G:0.09, T:0.53
Consensus pattern (22 bp):
CCATGCATTTTTTTCCTATGTT
Found at i:189346 original size:20 final size:19
Alignment explanation
Indices: 189321--189358 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
189311 TAATAAATTT
189321 AATAATAAAGTAAAAATAAG
1 AATAAT-AAGTAAAAATAAG
*
189341 AATAATAATTAAAAATAA
1 AATAATAAGTAAAAATAA
189359 ATAAGAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (19 bp):
AATAATAAGTAAAAATAAG
Found at i:189622 original size:24 final size:24
Alignment explanation
Indices: 189595--189715 Score: 147
Period size: 24 Copynumber: 5.1 Consensus size: 24
189585 AATATAAGTC
* *
189595 AAATATAAATAAAAAATTATTATA
1 AAATATAAAGAAACAATTATTATA
* * *
189619 AAATATAAAGAAATAATTGTTATC
1 AAATATAAAGAAACAATTATTATA
*
189643 AAATATAAATAAACAATTATTATA
1 AAATATAAAGAAACAATTATTATA
** *
189667 AAATAT-AA-AAATGATTGTTATA
1 AAATATAAAGAAACAATTATTATA
189689 AAATATAAAGAAACAATTATTATA
1 AAATATAAAGAAACAATTATTATA
189713 AAA
1 AAA
189716 ATTCCAATCT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
22 17 0.21
23 4 0.05
24 60 0.74
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.32
Consensus pattern (24 bp):
AAATATAAAGAAACAATTATTATA
Found at i:189703 original size:46 final size:48
Alignment explanation
Indices: 189595--189715 Score: 192
Period size: 46 Copynumber: 2.6 Consensus size: 48
189585 AATATAAGTC
* *
189595 AAATATAAATAAAAAATTATTATAAAATATAAAGAAATAATTGTTATC
1 AAATATAAATAAACAATTATTATAAAATATAAAGAAATAATTGTTATA
*
189643 AAATATAAATAAACAATTATTATAAAATAT-AA-AAATGATTGTTATA
1 AAATATAAATAAACAATTATTATAAAATATAAAGAAATAATTGTTATA
*
189689 AAATATAAAGAAACAATTATTATAAAA
1 AAATATAAATAAACAATTATTATAAAA
189716 ATTCCAATCT
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
46 38 0.55
47 2 0.03
48 29 0.42
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.32
Consensus pattern (48 bp):
AAATATAAATAAACAATTATTATAAAATATAAAGAAATAATTGTTATA
Found at i:191117 original size:20 final size:19
Alignment explanation
Indices: 191062--191117 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
191052 AAAACCCTTA
*
191062 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
191082 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
191102 AATGTATCGATACATG
1 AAAGTATCGATACATG
191118 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:191193 original size:19 final size:18
Alignment explanation
Indices: 191169--191232 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 18
191159 TAGCCAAACT
191169 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAA-A
191188 TGTATCGAT--AC---AA
1 TGTATCGATACACAAAAA
191201 TGTATCGATACACAAAAAA
1 TGTATCGATACAC-AAAAA
191220 TTGTATCGATACA
1 -TGTATCGATACA
191233 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 11 0.29
20 12 0.32
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (18 bp):
TGTATCGATACACAAAAA
Found at i:191205 original size:13 final size:13
Alignment explanation
Indices: 191187--191212 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
191177 TACACAAAAT
191187 ATGTATCGATACA
1 ATGTATCGATACA
191200 ATGTATCGATACA
1 ATGTATCGATACA
191213 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:191210 original size:32 final size:33
Alignment explanation
Indices: 191169--191232 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
191159 TAGCCAAACT
*
191169 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
191201 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
191233 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:197412 original size:13 final size:13
Alignment explanation
Indices: 197394--197431 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
197384 CATTTTTCTT
197394 TGTATCGATACAA
1 TGTATCGATACAA
*
197407 TGTATCGATACAC
1 TGTATCGATACAA
197420 TGTATCGATACA
1 TGTATCGATACA
197432 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:197586 original size:20 final size:20
Alignment explanation
Indices: 197543--197588 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
197533 AAATCTTTTG
197543 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
197564 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
197584 CAAAA
1 CAAAA
197589 CCAACATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:199208 original size:12 final size:12
Alignment explanation
Indices: 199193--199217 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
199183 AAGGGGGAGA
199193 GAAAGTAGATAT
1 GAAAGTAGATAT
199205 GAAAGTAGATAT
1 GAAAGTAGATAT
199217 G
1 G
199218 TGTGCAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (12 bp):
GAAAGTAGATAT
Found at i:199920 original size:20 final size:19
Alignment explanation
Indices: 199865--199920 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
199855 AAAACCCTTA
*
199865 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
199885 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
199905 AATGTATCGATACATG
1 AAAGTATCGATACATG
199921 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:199996 original size:19 final size:18
Alignment explanation
Indices: 199972--200035 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 18
199962 TAGCCAAACT
199972 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAA-A
199991 TGTATCGAT--AC---AA
1 TGTATCGATACACAAAAA
200004 TGTATCGATACACAAAAAA
1 TGTATCGATACAC-AAAAA
200023 TTGTATCGATACA
1 -TGTATCGATACA
200036 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 11 0.29
20 12 0.32
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (18 bp):
TGTATCGATACACAAAAA
Found at i:200008 original size:13 final size:13
Alignment explanation
Indices: 199990--200015 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
199980 TACACAAAAT
199990 ATGTATCGATACA
1 ATGTATCGATACA
200003 ATGTATCGATACA
1 ATGTATCGATACA
200016 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:200013 original size:32 final size:33
Alignment explanation
Indices: 199972--200035 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
199962 TAGCCAAACT
*
199972 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
200004 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
200036 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:205185 original size:6 final size:6
Alignment explanation
Indices: 205154--205184 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
205144 AAAAAAAAAA
*
205154 AGGGGG AGGGGG AGGGGG AGGGGG ATGGGG A
1 AGGGGG AGGGGG AGGGGG AGGGGG AGGGGG A
205185 TAGGGATAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.00, G:0.77, T:0.03
Consensus pattern (6 bp):
AGGGGG
Found at i:205514 original size:4 final size:4
Alignment explanation
Indices: 205505--205539 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
205495 ATCAAATCAA
205505 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAA
205540 AAAGTATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (4 bp):
TAAT
Found at i:206695 original size:3 final size:3
Alignment explanation
Indices: 206680--206719 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
206670 TCCATGGACA
* *
206680 CTC CTC CTG CTC CTC CTC CTC CTC CTC CTT CTC CTC CTC C
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC C
206720 GTGGGAATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.62, G:0.03, T:0.35
Consensus pattern (3 bp):
CTC
Found at i:210482 original size:33 final size:33
Alignment explanation
Indices: 210445--210507 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
210435 TTAAAAATAC
210445 ATTTTATTATTTAAAAT-ATATTAATATATTAAA
1 ATTTTATT-TTTAAAATAATATTAATATATTAAA
* * *
210478 ATTTTATTTTTATATTAATATTTATATATT
1 ATTTTATTTTTAAAATAATATTAATATATT
210508 TTATTATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 6 0.23
33 20 0.77
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (33 bp):
ATTTTATTTTTAAAATAATATTAATATATTAAA
Found at i:210491 original size:27 final size:27
Alignment explanation
Indices: 210461--210512 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
210451 TTATTTAAAA
210461 TATATTAATATATTA-AAATTTTATTTT
1 TATATTAATAT-TTATAAATTTTATTTT
*
210488 TATATTAATATTTATATATTTTATT
1 TATATTAATATTTATAAATTTTATT
210513 ATTAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TATATTAATATTTATAAATTTTATTTT
Found at i:210512 original size:19 final size:19
Alignment explanation
Indices: 210469--210513 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
210459 AATATATTAA
*
210469 TATATTAAAATTTTATTTT
1 TATATTAAAATTTTATATT
*
210488 TATATTAATATTTATATATT
1 TATATTAAAATTT-TATATT
210508 T-TATTA
1 TATATTA
210514 TTAAATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TATATTAAAATTTTATATT
Found at i:213635 original size:2 final size:2
Alignment explanation
Indices: 213628--213662 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
213618 ATATTACATT
213628 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
213663 GTAAACACAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:214045 original size:15 final size:15
Alignment explanation
Indices: 214025--214055 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
214015 GTTATCCCTA
214025 ATTCAATATAACTGT
1 ATTCAATATAACTGT
214040 ATTCAATATAACTGT
1 ATTCAATATAACTGT
214055 A
1 A
214056 GAATTAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (15 bp):
ATTCAATATAACTGT
Found at i:214579 original size:20 final size:19
Alignment explanation
Indices: 214545--214587 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
214535 TAAATTAGTT
214545 AAAAATTTTAAAAATATTATA
1 AAAAATTTTAAAAAT-TT-TA
*
214566 AAAAATTTT-TAAATTTTA
1 AAAAATTTTAAAAATTTTA
214584 AAAA
1 AAAA
214588 TGAATGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 2 0.10
20 4 0.19
21 9 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATTTTAAAAATTTTA
Found at i:215220 original size:19 final size:19
Alignment explanation
Indices: 215193--215231 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
215183 TATATTAGTT
215193 ATTTAAATTAATTAT-TTTA
1 ATTTAAATT-ATTATATTTA
*
215212 ATTTTAATTATTATATTTA
1 ATTTAAATTATTATATTTA
215231 A
1 A
215232 AAATAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTAAATTATTATATTTA
Found at i:218940 original size:3 final size:3
Alignment explanation
Indices: 218932--218962 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
218922 AGAGAGAGAG
218932 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
218963 AAAGTAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:219676 original size:9 final size:9
Alignment explanation
Indices: 219621--219676 Score: 55
Period size: 8 Copynumber: 6.4 Consensus size: 9
219611 ATAATTAAAT
219621 AATATTTTA
1 AATATTTTA
219630 AATTATTTTA
1 AA-TATTTTA
* *
219640 AA-ATATAA
1 AATATTTTA
219648 AATA-TTTA
1 AATATTTTA
*
219656 ATTATTTT-
1 AATATTTTA
219664 AATATTTTA
1 AATATTTTA
219673 AATA
1 AATA
219677 AAAATTTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
8 18 0.49
9 10 0.27
10 9 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
AATATTTTA
Found at i:219762 original size:21 final size:21
Alignment explanation
Indices: 219705--219766 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
219695 TTTAAAAATA
*
219705 ATAT-TTATAATTAA-ATATT
1 ATATATTATAAATAATATATT
*
219724 ATATATTTAAAAAAATAATATATT
1 ATATA-TT--ATAAATAATATATT
219748 ATATATTATAAATAATATA
1 ATATATTATAAATAATATA
219767 AAATTACTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
19 4 0.11
21 13 0.37
23 8 0.23
24 10 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATATTATAAATAATATATT
Found at i:219772 original size:24 final size:24
Alignment explanation
Indices: 219711--219772 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
219701 AATAATATTT
219711 ATAAT-TAAATATTATATATTTAA
1 ATAATATAAATATTATATATTTAA
*
219734 A-AAAATAATATATTATATATTATAA
1 ATAATATAA-ATATTATATATT-TAA
219759 ATAATATAAA-ATTA
1 ATAATATAAATATTA
219773 CTTATTAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
22 2 0.06
23 4 0.12
24 16 0.48
25 5 0.15
26 6 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
ATAATATAAATATTATATATTTAA
Found at i:219777 original size:21 final size:20
Alignment explanation
Indices: 219736--219794 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
219726 ATATTTAAAA
**
219736 AAATAATATATTATATATTAT
1 AAATAATATAAAAT-TATTAT
219757 AAATAATATAAAATTACTTAT
1 AAATAATATAAAATTA-TTAT
*
219778 TAATAACT-TAAAATTAT
1 AAATAA-TATAAAATTAT
219795 ATTAAATCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 3 0.09
21 29 0.88
22 1 0.03
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATAATATAAAATTATTAT
Found at i:219873 original size:37 final size:38
Alignment explanation
Indices: 219830--219908 Score: 92
Period size: 36 Copynumber: 2.1 Consensus size: 38
219820 AATTTAATAT
* * *
219830 AATATTTTAACATATAATTTTA-ATAATTTAA-ATATTA
1 AATATTTTAACA-ATAATATAACATAATTAAATATATTA
*
219867 AATA-TTTATCAATAATATAACATAATTAAATATATTA
1 AATATTTTAACAATAATATAACATAATTAAATATATTA
219904 AATAT
1 AATAT
219909 ATAATTACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
35 7 0.20
36 14 0.40
37 14 0.40
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (38 bp):
AATATTTTAACAATAATATAACATAATTAAATATATTA
Found at i:219960 original size:27 final size:28
Alignment explanation
Indices: 219905--219982 Score: 67
Period size: 27 Copynumber: 2.9 Consensus size: 28
219895 AATATATTAA
* *
219905 ATATATAATTACTT-TTTTCCCTC-CACT
1 ATATAT-ATTTCTTATTTTCTCTCTCACT
219932 ATATATATTTCTTATTTTCTCTCTC-CT
1 ATATATATTTCTTATTTTCTCTCTCACT
*
219959 AT-T-TGTTTCCTTATCTTTCTCTCT
1 ATATATATTT-CTTAT-TTTCTCTCT
219983 AGCTCACTCT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
25 4 0.09
26 12 0.27
27 27 0.61
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.01, T:0.56
Consensus pattern (28 bp):
ATATATATTTCTTATTTTCTCTCTCACT
Found at i:220011 original size:17 final size:18
Alignment explanation
Indices: 219989--220023 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
219979 CTCTAGCTCA
*
219989 CTCTCTTTTC-TGTTCAT
1 CTCTCTCTTCATGTTCAT
220006 CTCTCTCTTCATGTTCAT
1 CTCTCTCTTCATGTTCAT
220024 ATAGCAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.09, C:0.31, G:0.06, T:0.54
Consensus pattern (18 bp):
CTCTCTCTTCATGTTCAT
Found at i:220944 original size:20 final size:20
Alignment explanation
Indices: 220904--220944 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
220894 ATTTTGGATA
* **
220904 AATTTAATTTAATTTTTATT
1 AATTTAATTTAATGTAAATT
220924 AATTTAATTTAATGTAAATT
1 AATTTAATTTAATGTAAATT
220944 A
1 A
220945 TTTTGTTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
AATTTAATTTAATGTAAATT
Found at i:220964 original size:24 final size:24
Alignment explanation
Indices: 220927--220973 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
220917 TTTTATTAAT
*
220927 TTAATTTAATGTAAATT-ATTTTG
1 TTAATTTAAGGTAAATTAATTTTG
*
220950 TTAATATTAAGGTAATTTAATTTT
1 TTAAT-TTAAGGTAAATTAATTTT
220974 AAGTTTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 10 0.50
25 5 0.25
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (24 bp):
TTAATTTAAGGTAAATTAATTTTG
Found at i:222893 original size:27 final size:27
Alignment explanation
Indices: 222838--222909 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 27
222828 GATATAAAGC
222838 CGGGGTTGGAGTATTCCCTCGGAAATAA
1 CGGGGTTGGAGTA-TCCCTCGGAAATAA
*
222866 CGGGGTTGGAGTATCCCT--GATGATTAA
1 CGGGGTTGGAGTATCCCTCGGA--AATAA
222893 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
222910 CGATTGTGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
25 2 0.05
27 26 0.63
28 13 0.32
ACGTcount: A:0.21, C:0.18, G:0.35, T:0.26
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCTCGGAAATAA
Found at i:222975 original size:52 final size:51
Alignment explanation
Indices: 222897--223278 Score: 274
Period size: 52 Copynumber: 7.4 Consensus size: 51
222887 GATTAACGGG
* *
222897 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTG-TTTTGGAAATAAAACCGGA
* * *
222949 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTCGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAACCGGA
* * *
223000 GTTGGAGTATCCCCGATTGTGG--AATTAGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAACCGGA
* *** * * *
223049 GTTGGAGTATCCCCGATTAT-GAGAAATCAATAATTTTGGAAATAAAGCCGGG
1 GTTGGAGTATCCCCGATTGTGGA-AAATTGGT-GTTTTGGAAATAAAACCGGA
* * ** * *** * *
223101 GTTGGAGTATCCCC--TCGGAGGTAACGGGGTTGGAGTATCCCCG-ATTAAATAAC-GA
1 GTTGGAGTATCCCCGAT-TGTGG-AA---AATTGGTGT-T-TTGGAAATAAA-ACCGGA
* * * *
223156 GGTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTTGGAAATAAAATCGGA
1 -GTTGGAGTATCCCCGATTGTGGAAAATTGGTG-TTTTGGAAATAAAACCGGA
* * ** * *
223209 ATTTGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT-GTGGAAAATTGGTGTTTTGGAAATAAAACCGGA
223261 GTTGGAGTATCCCCGATT
1 GTTGGAGTATCCCCGATT
223279 ATGAACAATT
Statistics
Matches: 253, Mismatches: 57, Indels: 40
0.72 0.16 0.11
Matches are distributed among these distances:
48 1 0.00
49 40 0.16
50 1 0.00
51 44 0.17
52 114 0.45
53 23 0.09
54 2 0.01
55 8 0.03
56 17 0.07
57 2 0.01
58 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAACCGGA
Found at i:223012 original size:51 final size:50
Alignment explanation
Indices: 222897--223066 Score: 236
Period size: 49 Copynumber: 3.4 Consensus size: 50
222887 GATTAACGGG
* *
222897 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTG--TTTGAAAATAAAATCGGA
222949 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTCGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTT-GAAAATAAAATCGGA
* * * *
223000 GTTGGAGTATCCCCGATTGTGG--AATTAGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTGA-AAATAAAATCGGA
223049 GTTGGAGTATCCCCGATT
1 GTTGGAGTATCCCCGATT
223067 ATGAGAAATC
Statistics
Matches: 110, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
48 1 0.01
49 39 0.35
50 3 0.03
51 36 0.33
52 31 0.28
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.31
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTGAAAATAAAATCGGA
Found at i:223196 original size:260 final size:259
Alignment explanation
Indices: 222788--223278 Score: 743
Period size: 260 Copynumber: 1.9 Consensus size: 259
222778 GAAATAACAA
* * *
222788 GGTTGGAGTACCCCGATTATGAAAAAAAATAATATTTTTAGATATAAAGCCGGGGTTGGAGTATT
1 GGTTGGAGTACCCCGATTATG--AAAAAATAATAATTTTAGAAATAAAGCCGGGGTTGGAGTATC
* * * *
222853 CCCTCGGAAATAACGGGGTTGGAGTATCCCTGATGATTAACGGGGTTGGAGTATCCCCGATTGTG
64 CCCTCGGAAATAACGGGGTTGGAGTATCCCCGATAAATAACGAGGTTGGAGTATCCCCGATTGTG
* * **
222918 AAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATT-GTGGAAAATTGGTGT
129 AAAAATTAGTGTTTTTGGAAATAAAATCGGAATTGGAGTATCCCCGATTAAAGGAAAATTGGTGT
*
222982 TTCGAAAATAAAATCGGAGTTGGAGTATCCCCGATTGTGGAATTAGTGTTTTAGAAATAAAACCG
194 TTCGAAAATAAAACCGGAGTTGGAGTATCCCCGATTGTGGAATTAGTGTTTTAGAAATAAAACCG
223047 G
259 G
* *
223048 GGTTGGAGTATCCCCGATTATG-AGAAATCAATAATTTTGGAAATAAAGCCGGGGTTGGAGTATC
1 GGTTGGAGTA-CCCCGATTATGAAAAAAT-AATAATTTTAGAAATAAAGCCGGGGTTGGAGTATC
** *
223112 CCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATTAAATAACGAGGTTGGAGTATCCTCGATTGT
64 CCCTCGGAAATAACGGGGTTGGAGTATCCCCGA-TAAATAACGAGGTTGGAGTATCCCCGATTGT
*
223177 GAAAAATTAGTGTTTTTGGAAATAAAATCGGAATTTGAGTATCCCCGATTAAAGGAAAATTGGTG
128 GAAAAATTAGTGTTTTTGGAAATAAAATCGGAATTGGAGTATCCCCGATTAAAGGAAAATTGGTG
* *
223242 TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATT
193 TTTCGAAAATAAAACCGGAGTTGGAGTATCCCCGATT
223279 ATGAACAATT
Statistics
Matches: 207, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
258 5 0.02
259 61 0.29
260 84 0.41
261 57 0.28
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (259 bp):
GGTTGGAGTACCCCGATTATGAAAAAATAATAATTTTAGAAATAAAGCCGGGGTTGGAGTATCCC
CTCGGAAATAACGGGGTTGGAGTATCCCCGATAAATAACGAGGTTGGAGTATCCCCGATTGTGAA
AAATTAGTGTTTTTGGAAATAAAATCGGAATTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTT
CGAAAATAAAACCGGAGTTGGAGTATCCCCGATTGTGGAATTAGTGTTTTAGAAATAAAACCGG
Found at i:225660 original size:13 final size:13
Alignment explanation
Indices: 225642--225667 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
225632 ACAAAGATCG
225642 ATGTATCGATACA
1 ATGTATCGATACA
225655 ATGTATCGATACA
1 ATGTATCGATACA
225668 TTTCCTTAAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:225678 original size:21 final size:21
Alignment explanation
Indices: 225654--225695 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
225644 GTATCGATAC
225654 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
225675 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
225696 GGCAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:225748 original size:19 final size:19
Alignment explanation
Indices: 225720--225769 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
225710 AGCGATACAT
*
225720 TGTATTGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
225739 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
225758 TGTATCGATACA
1 TGTATCGATACA
225770 TTTACGGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:226690 original size:61 final size:60
Alignment explanation
Indices: 226602--227614 Score: 1180
Period size: 61 Copynumber: 17.4 Consensus size: 60
226592 ATAAAGTGTA
* * **
226602 TCCTGCTCTTTGATGACT-AAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAGGCG
* ** **
226663 TCCTGCTTTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGGAAATACG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAGGCG
** **
226724 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAA-GTA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-GAAAGGCG
* *
226785 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-----GAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGCG
* *
226840 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTGGTGTGGGCTTT-----GAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGCG
226895 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----GAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGCG
*
226950 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTGGTGTGGGCTTT-----GAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGCG
227005 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAGGCG
** *
227066 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAA-GCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-GAAAGGCG
*
227127 TCCTGCTCTTTGAGGACTGGAAAATGCCA-C-A-TTGTGTGAGCTTT-----GAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGCG
*
227179 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTGGTGTGGGCTTT-----GAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGCG
* **
227234 TCCTGTTCTTTGAGGACTGGAAAATGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAGGCG
** * * * *
227295 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCCTTGCAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAGGCG
227356 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAGGCG
* * * * *
227417 TCCTGCTCCTTGAGGACTGAAAAATG-CACCAACTCGGGTGGGCTTTGAAAAGGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAGGCG
* * *
227477 TCCTGCTCTTTGAGGACT--AAAAGTGCCACCAGCTTGTGTGGACTTT---A--AAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGCG
* * * * *
227531 TCCTACACTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG-AAAGGCG
227592 TCCTGCTCTTTGAGGACT-GAAAA
1 TCCTGCTCTTTGAGGACTGGAAAA
227615 GTGGAAGAAG
Statistics
Matches: 844, Mismatches: 78, Indels: 61
0.86 0.08 0.06
Matches are distributed among these distances:
51 4 0.00
52 31 0.04
53 1 0.00
54 26 0.03
55 290 0.34
56 3 0.00
58 17 0.02
59 3 0.00
60 68 0.08
61 391 0.46
62 10 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGCG
Found at i:227027 original size:27 final size:27
Alignment explanation
Indices: 226887--226972 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
226877 TGTGGGCTTT
226887 GAAAGGCGTCCTGCTCTTTGAGGACTG
1 GAAAGGCGTCCTGCTCTTTGAGGACTG
* ** ** * * * *
226914 GAAAATGCCACCAACT-TGTGTGGGCTTT
1 G-AAAGGCGTCCTGCTCTTTGAGGAC-TG
226942 GAAAGGCGTCCTGCTCTTTGAGGACTG
1 GAAAGGCGTCCTGCTCTTTGAGGACTG
226969 GAAA
1 GAAA
226973 ATGCCACCAA
Statistics
Matches: 38, Mismatches: 18, Indels: 6
0.61 0.29 0.10
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (27 bp):
GAAAGGCGTCCTGCTCTTTGAGGACTG
Found at i:227217 original size:229 final size:226
Alignment explanation
Indices: 226601--227614 Score: 1207
Period size: 229 Copynumber: 4.4 Consensus size: 226
226591 AATAAAGTGT
* ** ** *
226601 ATCCTGCTCTTTGATGACTAAAAAGTGCCACCAACTCATGTGGGCTTTGAAA-AGGAAAGGCGTC
1 ATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGA-GAAA-GCATC
* **
226665 CTGCTTTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGGAAATACGTCCTGC
64 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGG-----CGTCCTGC
** * *
226730 TCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGTATCCTGCTCTT
123 TCTTTGAGGACTGGAAAATGCCACCAACTGGTGTGGGCTTTG-AAAG-G--CG--TCCTGCTCTT
*
226795 TGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-GAAAGGC
182 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAGAAAGGC
* * * *
226839 ATCCTACTCTTTGAGGACTGGAAAATGCCACCAACTGGTGTGGGCTTTG-AA-AG---GCGTCCT
1 ATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAGAAAGCATCCT
226899 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAG
66 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAG
226964 GACTGGAAAATGCCACCAACTGGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
131 GACTGGAAAATGCCACCAACTGGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
227029 TGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAGGC
196 TGCCACCAACTTGTGTGGGCTTT----A-GAAAGGC
* *
227065 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCC
1 ATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAGAGAAAGCATCC
*
227130 TGCTCTTTGAGGACTGGAAAATGCCA-C-A-TTGTGTGAGCTTTGAAAGGCGTCCTGCTCTTTGA
65 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
*
227192 GGACTGGAAAATGCCACCAACTGGTGTGGGCTTTGAAAGGCGTCCTGTTCTTTGAGGACTGGAAA
130 GGACTGGAAAATGCCACCAACTGGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAA
**
227257 ATGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGGC
195 ATGCCACCAACTTGTGTGGGCTTT----A-GAAAGGC
* * * *
227294 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCCTTGCAAAGAAAAAGCATCC
1 ATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAGAGAAAGCATCC
227359 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAGGCGTCCTGCT
65 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT------GAAAGGCGTCCTGCT
* * *
227424 CCTTGAGGACTGAAAAATG-CACCAACTCGG-GTGGGCTTTGAAAAGGAAAGGTGTCCTGCTCTT
124 CTTTGAGGACTGGAAAATGCCACCAACT-GGTGTGGGCTTT------GAAAGGCGTCCTGCTCTT
* *
227487 TGAGGACT--AAAAGTGCCACCAGCTTGTGTGGACTTTA-AAAGGC
182 TGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAGAAAGGC
* * *
227530 ATCCTACACTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAG-GAAAAGGCATC
1 ATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAG-AAA-GCATC
227594 CTGCTCTTTGAGGACT-GAAAA
64 CTGCTCTTTGAGGACTGGAAAA
227615 GTGGAAGAAG
Statistics
Matches: 702, Mismatches: 43, Indels: 65
0.87 0.05 0.08
Matches are distributed among these distances:
220 46 0.07
222 1 0.00
224 1 0.00
225 4 0.01
226 98 0.14
228 2 0.00
229 223 0.32
230 2 0.00
231 7 0.01
232 91 0.13
235 12 0.02
236 71 0.10
237 20 0.03
238 77 0.11
241 4 0.01
242 19 0.03
243 24 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (226 bp):
ATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAGAAAGCATCCT
GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAG
GACTGGAAAATGCCACCAACTGGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
TGCCACCAACTTGTGTGGGCTTTAGAAAGGC
Found at i:228590 original size:1 final size:1
Alignment explanation
Indices: 228584--228655 Score: 63
Period size: 1 Copynumber: 72.0 Consensus size: 1
228574 CAGATTCTTC
* * * * * * * * *
228584 TTTTTTTTTCTTTTTTTGTGTTTTTTTGTTTTTTTTTTGTTTTTTTGTTGTTTTTTGTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
228649 TTTTTTT
1 TTTTTTT
228656 CAAAAAAGAA
Statistics
Matches: 53, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.00, C:0.01, G:0.11, T:0.88
Consensus pattern (1 bp):
T
Found at i:228596 original size:10 final size:10
Alignment explanation
Indices: 228584--228655 Score: 78
Period size: 10 Copynumber: 7.4 Consensus size: 10
228574 CAGATTCTTC
228584 TTTTTTTT-T
1 TTTTTTTTGT
*
228593 CTTTTTTTGT
1 TTTTTTTTGT
*
228603 GTTTTTTTGT
1 TTTTTTTTGT
228613 TTTTTTTT-T
1 TTTTTTTTGT
*
228622 GTTTTTTTGT
1 TTTTTTTTGT
*
228632 TGTTTTTTGT
1 TTTTTTTTGT
228642 TTTTGTTTT-T
1 TTTT-TTTTGT
228652 TTTT
1 TTTT
228656 CAAAAAAGAA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
9 15 0.28
10 34 0.64
11 4 0.08
ACGTcount: A:0.00, C:0.01, G:0.11, T:0.88
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:228609 original size:19 final size:19
Alignment explanation
Indices: 228584--228654 Score: 85
Period size: 19 Copynumber: 3.8 Consensus size: 19
228574 CAGATTCTTC
*
228584 TTTTTTTTTCTTTTTTTGTG
1 TTTTTTTGT-TTTTTTTGTG
*
228604 TTTTTTTGTTTTTTTTTTG
1 TTTTTTTGTTTTTTTTGTG
*
228623 TTTTTTTGTTGTTTTT-TG
1 TTTTTTTGTTTTTTTTGTG
228641 --TTTTTGTTTTTTTT
1 TTTTTTTGTTTTTTTT
228655 TCAAAAAAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
16 13 0.28
18 2 0.04
19 24 0.51
20 8 0.17
ACGTcount: A:0.00, C:0.01, G:0.11, T:0.87
Consensus pattern (19 bp):
TTTTTTTGTTTTTTTTGTG
Found at i:228626 original size:29 final size:28
Alignment explanation
Indices: 228584--228655 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
228574 CAGATTCTTC
*
228584 TTTTTTTTTCTTTTTTTG-TGTTTTTTTG
1 TTTTTTTTTTTTTTTTTGTTG-TTTTTTG
228612 TTTTTTTTTTGTTTTTTTGTTGTTTTTTG
1 TTTTTTTTTT-TTTTTTTGTTGTTTTTTG
*
228641 TTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTT
228656 CAAAAAAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 14 0.35
29 24 0.60
30 2 0.05
ACGTcount: A:0.00, C:0.01, G:0.11, T:0.88
Consensus pattern (28 bp):
TTTTTTTTTTTTTTTTTGTTGTTTTTTG
Found at i:238978 original size:12 final size:12
Alignment explanation
Indices: 238957--238995 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
238947 TAGTGACTGT
* *
238957 ACAAAAAAATAG
1 ACAAATAAATAA
238969 ACAAATAAATAA
1 ACAAATAAATAA
*
238981 ATAAATAAATAA
1 ACAAATAAATAA
238993 ACA
1 ACA
238996 CCTCAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (12 bp):
ACAAATAAATAA
Found at i:242900 original size:21 final size:21
Alignment explanation
Indices: 242876--242918 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
242866 TGTATCGATA
242876 TAATGTATCGATACATTTCCT
1 TAATGTATCGATACATTTCCT
242897 TAATGTATCGATACATTTCCT
1 TAATGTATCGATACATTTCCT
242918 T
1 T
242919 GGCAGTAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (21 bp):
TAATGTATCGATACATTTCCT
Found at i:242971 original size:19 final size:19
Alignment explanation
Indices: 242943--242992 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
242933 AGCGATACAT
*
242943 TGTATTGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
242962 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
242981 TGTATCGATACA
1 TGTATCGATACA
242993 TTTACGGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:243100 original size:23 final size:21
Alignment explanation
Indices: 243052--243093 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
243042 GTTGGGACCT
*
243052 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCGACAAA
*
243073 TGTATCGATACATTGGACAAA
1 TGTATCGATACATTCGACAAA
243094 AATGTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (21 bp):
TGTATCGATACATTCGACAAA
Found at i:244141 original size:16 final size:15
Alignment explanation
Indices: 244120--244149 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
244110 CTAATTAGAA
244120 AAATAATTATTTATTT
1 AAATAATT-TTTATTT
244136 AAATAATTTTTATT
1 AAATAATTTTTATT
244150 ATACTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AAATAATTTTTATTT
Found at i:246412 original size:13 final size:13
Alignment explanation
Indices: 246393--246423 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
246383 ACTTTTCACT
246393 ATGTATCGATACA
1 ATGTATCGATACA
*
246406 TTGTATCGATACA
1 ATGTATCGATACA
246419 ATGTA
1 ATGTA
246424 CCATATATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:246514 original size:19 final size:19
Alignment explanation
Indices: 246468--246552 Score: 92
Period size: 19 Copynumber: 4.7 Consensus size: 19
246458 CTACCAGTTT
*
246468 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAA
**
246488 TGTGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
246507 CATGTATCGATAC-AT---
1 CATGTATCGATACAATGAA
246522 --TGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
246539 CATGTATCGATACA
1 CATGTATCGATACA
246553 TTGTATCGAT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
13 11 0.20
14 2 0.04
18 2 0.04
19 26 0.48
20 13 0.24
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:246527 original size:13 final size:12
Alignment explanation
Indices: 246506--246565 Score: 67
Period size: 13 Copynumber: 5.2 Consensus size: 12
246496 GATACAATGA
246506 ACATGTATCGAT
1 ACATGTATCGAT
246518 ACATTGTATCGAT
1 ACA-TGTATCGAT
246531 ACA---AT-GA-
1 ACATGTATCGAT
246538 ACATGTATCGAT
1 ACATGTATCGAT
246550 ACATTGTATCGAT
1 ACA-TGTATCGAT
246563 ACA
1 ACA
246566 AAGCATAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
7 3 0.07
8 2 0.05
9 2 0.05
10 2 0.05
11 2 0.05
12 6 0.15
13 24 0.59
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.32
Consensus pattern (12 bp):
ACATGTATCGAT
Found at i:246531 original size:32 final size:32
Alignment explanation
Indices: 246490--246566 Score: 154
Period size: 32 Copynumber: 2.4 Consensus size: 32
246480 CAATTGAGTG
246490 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAATGAACATGTATCGATACAT
246522 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAATGAACATGTATCGATACAT
246554 TGTATCGATACAA
1 TGTATCGATACAA
246567 AGCATAATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAATGAACATGTATCGATACAT
Found at i:253206 original size:15 final size:15
Alignment explanation
Indices: 253174--253216 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
253164 GAGAGTTTCC
* *
253174 TTTTCTATTTCGATAA
1 TTTTCT-TTTCAAGAA
253190 TTTTCTTTTCAAGAA
1 TTTTCTTTTCAAGAA
*
253205 TTTTATTTTCAA
1 TTTTCTTTTCAA
253217 CAAATTTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 18 0.75
16 6 0.25
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.58
Consensus pattern (15 bp):
TTTTCTTTTCAAGAA
Found at i:255298 original size:13 final size:13
Alignment explanation
Indices: 255280--255310 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
255270 ACTTTTCACT
255280 ATGTATCGATACA
1 ATGTATCGATACA
255293 ATGTATCGATACA
1 ATGTATCGATACA
255306 ATGTA
1 ATGTA
255311 CCATGTATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:255299 original size:33 final size:33
Alignment explanation
Indices: 255257--255326 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
255247 AGTCGTTAGG
* * *
255257 ACAATGTATCGATAC-TTTTCACTATGTATCGAT
1 ACAATGTATCGATACAATGT-ACCATGTATCGAT
255290 ACAATGTATCGATACAATGTACCATGTATCGAT
1 ACAATGTATCGATACAATGTACCATGTATCGAT
255323 ACAA
1 ACAA
255327 ATAGTGGTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.33
Consensus pattern (33 bp):
ACAATGTATCGATACAATGTACCATGTATCGAT
Found at i:255382 original size:20 final size:19
Alignment explanation
Indices: 255355--255410 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 19
255345 CTATCAGTTT
*
255355 CATGTATCGATACAATTAA
1 CATGTATCGATACAATGAA
** *
255374 GTGTGTATCGATAAAATGAA
1 -CATGTATCGATACAATGAA
255394 CATGTATCGATACAATG
1 CATGTATCGATACAATG
255411 TATCGATACA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:255413 original size:13 final size:13
Alignment explanation
Indices: 255395--255425 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
255385 TAAAATGAAC
255395 ATGTATCGATACA
1 ATGTATCGATACA
255408 ATGTATCGATACA
1 ATGTATCGATACA
255421 A-GTAT
1 ATGTAT
255426 AATGTATCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:255418 original size:32 final size:32
Alignment explanation
Indices: 255377--255439 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
255367 CAATTAAGTG
255377 TGTATCGATAAAA-TGA-ACATGTATCGATACAA
1 TGTATCGATAAAAGT-ATA-ATGTATCGATACAA
*
255409 TGTATCGATACAAGTATAATGTATCGATACA
1 TGTATCGATAAAAGTATAATGTATCGATACA
255440 TCTAGATATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 26 0.93
33 2 0.07
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (32 bp):
TGTATCGATAAAAGTATAATGTATCGATACAA
Found at i:255452 original size:20 final size:19
Alignment explanation
Indices: 255407--255458 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
255397 GTATCGATAC
* *
255407 AATGTATCGATACAAGTAT
1 AATGTATCGATACAACTAG
*
255426 AATGTATCGATACATCTAG
1 AATGTATCGATACAACTAG
*
255445 ATATGTATCAATAC
1 A-ATGTATCGATAC
255459 TTTCTAGGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACAACTAG
Found at i:261312 original size:41 final size:42
Alignment explanation
Indices: 261253--261335 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 42
261243 GATAAAGCTA
*
261253 TTCAATTAATTGAAAATATTTCTATAATAAG-ATTGAAATTC
1 TTCAATTAATTGAAAATATTTCTATAACAAGAATTGAAATTC
*
261294 TTCAATTAATTGATAATATTTCTATAACAAGAATTGAAATTC
1 TTCAATTAATTGAAAATATTTCTATAACAAGAATTGAAATTC
261336 ATAATATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 29 0.74
42 10 0.26
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.41
Consensus pattern (42 bp):
TTCAATTAATTGAAAATATTTCTATAACAAGAATTGAAATTC
Found at i:261316 original size:22 final size:21
Alignment explanation
Indices: 261253--261316 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 21
261243 GATAAAGCTA
261253 TTCAATTAATTGAAAATATTTC
1 TTCAATTAATTG-AAATATTTC
*
261275 TAT-AATAAGATTG-AA-A-TTC
1 T-TCAATTA-ATTGAAATATTTC
261294 TTCAATTAATTGATAATATTTC
1 TTCAATTAATTGA-AATATTTC
261316 T
1 T
261317 ATAACAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
18 5 0.15
19 8 0.24
20 3 0.09
21 3 0.09
22 9 0.27
23 5 0.15
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (21 bp):
TTCAATTAATTGAAATATTTC
Found at i:263743 original size:21 final size:21
Alignment explanation
Indices: 263719--263762 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
263709 AGTTTGGCTA
*
263719 AACCTTAAATAATTGAGGTTC
1 AACCTCAAATAATTGAGGTTC
* *
263740 AACCTCAATTATTTGAGGTTC
1 AACCTCAAATAATTGAGGTTC
263761 AA
1 AA
263763 ATAAAATAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (21 bp):
AACCTCAAATAATTGAGGTTC
Found at i:265970 original size:31 final size:31
Alignment explanation
Indices: 265934--266000 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
265924 ACGGAAATAT
*
265934 TTAAACCCAATGAAATTTGCATGAGATAAGG
1 TTAAACCCAATGAAATTTGCATGAGATAACG
265965 TTAAACCCAATGAAATTTGCATGAGATAACG
1 TTAAACCCAATGAAATTTGCATGAGATAACG
265996 TTAAA
1 TTAAA
266001 TATGCACGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.27
Consensus pattern (31 bp):
TTAAACCCAATGAAATTTGCATGAGATAACG
Found at i:267551 original size:39 final size:39
Alignment explanation
Indices: 267505--267629 Score: 142
Period size: 39 Copynumber: 3.2 Consensus size: 39
267495 CTTTTTAAAA
* * *
267505 TTTAAAGTTATAGAGTCTTTGATTATAGGAGCTTTTAAT
1 TTTAAAGTTATAGAGCCTTTAATTACAGGAGCTTTTAAT
* * * * *
267544 TTTAAAGTTGTAGACCCTCTAAATTGCAAGAGCTTTTAAT
1 TTTAAAGTTATAGAGCCT-TTAATTACAGGAGCTTTTAAT
* * *
267584 TTTAAAGTTATGGAGCCTCTAATTAGAGGAGCTTTTAAT
1 TTTAAAGTTATAGAGCCTTTAATTACAGGAGCTTTTAAT
267623 TTTAAAG
1 TTTAAAG
267630 CTATGAAACC
Statistics
Matches: 69, Mismatches: 16, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 38 0.55
40 31 0.45
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.41
Consensus pattern (39 bp):
TTTAAAGTTATAGAGCCTTTAATTACAGGAGCTTTTAAT
Found at i:267577 original size:40 final size:39
Alignment explanation
Indices: 267505--267669 Score: 138
Period size: 39 Copynumber: 4.2 Consensus size: 39
267495 CTTTTTAAAA
** * * * *
267505 TTTAAAGTTATAGAGTCTTTGATTATAGGAGCTTTTAAT
1 TTTAAAGTTATAGACCCTCTAATTAGAAGAGCTTTTAAT
*
267544 TTTAAAGTTGTAGACCCTCTAAATT-GCAAGAGCTTTTAAT
1 TTTAAAGTTATAGACCCTCT-AATTAG-AAGAGCTTTTAAT
* * *
267584 TTTAAAGTTATGGAGCCTCTAATTAGAGGAGCTTTTAAT
1 TTTAAAGTTATAGACCCTCTAATTAGAAGAGCTTTTAAT
* * * * **
267623 TTTAAAGCTAT-GAAACCTCTAATTGGAGGATATTTTAA-
1 TTTAAAGTTATAG-ACCCTCTAATTAGAAGAGCTTTTAAT
267661 TTTAAAGTT
1 TTTAAAGTT
267670 GTCAAGACTT
Statistics
Matches: 105, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
38 9 0.09
39 63 0.60
40 33 0.31
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.41
Consensus pattern (39 bp):
TTTAAAGTTATAGACCCTCTAATTAGAAGAGCTTTTAAT
Found at i:267642 original size:39 final size:38
Alignment explanation
Indices: 267526--267668 Score: 139
Period size: 39 Copynumber: 3.7 Consensus size: 38
267516 AGAGTCTTTG
* *
267526 ATTATAGGAGCTTTTAATTTTAAAGT-TGTAGACCCTCTAA
1 ATTAGAGGAGCTTTTAATTTTAAAGTATG-A-AACCTCT-A
* * *
267566 ATT-GCAAGAGCTTTTAATTTTAAAGTTATGGAGCCTCTA
1 ATTAG-AGGAGCTTTTAATTTTAAAG-TATGAAACCTCTA
267605 ATTAGAGGAGCTTTTAATTTTAAAGCTATGAAACCTCTA
1 ATTAGAGGAGCTTTTAATTTTAAAG-TATGAAACCTCTA
* **
267644 ATTGGAGGATATTTTAA-TTTAAAGT
1 ATTAGAGGAGCTTTTAATTTTAAAGT
267669 TGTCAAGACT
Statistics
Matches: 88, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
37 1 0.01
38 7 0.08
39 48 0.55
40 29 0.33
41 1 0.01
42 2 0.02
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (38 bp):
ATTAGAGGAGCTTTTAATTTTAAAGTATGAAACCTCTA
Found at i:267642 original size:79 final size:77
Alignment explanation
Indices: 267503--267669 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 77
267493 GACTTTTTAA
* * * * *
267503 AATTTAAAGTTATAGAGTCTTTGATTATAGGAGCTTTTAATTTTAAAGTTGTAGACCCTCTAAAT
1 AATTTAAAGTTATAGAGCCTCTAATTAGAGGAGCTTTTAATTTTAAAGTTGTAGAACCTCT-AAT
*
267568 TGCAAGAGCTTTT
65 TGCAAGAGATTTT
*
267581 AATTTTAAAGTTATGGAGCCTCTAATTAGAGGAGCTTTTAATTTTAAAGCTATG-A-AACCTCTA
1 AA-TTTAAAGTTATAGAGCCTCTAATTAGAGGAGCTTTTAATTTTAAAG-T-TGTAGAACCTCTA
* * *
267644 ATTGGAGGATATTTT
63 ATTGCAAGAGATTTT
267659 AATTTAAAGTT
1 AATTTAAAGTT
267670 GTCAAGACTT
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
77 9 0.12
78 16 0.21
79 47 0.62
80 2 0.03
81 2 0.03
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.40
Consensus pattern (77 bp):
AATTTAAAGTTATAGAGCCTCTAATTAGAGGAGCTTTTAATTTTAAAGTTGTAGAACCTCTAATT
GCAAGAGATTTT
Done.