Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 61 of 290
Found at i:20107469 original size:7 final size:7
Alignment explanation
Indices: 20107453--20107552 Score: 70
Period size: 7 Copynumber: 14.9 Consensus size: 7
20107443 CCATGCAATA
20107453 CCCA-TT
1 CCCATTT
20107459 CCCATTT
1 CCCATTT
20107466 CCCA-TT
1 CCCATTT
*
20107472 CCCATCT
1 CCCATTT
*
20107479 CCCCTCTT
1 CCCAT-TT
**
20107487 CCACCGTT
1 CC-CATTT
*
20107495 CCC-TCCT
1 CCCAT-TT
*
20107502 CCCGTT-
1 CCCATTT
20107508 CCCA-TT
1 CCCATTT
20107514 CCCATTT
1 CCCATTT
20107521 CCCATTT
1 CCCATTT
20107528 CCCATTT
1 CCCATTT
20107535 CCCA-TT
1 CCCATTT
20107541 CCCA-TT
1 CCCATTT
20107547 CCCATT
1 CCCATT
20107553 ATCAACAATA
Statistics
Matches: 77, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
5 1 0.01
6 29 0.38
7 37 0.48
8 8 0.10
9 2 0.03
ACGTcount: A:0.12, C:0.51, G:0.02, T:0.35
Consensus pattern (7 bp):
CCCATTT
Found at i:20107471 original size:13 final size:13
Alignment explanation
Indices: 20107453--20107552 Score: 80
Period size: 13 Copynumber: 7.5 Consensus size: 13
20107443 CCATGCAATA
20107453 CCCATTCCCATTT
1 CCCATTCCCATTT
*
20107466 CCCATTCCCATCTC
1 CCCATTCCCAT-TT
* **
20107480 CCCTCTTCCACCGTT
1 CCC-ATTCC-CATTT
*
20107495 CCC-TCCTCCC-GTT
1 CCCAT--TCCCATTT
20107508 CCCATTCCCATTT
1 CCCATTCCCATTT
20107521 CCCATTTCCCATTT
1 CCCA-TTCCCATTT
20107535 CCCATTCCCA-TT
1 CCCATTCCCATTT
20107547 CCCATT
1 CCCATT
20107553 ATCAACAATA
Statistics
Matches: 73, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
12 12 0.16
13 30 0.41
14 19 0.26
15 11 0.15
16 1 0.01
ACGTcount: A:0.12, C:0.51, G:0.02, T:0.35
Consensus pattern (13 bp):
CCCATTCCCATTT
Found at i:20107515 original size:6 final size:6
Alignment explanation
Indices: 20107501--20107552 Score: 68
Period size: 6 Copynumber: 8.2 Consensus size: 6
20107491 CGTTCCCTCC
*
20107501 TCCCGT TCCCAT TCCCATT TCCCATT TCCCATT TCCCAT TCCCAT TCCCAT
1 TCCCAT TCCCAT TCCCA-T TCCCA-T TCCCA-T TCCCAT TCCCAT TCCCAT
20107552 T
1 T
20107553 ATCAACAATA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
6 24 0.55
7 20 0.45
ACGTcount: A:0.13, C:0.46, G:0.02, T:0.38
Consensus pattern (6 bp):
TCCCAT
Found at i:20109499 original size:16 final size:16
Alignment explanation
Indices: 20109478--20109512 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
20109468 ACCCTGCGAG
* *
20109478 AATTAATTATACAAAT
1 AATTAATAATAAAAAT
20109494 AATTAATAATAAAAAT
1 AATTAATAATAAAAAT
20109510 AAT
1 AAT
20109513 GGAAATGCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
AATTAATAATAAAAAT
Found at i:20120622 original size:108 final size:108
Alignment explanation
Indices: 20120433--20120650 Score: 418
Period size: 108 Copynumber: 2.0 Consensus size: 108
20120423 GGTGTTGTTA
20120433 CAGGCTAACTAAAAGCTGGTTTTGCTTGCAATTTATGCCCAAAACAGTTTGCTTTGGTACTGTTC
1 CAGGCTAACTAAAAGCTGGTTTTGCTTGCAATTTATGCCCAAAACAGTTTGCTTTGGTACTGTTC
20120498 TGCCTCTTGTACATTGGTTTCATTGTGACATGCTTCTATGAAT
66 TGCCTCTTGTACATTGGTTTCATTGTGACATGCTTCTATGAAT
* *
20120541 CAGGCTAACTAAAAGCTGTTTTTGCTTGCAATTTATGCTCAAAACAGTTTGCTTTGGTACTGTTC
1 CAGGCTAACTAAAAGCTGGTTTTGCTTGCAATTTATGCCCAAAACAGTTTGCTTTGGTACTGTTC
20120606 TGCCTCTTGTACATTGGTTTCATTGTGACATGCTTCTATGAAT
66 TGCCTCTTGTACATTGGTTTCATTGTGACATGCTTCTATGAAT
20120649 CA
1 CA
20120651 CAACTTATAG
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 108 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (108 bp):
CAGGCTAACTAAAAGCTGGTTTTGCTTGCAATTTATGCCCAAAACAGTTTGCTTTGGTACTGTTC
TGCCTCTTGTACATTGGTTTCATTGTGACATGCTTCTATGAAT
Found at i:20121489 original size:7 final size:7
Alignment explanation
Indices: 20121477--20121505 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
20121467 GCAACTGCTG
20121477 TTAAAAA
1 TTAAAAA
20121484 TT-AAAA
1 TTAAAAA
20121490 TTAAAAA
1 TTAAAAA
20121497 TTAAAAA
1 TTAAAAA
20121504 TT
1 TT
20121506 TATAAGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (7 bp):
TTAAAAA
Found at i:20121495 original size:13 final size:13
Alignment explanation
Indices: 20121477--20121502 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20121467 GCAACTGCTG
20121477 TTAAAAATTAAAA
1 TTAAAAATTAAAA
20121490 TTAAAAATTAAAA
1 TTAAAAATTAAAA
20121503 ATTTATAAGA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAAAAATTAAAA
Found at i:20121517 original size:13 final size:13
Alignment explanation
Indices: 20121501--20121525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20121491 TAAAAATTAA
20121501 AAATTTATAAGAT
1 AAATTTATAAGAT
20121514 AAATTTATAAGA
1 AAATTTATAAGA
20121526 GAACATTGTT
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
AAATTTATAAGAT
Found at i:20122779 original size:46 final size:46
Alignment explanation
Indices: 20122726--20122901 Score: 218
Period size: 46 Copynumber: 3.8 Consensus size: 46
20122716 TCACTTGTGT
*
20122726 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATGATGA
*
20122772 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CAT-TGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATAT--GATGA
*
20122820 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGA-GATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAT--ATGATG-A
*
20122867 -AGCCAGTGTAAGACATGTTTGGGACATGCATCGGC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
20122902 TATGATATGG
Statistics
Matches: 115, Mismatches: 6, Indels: 18
0.83 0.04 0.13
Matches are distributed among these distances:
46 59 0.51
47 33 0.29
48 23 0.20
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATGATGA
Found at i:20124825 original size:53 final size:53
Alignment explanation
Indices: 20124759--20124935 Score: 214
Period size: 53 Copynumber: 3.3 Consensus size: 53
20124749 TCAAATTTTT
* *
20124759 TTGGTGCTGGCCTGTCAATGACCGGTACCAGAATACGAGTTTTTAAAAAAAAA
1 TTGGTGCTGGCCTGTCAATGACCGGCACCAAAATACGAGTTTTTAAAAAAAAA
* *
20124812 TTGGTGCTGGCCTGTCACT-AGCCGGCACCATAATACGAGTTTTTAAAAAAAAAAAA
1 TTGGTGCTGGCCTGTCAATGA-CCGGCACCAAAATACGAGTTTTT---AAAAAAAAA
* * ** *
20124868 TTTGGTGCTGGCTTGTTAATGGTCGACACCAAAATACGAG-TTTTAAAAAAAAA
1 -TTGGTGCTGGCCTGTCAATGACCGGCACCAAAATACGAGTTTTTAAAAAAAAA
20124921 TTGGTGCTGGCCTGT
1 TTGGTGCTGGCCTGT
20124936 TAAAAAAATT
Statistics
Matches: 107, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
52 15 0.14
53 48 0.45
56 13 0.12
57 31 0.29
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (53 bp):
TTGGTGCTGGCCTGTCAATGACCGGCACCAAAATACGAGTTTTTAAAAAAAAA
Found at i:20134493 original size:206 final size:206
Alignment explanation
Indices: 20134123--20134500 Score: 711
Period size: 206 Copynumber: 1.8 Consensus size: 206
20134113 GCTTTGAGTT
20134123 TTTAAATACTTATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACAT
1 TTTAAATACTTATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACAT
20134188 ATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTTAACTTTAATAATGCATACTTTAGCC
66 ATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTTAACTTTAATAATGCATACTTTAGCC
*
20134253 GGATGGAGTATGTATTAGCAAATTCACAAATATGATTATATATATTTACGCATGTATCGCATTAC
131 GGATGAAGTATGTATTAGCAAATTCACAAATATGATTATATATATTTACGCATGTATCGCATTAC
20134318 AAAAACAAAAA
196 AAAAACAAAAA
20134329 TTTAAATACTTATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACAT
1 TTTAAATACTTATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACAT
*
20134394 ATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTTAATTTTAATAATGCATACTTTAGCC
66 ATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTTAACTTTAATAATGCATACTTTAGCC
* * *
20134459 GGATGAAGTATGTATTAGTAGATTCACTAATATGATTATATA
131 GGATGAAGTATGTATTAGCAAATTCACAAATATGATTATATA
20134501 ATAGTTATTT
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
206 167 1.00
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (206 bp):
TTTAAATACTTATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACAT
ATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTTAACTTTAATAATGCATACTTTAGCC
GGATGAAGTATGTATTAGCAAATTCACAAATATGATTATATATATTTACGCATGTATCGCATTAC
AAAAACAAAAA
Found at i:20134532 original size:129 final size:129
Alignment explanation
Indices: 20134369--20134628 Score: 475
Period size: 129 Copynumber: 2.0 Consensus size: 129
20134359 TCTCATTACA
20134369 ATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
1 ATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
* *
20134434 AATTTTAATAATGCATACTTTAGCCGGATGAAGTATGTATTAGTAGATTCACTAATATGATTAT
66 AATTTTAATAATGCATACTTTAGCCGGATGAAGTAGGTATTAGTAGATTCACTAATATAATTAT
20134498 ATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
1 ATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
* * *
20134563 AATTTTAATAATGCATACTTTATCCGGATGAGGTAGGTATTAGTAGATTCACTCATATAATTAT
66 AATTTTAATAATGCATACTTTAGCCGGATGAAGTAGGTATTAGTAGATTCACTAATATAATTAT
20134627 AT
1 AT
20134629 TATACTTCAG
Statistics
Matches: 126, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 126 1.00
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.48
Consensus pattern (129 bp):
ATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
AATTTTAATAATGCATACTTTAGCCGGATGAAGTAGGTATTAGTAGATTCACTAATATAATTAT
Found at i:20136891 original size:39 final size:39
Alignment explanation
Indices: 20136848--20136960 Score: 181
Period size: 39 Copynumber: 2.9 Consensus size: 39
20136838 TCATCAGTTG
* * *
20136848 GTGCTTGATTACCCGCCCACGGGGCAGCAGCAGATGGAT
1 GTGCTTGATGACCCGCCCACAGGGCAGCAACAGATGGAT
20136887 GTGCTTGATGACCCGCCCACAGGGCAGCAACAGATGGAT
1 GTGCTTGATGACCCGCCCACAGGGCAGCAACAGATGGAT
* *
20136926 GTGCTTGATGACCCGCCCATAGAGCAGCAACAGAT
1 GTGCTTGATGACCCGCCCACAGGGCAGCAACAGAT
20136961 AGATCATGAT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.25, C:0.28, G:0.30, T:0.17
Consensus pattern (39 bp):
GTGCTTGATGACCCGCCCACAGGGCAGCAACAGATGGAT
Found at i:20137135 original size:54 final size:54
Alignment explanation
Indices: 20136926--20137136 Score: 242
Period size: 54 Copynumber: 3.9 Consensus size: 54
20136916 ACAGATGGAT
* ** * * * *
20136926 GTGCTTGATGACCCGCCCATAGAGCAGCAACAGATAGATCATGATGAACCCTTG
1 GTGCGTGATGACCCGCCCACGGGGCAGCAGCAGATGGATCATGATGATCCCTTG
** * * *
20136980 GTGCGTGATGACCCGCCCATAGAGCAGCAGTAGATGGATCATGATGAGCCCTTG
1 GTGCGTGATGACCCGCCCACGGGGCAGCAGCAGATGGATCATGATGATCCCTTG
* * * *
20137034 GTGCGTGATGACCCGCCCACGGGGTAGCAGCAAATGGATTATGATGATCCCTTA
1 GTGCGTGATGACCCGCCCACGGGGCAGCAGCAGATGGATCATGATGATCCCTTG
* * * *
20137088 GTGCATGATGACCCGCCAACGGGGCAGTAGCAGCTGGATCATGATGATC
1 GTGCGTGATGACCCGCCCACGGGGCAGCAGCAGATGGATCATGATGATC
20137137 TCAATGATGA
Statistics
Matches: 136, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 136 1.00
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.20
Consensus pattern (54 bp):
GTGCGTGATGACCCGCCCACGGGGCAGCAGCAGATGGATCATGATGATCCCTTG
Found at i:20141878 original size:56 final size:54
Alignment explanation
Indices: 20141759--20141897 Score: 181
Period size: 56 Copynumber: 2.6 Consensus size: 54
20141749 AATTGTATTG
* * **
20141759 TGGTGCCGGCCATTGACAGGCCAACACC-AAAAAAATTTGATTTTTTTTAATAC
1 TGGTGCCGGCCATTGACAGGACAGCACCAAAAAAAATTAAATTTTTTTTAATAC
* * *
20141812 TAGTGTCGGCCATGGACAGGACAGCACCAAAAAAAATTAAAATTTTTTCTTAATAC
1 TGGTGCCGGCCATTGACAGGACAGCACCAAAAAAAATT-AAATTTTTT-TTAATAC
*
20141868 TGGTGCCGGCCATTGACAGGTCAGCACCAA
1 TGGTGCCGGCCATTGACAGGACAGCACCAA
20141898 TTTTTTTTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
53 23 0.32
54 9 0.12
55 7 0.10
56 33 0.46
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (54 bp):
TGGTGCCGGCCATTGACAGGACAGCACCAAAAAAAATTAAATTTTTTTTAATAC
Found at i:20143936 original size:17 final size:17
Alignment explanation
Indices: 20143914--20143956 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
20143904 TAAATTATTC
*
20143914 TTCTAATTTTGTTTTTA
1 TTCTAATTTAGTTTTTA
*
20143931 TTCTAATTAAGTTTTTA
1 TTCTAATTTAGTTTTTA
20143948 TT-TAATTTA
1 TTCTAATTTA
20143957 TATTTTTGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.65
Consensus pattern (17 bp):
TTCTAATTTAGTTTTTA
Found at i:20144240 original size:21 final size:21
Alignment explanation
Indices: 20144178--20144240 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
20144168 CTACTATCAC
* **
20144178 TATTAAATTACTTGTACTTTA
1 TATTAAATTATTTGTGTTTTA
*
20144199 TATT--ATTATTTATGTTATTTA
1 TATTAAATTATTTGTG-T-TTTA
20144220 TATTAAATTATTTGTGTTTTA
1 TATTAAATTATTTGTGTTTTA
20144241 CGTTTATTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
19 7 0.21
21 16 0.48
22 1 0.03
23 9 0.27
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.60
Consensus pattern (21 bp):
TATTAAATTATTTGTGTTTTA
Found at i:20146476 original size:55 final size:57
Alignment explanation
Indices: 20146415--20146533 Score: 154
Period size: 55 Copynumber: 2.1 Consensus size: 57
20146405 CGTGTGCAAC
* * *
20146415 ACTGACTTTA-GGGCACGGCCATGGCACACGCCCATATGGCCTATCC-GTGGACAAT
1 ACTGACTTTACAGACACGGCCATGGCACACGCCCATATGGCCTACCCTGTGGACAAT
* * * *
20146470 ACTGAC-TTACAGACACGGCTATGGCACACGCCCGTGTGGCCTACCCTTTGGACAAT
1 ACTGACTTTACAGACACGGCCATGGCACACGCCCATATGGCCTACCCTGTGGACAAT
20146526 ACTGACTT
1 ACTGACTT
20146534 AAAAGTTTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 3 0.06
55 36 0.67
56 14 0.26
57 1 0.02
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.22
Consensus pattern (57 bp):
ACTGACTTTACAGACACGGCCATGGCACACGCCCATATGGCCTACCCTGTGGACAAT
Found at i:20147453 original size:44 final size:47
Alignment explanation
Indices: 20147298--20147515 Score: 190
Period size: 49 Copynumber: 4.6 Consensus size: 47
20147288 TTAAGTTACT
* * ** * *
20147298 GATGCCATGTCCCAGACATGGTCTTATACTGGCTATCGTCATCGGGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTATCAACATCGGAGCC
* * * * ** * **
20147347 GATGCCATGTCCCAGAAATGGTCTTACACTAGCTCTCGTATATAAGTGTT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTATC-AACATCGGAGCC
**
20147397 GATGCATGTCCCAGACATGTCTTACACTAGC-A-CAAC-TCTTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTATCAACATCGGAGCC
* * *
20147441 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGGGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTATCAACATCGGAGCC
20147488 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
20147516 GGTACTCGTC
Statistics
Matches: 139, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
44 32 0.23
45 2 0.01
46 4 0.03
47 33 0.24
48 13 0.09
49 46 0.33
50 9 0.06
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTATCAACATCGGAGCC
Found at i:20147507 original size:47 final size:47
Alignment explanation
Indices: 20147298--20147606 Score: 236
Period size: 47 Copynumber: 6.5 Consensus size: 47
20147288 TTAAGTTACT
* * *
20147298 GATGCCATGTCCCAGACATGGTCTTATACTGGCTATCGTCATCGGGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGGGGCC
* * * ** * **
20147347 GATGCCATGTCCCAGAAATGGTCTTACACTAGCTCTCGTAT-ATAAGTGTT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC--ATCATCGGGGCC
* * ***
20147397 GATGCATGTCCCAGACATGTCTTACACTAGC-A-CAAC-TCTTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGGGGCC
20147441 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGGGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGGGGCC
* ***
20147488 GATGCATGTCCCAGACATGTCTTACACTGG-TACTCGTC-TCTAAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATCATCGGGGCC
* * * * * * *
20147534 GATGCCATGTCTCAGACGTGGTCTTACACTGGTTTTCATAAT-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGGGGCC
*
20147582 GATGCATGTCCCAAACATGTCTTAC
1 GATGCATGTCCCAGACATGTCTTAC
20147607 GCTAGCCTCG
Statistics
Matches: 210, Mismatches: 39, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
44 33 0.16
45 1 0.00
46 22 0.10
47 62 0.30
48 34 0.16
49 48 0.23
50 9 0.04
51 1 0.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGGGGCC
Found at i:20147586 original size:141 final size:140
Alignment explanation
Indices: 20147296--20147663 Score: 338
Period size: 141 Copynumber: 2.6 Consensus size: 140
20147286 GGTTAAGTTA
* * *
20147296 CTGATGCCATGTCCCAGACATGGTCTTATACTGGCTATCGTCATCGGGGCTGATGCCATGTCCCA
1 CTGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGGGGCCGATGCCATGTCCCA
**
20147361 GAAATGGTCTTACACTAGCTCTCGTATATAAGTGTTGATGCATGTCCCAGACATGTCTTACACTA
64 GAAATGGTCTTACACTAGCTCTCGTATATAAG-GCCGATGCATGTCCCAGACATGTCTTACACTA
*
20147426 GCACAACTCTTAG
128 GCACAACTCGTAG
*
20147439 CCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGGGGCCGATG-CATGTCCCAGA
1 CTGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGGGGCCGATGCCATGTCCCAGA
* * * * * * *
20147503 CAT-GTCTTACACT-GGTACTCGTCTCTAA-GCCGATGCCATGTCTCAGACGTGGTCTTACACTG
66 AATGGTCTTACACTAGCT-CTCGTATATAAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTA
* *
20147565 GTTTTCATAA-T-GTGG
128 G----CACAACTCGTAG
* * * * * *** * *
20147580 CTGATGCATGTCCCAAACATGTCTTACGCTAGC-CTCGTC-TCAATGCTGATGCCATGTCCTAGA
1 CTGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGGGGCCGATGCCATGTCCCAGA
* *
20147643 CATGGTCTTACACTGGCTCTC
66 AATGGTCTTACACTAGCTCTC
20147664 ACATAATCCA
Statistics
Matches: 187, Mismatches: 28, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
137 5 0.03
138 14 0.07
139 38 0.20
140 30 0.16
141 74 0.40
142 17 0.09
143 9 0.05
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (140 bp):
CTGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGGGGCCGATGCCATGTCCCAGA
AATGGTCTTACACTAGCTCTCGTATATAAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCA
CAACTCGTAG
Found at i:20147649 original size:93 final size:92
Alignment explanation
Indices: 20147296--20147660 Score: 335
Period size: 93 Copynumber: 3.9 Consensus size: 92
20147286 GGTTAAGTTA
* * * ** *
20147296 CTGATGCCATGTCCCAGACATGGTCTTATACTGGCTATCGTCATCGGGGCTGATGCCATGTCCCA
1 CTGATG-CATGTCCCAGACAT-GTCTTACACTAGC-CTCGTC-TC-AAGCCGATGCCATGTCCCA
* * * *
20147361 GAAATGGTCTTACACTAGCTCTCGTATATAAGT-G
61 GACATGGTCTTACACTGGCTATC--ATA-ATGTGG
* * *
20147395 TTGATGCATGTCCCAGACATGTCTTACACTAGCACAAC-TCT-TAGCCGATG-CATGTCCCAGAC
1 CTGATGCATGTCCCAGACATGTCTTACACTAGC-C-TCGTCTCAAGCCGATGCCATGTCCCAGAC
* *
20147457 AT-GTCTTACACTGGCTATCATCATCGGGG
64 ATGGTCTTACACTGGCTATCATAAT-GTGG
* * * *
20147486 CCGATGCATGTCCCAGACATGTCTTACACTGGTACTCGTCTCTAAGCCGATGCCATGTCTCAGAC
1 CTGATGCATGTCCCAGACATGTCTTACACTAG-CCTCGTCTC-AAGCCGATGCCATGTCCCAGAC
* * *
20147551 GTGGTCTTACACTGGTTTTCATAATGTGG
64 ATGGTCTTACACTGGCTATCATAATGTGG
* * * *
20147580 CTGATGCATGTCCCAAACATGTCTTACGCTAGCCTCGTCTCAATGCTGATGCCATGTCCTAGACA
1 CTGATGCATGTCCCAGACATGTCTTACACTAGCCTCGTCTCAA-GCCGATGCCATGTCCCAGACA
20147645 TGGTCTTACACTGGCT
65 TGGTCTTACACTGGCT
20147661 CTCACATAAT
Statistics
Matches: 219, Mismatches: 37, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
89 1 0.00
90 4 0.02
91 34 0.16
92 17 0.08
93 61 0.28
94 49 0.22
95 19 0.09
96 1 0.00
97 13 0.06
98 15 0.07
99 5 0.02
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.29
Consensus pattern (92 bp):
CTGATGCATGTCCCAGACATGTCTTACACTAGCCTCGTCTCAAGCCGATGCCATGTCCCAGACAT
GGTCTTACACTGGCTATCATAATGTGG
Found at i:20148919 original size:34 final size:35
Alignment explanation
Indices: 20148871--20148938 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 35
20148861 TACAAACCCA
* * *
20148871 AAACCTCGATAACAAAGCCCTAACTCTCATAGAGC
1 AAACCTCGAAAACAAAACCCTAACTCTCACAGAGC
* *
20148906 AAACC-CGAAAACAAAATCCTAACTTTCACAGAG
1 AAACCTCGAAAACAAAACCCTAACTCTCACAGAG
20148939 TTCTCCCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 23 0.82
35 5 0.18
ACGTcount: A:0.44, C:0.29, G:0.10, T:0.16
Consensus pattern (35 bp):
AAACCTCGAAAACAAAACCCTAACTCTCACAGAGC
Found at i:20150235 original size:24 final size:25
Alignment explanation
Indices: 20150183--20150235 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
20150173 AAATATCCCT
*
20150183 GAAG-TAATGAGAGTTTAATTGTGA
1 GAAGATAATGAGAGTTTAATTGGGA
*
20150207 AAAGATAAT-AGAGTTTAATTGGGA
1 GAAGATAATGAGAGTTTAATTGGGA
20150231 GAAGA
1 GAAGA
20150236 AACTCGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.43, C:0.00, G:0.28, T:0.28
Consensus pattern (25 bp):
GAAGATAATGAGAGTTTAATTGGGA
Found at i:20153794 original size:23 final size:23
Alignment explanation
Indices: 20153768--20153865 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
20153758 ATAAGTGCCA
20153768 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
20153791 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
20153814 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
20153836 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
20153859 CACTGAT
1 CACTGAT
20153866 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:20153833 original size:45 final size:45
Alignment explanation
Indices: 20153775--20153863 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
20153765 CCACACTGAT
* *
20153775 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
20153820 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
20153864 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:20156719 original size:15 final size:16
Alignment explanation
Indices: 20156699--20156736 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
20156689 ATTTTTGGTA
20156699 TAATTTATATT-CATT
1 TAATTTATATTGCATT
*
20156714 TAATTTATGTTGCATT
1 TAATTTATATTGCATT
20156730 TGAATTT
1 T-AATTT
20156737 TTTTATGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 5 0.25
17 5 0.25
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (16 bp):
TAATTTATATTGCATT
Found at i:20156851 original size:27 final size:28
Alignment explanation
Indices: 20156820--20156876 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
20156810 TTGAGGGCAT
20156820 AAAAATTTAT-TAATTTTCAAAAAAAAA
1 AAAAATTTATATAATTTTCAAAAAAAAA
* * *
20156847 AAAAATTTATATATTTTTTAAAAAATAA
1 AAAAATTTATATAATTTTCAAAAAAAAA
20156875 AA
1 AA
20156877 TAAGGTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (28 bp):
AAAAATTTATATAATTTTCAAAAAAAAA
Found at i:20164680 original size:2 final size:2
Alignment explanation
Indices: 20164673--20164698 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20164663 AATATTCTTG
20164673 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
20164699 TTAATTGTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20165756 original size:15 final size:15
Alignment explanation
Indices: 20165722--20165764 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
20165712 CTGAAATTTG
20165722 TATATAATTTTT-TA
1 TATATAATTTTTATA
*
20165736 TATATAATTTTTATT
1 TATATAATTTTTATA
* *
20165751 TTTATAATATTTAT
1 TATATAATTTTTAT
20165765 GGTTTATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TATATAATTTTTATA
Found at i:20167042 original size:15 final size:15
Alignment explanation
Indices: 20167009--20167038 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20166999 AAACACTTAT
20167009 ATAAAAAAAAGTTAA
1 ATAAAAAAAAGTTAA
20167024 ATAAAAAAAA-TTAA
1 ATAAAAAAAAGTTAA
20167038 A
1 A
20167039 ATAACCTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (15 bp):
ATAAAAAAAAGTTAA
Found at i:20168500 original size:20 final size:19
Alignment explanation
Indices: 20168450--20168501 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 19
20168440 TTTTATTTAC
*
20168450 TTGAAAATTTATTATTTTT
1 TTGAAATTTTATTATTTTT
***
20168469 CAAAAATATTTATATATTTTT
1 TTGAAAT-TTTAT-TATTTTT
20168490 TTGAAATTTTAT
1 TTGAAATTTTAT
20168502 CTCATAAAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 3
0.71 0.21 0.09
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (19 bp):
TTGAAATTTTATTATTTTT
Found at i:20168915 original size:12 final size:13
Alignment explanation
Indices: 20168886--20168914 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
20168876 TTGAATCTCT
20168886 TTTTCTCTTTTTA
1 TTTTCTCTTTTTA
20168899 TTTTCTCTTTTTA
1 TTTTCTCTTTTTA
20168912 TTT
1 TTT
20168915 CGTAATTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTCTCTTTTTA
Found at i:20169056 original size:6 final size:6
Alignment explanation
Indices: 20169045--20169078 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
20169035 CCTCCTCCCC
20169045 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAAT TTT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTT-AAT TTT
20169079 GGCAAAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTAAT
Found at i:20171749 original size:42 final size:43
Alignment explanation
Indices: 20171683--20171910 Score: 293
Period size: 42 Copynumber: 5.3 Consensus size: 43
20171673 ACGTCGCTAA
* * * *
20171683 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGCTTA-GGAAAAAAACGCCGCTAAAAGTAATGTT
* * *
20171727 CTTTAGCGGCGTTTAGGAAAAAAACGCCGCT-AATGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAG-TAATGTT
20171770 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTT
*
20171813 CTATAGCGGCGCTTA--ATAAAAAACGCCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGA-AAAAAACGCCGCTAAAAGTAATGTT
* * *
20171855 CTATAGCGGCGCTT-GGTAGAAAACGCCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTT
*
20171897 CTTTAGCAGCGCTT
1 CTTTAGCGGCGCTT
20171911 CATCTACAAA
Statistics
Matches: 167, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
41 1 0.01
42 78 0.47
43 72 0.43
44 16 0.10
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (43 bp):
CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTT
Found at i:20171922 original size:85 final size:85
Alignment explanation
Indices: 20171683--20171954 Score: 298
Period size: 85 Copynumber: 3.2 Consensus size: 85
20171673 ACGTCGCTAA
* * * * *
20171683 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTAGGA-AA
1 CTTTAGCGGCGCTTA-GGAAAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTA--ATAA
* *
20171747 AAAACGCCGCT-AATGATCATGTT
63 AAAACGCCGCTAAAAG-TAATGTT
*
20171770 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAATAAAAA
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAATAAAAA
20171835 ACGCCGCTAAAAGTAATGTT
66 ACGCCGCTAAAAGTAATGTT
* * * * * * *
20171855 CTATAGCGGCGCTT-GGTAGAAAACGCCGCTAAAAGTAATGTTCTTTAGCAGCGCTTCATCTACA
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAAT-AAAA
** *
20171919 AACGCCATTAAAAGTAGTGTT
65 AACGCCGCTAAAAGTAATGTT
* *
20171940 TTTTCGCGGCGCTTA
1 CTTTAGCGGCGCTTA
20171955 TTTCACAAAC
Statistics
Matches: 159, Mismatches: 22, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
84 41 0.26
85 63 0.40
86 41 0.26
87 14 0.09
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (85 bp):
CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAATAAAAA
ACGCCGCTAAAAGTAATGTT
Found at i:20171963 original size:43 final size:43
Alignment explanation
Indices: 20171791--20171971 Score: 143
Period size: 42 Copynumber: 4.3 Consensus size: 43
20171781 CTTAGGAAAA
* * * * * *
20171791 AAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTAAT-AAA
1 AAACGCCACTAAAAGTAATGTTCTTTAGCAGCGCTTCATCTAC
* * * ** **
20171833 AAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTGGTAGA-
1 AAACGCCACTAAAAGTAATGTTCTTTAGCAGCGCTTCATCTAC
*
20171875 AAACGCCGCTAAAAGTAATGTTCTTTAGCAGCGCTTCATCTAC
1 AAACGCCACTAAAAGTAATGTTCTTTAGCAGCGCTTCATCTAC
* * * * * *
20171918 AAACGCCATTAAAAGTAGTGTTTTTTCGCGGCGCTT-ATTTCAC
1 AAACGCCACTAAAAGTAATGTTCTTTAGCAGCGCTTCATCT-AC
*
20171961 AAACGGCACTA
1 AAACGCCACTA
20171972 TATGATATGA
Statistics
Matches: 118, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
42 76 0.64
43 42 0.36
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (43 bp):
AAACGCCACTAAAAGTAATGTTCTTTAGCAGCGCTTCATCTAC
Found at i:20172427 original size:21 final size:21
Alignment explanation
Indices: 20172403--20172467 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
20172393 CTTCTCTCGT
* *
20172403 TGCTTCTCTCACTGCGGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
*
20172424 TGCTTCTCTCGCTACAGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
* *
20172445 TGCTTCCCTCGCTGCCGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
20172466 TG
1 TG
20172468 TTTTAAGTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.05, C:0.45, G:0.18, T:0.32
Consensus pattern (21 bp):
TGCTTCTCTCGCTGCAGCCTC
Found at i:20174031 original size:9 final size:9
Alignment explanation
Indices: 20174008--20174148 Score: 151
Period size: 9 Copynumber: 15.7 Consensus size: 9
20173998 TCGAAGATCC
*
20174008 AGTTACGTA
1 AGTTATGTA
*
20174017 AGTTATTTA
1 AGTTATGTA
*
20174026 ATTTATGTA
1 AGTTATGTA
20174035 AGTTATGTA
1 AGTTATGTA
20174044 AGTTACT-TA
1 AGTTA-TGTA
* *
20174053 ATTTATTTA
1 AGTTATGTA
*
20174062 ATTTATGTA
1 AGTTATGTA
20174071 AGTTATGTA
1 AGTTATGTA
*
20174080 AGTTATTTA
1 AGTTATGTA
*
20174089 ATTTATGTA
1 AGTTATGTA
20174098 AGTTATGTA
1 AGTTATGTA
*
20174107 AGTTATTTA
1 AGTTATGTA
* *
20174116 ATTTTTGTA
1 AGTTATGTA
20174125 AGTTATGTA
1 AGTTATGTA
20174134 A-TTAATGTA
1 AGTT-ATGTA
20174143 AGTTAT
1 AGTTAT
20174149 TTAAATTGTG
Statistics
Matches: 110, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
8 3 0.03
9 104 0.95
10 3 0.03
ACGTcount: A:0.33, C:0.01, G:0.14, T:0.51
Consensus pattern (9 bp):
AGTTATGTA
Found at i:20174046 original size:27 final size:27
Alignment explanation
Indices: 20174014--20174134 Score: 170
Period size: 27 Copynumber: 4.5 Consensus size: 27
20174004 ATCCAGTTAC
* * * *
20174014 GTAAGTTATTTAATTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATTTAATTTAT
** *
20174041 GTAAGTTACTTAATTTATTTAATTTAT
1 GTAAGTTATGTAAGTTATTTAATTTAT
20174068 GTAAGTTATGTAAGTTATTTAATTTAT
1 GTAAGTTATGTAAGTTATTTAATTTAT
*
20174095 GTAAGTTATGTAAGTTATTTAATTTTT
1 GTAAGTTATGTAAGTTATTTAATTTAT
20174122 GTAAGTTATGTAA
1 GTAAGTTATGTAA
20174135 TTAATGTAAG
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.33, C:0.01, G:0.14, T:0.52
Consensus pattern (27 bp):
GTAAGTTATGTAAGTTATTTAATTTAT
Found at i:20174152 original size:36 final size:36
Alignment explanation
Indices: 20174015--20174148 Score: 171
Period size: 36 Copynumber: 3.7 Consensus size: 36
20174005 TCCAGTTACG
* *
20174015 TAAGTTATTTAATTTATGTAAGTTATGTAAGTTACT
1 TAAGTTATGTAATTTATGTAAGTTATGTAAGTTATT
* *
20174051 TAATTTATTTAATTTATGTAAGTTATGTAAGTTATT
1 TAAGTTATGTAATTTATGTAAGTTATGTAAGTTATT
* * * *
20174087 TAATTTATGTAAGTTATGTAAGTTATTTAA-TTTTT
1 TAAGTTATGTAATTTATGTAAGTTATGTAAGTTATT
*
20174122 GTAAGTTATGTAATTAATGTAAGTTAT
1 -TAAGTTATGTAATTTATGTAAGTTAT
20174149 TTAAATTGTG
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
35 4 0.05
36 84 0.95
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.52
Consensus pattern (36 bp):
TAAGTTATGTAATTTATGTAAGTTATGTAAGTTATT
Found at i:20177936 original size:113 final size:112
Alignment explanation
Indices: 20177755--20178104 Score: 425
Period size: 113 Copynumber: 3.1 Consensus size: 112
20177745 TTCCCACAAC
* * * *
20177755 GCGCCGCTAATAATATGTTTTAGCGGCGTTTTACCATAAGCGCCAC-AACTGCTAGTATACATCA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTA-AATAAGCGCCACTAA-TGCTAATATACATCA
* * *
20177819 AGACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAATAA
64 AGACCAAAGCACTGCGTTTTGGTTAATATTTTGTGGCGCTTTTCAATAA
* * *
20177868 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTCAAATAAGCGCCACTAATCCTAATGTACCTCAA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTT-AAATAAGCGCCACTAATGCTAATATACATCAA
* * * * *
20177933 GACCAAA-CTCTGCGTTTTGGTTAAGAAATATTGTGGCGCTTTTCAGTAC
65 GACCAAAGCACTGCGTTTTGGTT-A-ATATTTTGTGGCGCTTTTCAATAA
* * * *
20177982 TCGCCGCTAATACTATACTTTAGCGGCATTTTAATATAAGCGCCACTAATGCTACTATACATCAA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTAA-ATAAGCGCCACTAATGCTAATATACATCAA
* * *
20178047 GACCAAAGCACTGTGTTTTGGTTAATCTTTTGTGGCGTTTTTCAATAA
65 GACCAAAGCACTGCGTTTTGGTTAATATTTTGTGGCGCTTTTCAATAA
*
20178095 GCGCCACTAA
1 GCGCCGCTAA
20178105 GCCTAATATA
Statistics
Matches: 200, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
112 14 0.07
113 89 0.44
114 84 0.42
115 13 0.06
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (112 bp):
GCGCCGCTAATACTATGCTTTAGCGGCGTTTTAAATAAGCGCCACTAATGCTAATATACATCAAG
ACCAAAGCACTGCGTTTTGGTTAATATTTTGTGGCGCTTTTCAATAA
Found at i:20178021 original size:114 final size:113
Alignment explanation
Indices: 20177755--20178071 Score: 388
Period size: 114 Copynumber: 2.8 Consensus size: 113
20177745 TTCCCACAAC
* * * *
20177755 GCGCCGCTAATAATATGTTTTAGCGGCGTTTTACCATAAGCGCCAC-AACTGCTAGTATACATCA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTA-AATAAGCGCCACTAA-TGCTAATATACATCA
* * *
20177819 AGACCAAAGCGCTGCGTTTTGGTT-AATATTTTGCGGCGCTTTACAATAA
64 AGACCAAAGCACTGCGTTTTGGTTAAAAATATTGCGGCGCTTTACAATAA
* * *
20177868 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTCAAATAAGCGCCACTAATCCTAATGTACCTCAA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTT-AAATAAGCGCCACTAATGCTAATATACATCAA
* * * * *
20177933 GACCAAA-CTCTGCGTTTTGGTTAAGAAATATTGTGGCGCTTTTCAGTAC
65 GACCAAAGCACTGCGTTTTGGTTAA-AAATATTGCGGCGCTTTACAATAA
* * * *
20177982 TCGCCGCTAATACTATACTTTAGCGGCATTTTAATATAAGCGCCACTAATGCTACTATACATCAA
1 GCGCCGCTAATACTATGCTTTAGCGGCGTTTTAA-ATAAGCGCCACTAATGCTAATATACATCAA
*
20178047 GACCAAAGCACTGTGTTTTGGTTAA
65 GACCAAAGCACTGCGTTTTGGTTAA
20178072 TCTTTTGTGG
Statistics
Matches: 175, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
112 14 0.08
113 63 0.36
114 83 0.47
115 15 0.09
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (113 bp):
GCGCCGCTAATACTATGCTTTAGCGGCGTTTTAAATAAGCGCCACTAATGCTAATATACATCAAG
ACCAAAGCACTGCGTTTTGGTTAAAAATATTGCGGCGCTTTACAATAA
Found at i:20178209 original size:188 final size:188
Alignment explanation
Indices: 20177892--20178266 Score: 592
Period size: 188 Copynumber: 2.0 Consensus size: 188
20177882 ATGCTTTAGC
* * *
20177892 GGCGTTTTCAAATAAGCGCCACTAATCCTAATGTACCTCAAGACCAAACTCTGCGTTTTGGTTAA
1 GGCGTTTTCAAATAAGCGCCACTAAGCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGTTAA
* *
20177957 GAAATATTGTGGCGCTTTTCAGTACTCGCCGCTAATACTATACTTTAGCGGCATTTTAATATAAG
66 GAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATACTTTAGCGGCATTTTAATATAAG
* *
20178022 CGCCACTAATGCTACTATACATCAAGACCAAAGCACTGTGTTTTGGTTAATCTTTTGT
131 CGCCACTAATGCTACTATACATCAAGACCAAAGCACTGCGTTTTGGTTAATATTTTGT
*
20178080 GGCGTTTTTC-AATAAGCGCCACTAAGCCTAATATACGGCAAGACCAAACTCTGCGTTTTGGTTA
1 GGCG-TTTTCAAATAAGCGCCACTAAGCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGTTA
* *
20178144 AGAAATCTTGCGGCGCTTTTCACTACTCGCCGCTAATACTATGA-TTTAGCGGCGTTTTAATATA
65 AGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTAT-ACTTTAGCGGCATTTTAATATA
* * * *
20178208 AGTGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGTTAATATTTTG
129 AGCGCCACTAATGCTACTATACATCAAGACCAAAGCACTGCGTTTTGGTTAATATTTTG
20178267 CGGTGCTTAT
Statistics
Matches: 171, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
188 165 0.96
189 6 0.04
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (188 bp):
GGCGTTTTCAAATAAGCGCCACTAAGCCTAATATACCGCAAGACCAAACTCTGCGTTTTGGTTAA
GAAATATTGCGGCGCTTTTCACTACTCGCCGCTAATACTATACTTTAGCGGCATTTTAATATAAG
CGCCACTAATGCTACTATACATCAAGACCAAAGCACTGCGTTTTGGTTAATATTTTGT
Found at i:20178479 original size:114 final size:114
Alignment explanation
Indices: 20178279--20179002 Score: 1258
Period size: 114 Copynumber: 6.4 Consensus size: 114
20178269 GTGCTTATTG
* * * * * *
20178279 TACTATGCTTTAGCGGTGTTTTCCG-ATAAGCGCCACTAATCCTAATATACCTCAAGACCAAACT
1 TACTATTCTTTAGCGGCGTTTT-TGTATAAGCGCCACTAATGCTAGTGTACCTCAAGACCAAACT
20178343 CTGCGTTTTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAA
65 CTGCGTTTTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAA
20178393 TACTATTCTTTAGCGGCGTTTTTGTATAAGCGCCACTAATGCTAGTGTACCTCAAGACCAAACTC
1 TACTATTCTTTAGCGGCGTTTTTGTATAAGCGCCACTAATGCTAGTGTACCTCAAGACCAAACTC
20178458 TGCGTTTTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAA
66 TGCGTTTTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAA
20178507 TACTATTCTTTAGCGGCGTTTTTGTATAAGCGCCACTAATGCTAGTGTACCTCAAGACCAAACTC
1 TACTATTCTTTAGCGGCGTTTTTGTATAAGCGCCACTAATGCTAGTGTACCTCAAGACCAAACTC
20178572 TGCGTTTTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAA
66 TGCGTTTTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAA
20178621 TACTATTCTTTAGCGGCGTTTTTGTATAAGCGCCACTAATGCTAGTGTACCTCAAGACCAAACTC
1 TACTATTCTTTAGCGGCGTTTTTGTATAAGCGCCACTAATGCTAGTGTACCTCAAGACCAAACTC
20178686 TGCGTTTTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAA
66 TGCGTTTTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAA
20178735 TACTATTCTTTAGCGGCGTTTTTGTATAAGCGCCACTAATGCTAGTGTACCTCAAGACCAAACTC
1 TACTATTCTTTAGCGGCGTTTTTGTATAAGCGCCACTAATGCTAGTGTACCTCAAGACCAAACTC
20178800 TGCGTTTTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAA
66 TGCGTTTTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAA
20178849 TACTATTCTTTAGCGGCGTTTTTGTATAAGCGCCACTAATGCTAGTGTACCTCAAGACCAAACTC
1 TACTATTCTTTAGCGGCGTTTTTGTATAAGCGCCACTAATGCTAGTGTACCTCAAGACCAAACTC
** * **
20178914 TGCGTTTTGGTTAAGATGTATTGTGGCGCTTTT-TGTGACTCGCCGCTAA
66 TGCGTTTTGGTTAAGAAATATTGCGGCGCTTTTCACT-ACTCGCCGCTAA
* * *
20178963 TTA-TATGCTTTAGCGGCGATTTT-AAGTAAGCGCCACTAAT
1 -TACTATTCTTTAGCGGCGTTTTTGTA-TAAGCGCCACTAAT
20179003 ACTTTCTTTA
Statistics
Matches: 592, Mismatches: 14, Indels: 8
0.96 0.02 0.01
Matches are distributed among these distances:
113 3 0.01
114 587 0.99
115 2 0.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (114 bp):
TACTATTCTTTAGCGGCGTTTTTGTATAAGCGCCACTAATGCTAGTGTACCTCAAGACCAAACTC
TGCGTTTTGGTTAAGAAATATTGCGGCGCTTTTCACTACTCGCCGCTAA
Found at i:20180971 original size:37 final size:37
Alignment explanation
Indices: 20180930--20181105 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
20180920 TTTGAGTACT
20180930 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
20180967 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
20181004 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
20181041 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
20181078 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
20181106 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:20181177 original size:45 final size:46
Alignment explanation
Indices: 20181068--20181191 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
20181058 GTGATAAGTG
* *
20181068 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
20181114 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
20181159 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
20181192 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:20188669 original size:37 final size:37
Alignment explanation
Indices: 20188628--20188730 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
20188618 TTTGAGTACT
*
20188628 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTTACACTTA
*
20188665 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTTACACTTA
* *
20188702 TCTGATCAAGTGATAAAGTGATAAGTGGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGT
20188731 AGCTTCAGCT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (37 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTTACACTTA
Found at i:20188801 original size:45 final size:46
Alignment explanation
Indices: 20188692--20188815 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
20188682 GTGATAAGTG
* *
20188692 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
20188738 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
20188783 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
20188816 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:20191526 original size:24 final size:24
Alignment explanation
Indices: 20191499--20191560 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
20191489 CCGCAAAGTT
* * **
20191499 CACTATCACTATCATTATAGTTTG
1 CACTATTACTATCATCATAGTTCA
20191523 CACTATTACTATCATCATAGTTCA
1 CACTATTACTATCATCATAGTTCA
20191547 CACTATTACTATCA
1 CACTATTACTATCA
20191561 ACTTCTTTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (24 bp):
CACTATTACTATCATCATAGTTCA
Found at i:20193085 original size:22 final size:22
Alignment explanation
Indices: 20193043--20193085 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
20193033 ACACCAAAAC
* **
20193043 AGGCTTTTAGCGGCGTTTTTTT
1 AGGCCTTTAGCGGCGCCTTTTT
20193065 AGGCCTTTAGCGGCGCCTTTT
1 AGGCCTTTAGCGGCGCCTTTT
20193086 AGCGCCACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCCTTTTT
Found at i:20193249 original size:43 final size:43
Alignment explanation
Indices: 20193183--20193516 Score: 464
Period size: 43 Copynumber: 7.8 Consensus size: 43
20193173 GTGGAAAAAT
* * * * **
20193183 GCCGCTAAAGAACATAACCTTTAGTGGTGCTTTACAAACAAAC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAAC
20193226 GCCGCTAAAGAACATGA-CATTTAGCGGCGCTTTACCCACAAAC
1 GCCGCTAAAGAACATGATC-TTTAGCGGCGCTTTACCCACAAAC
*
20193269 GCCGCTAAAGAACA-GAACCTTTAGCGGCGCTTTACCCACAAAC
1 GCCGCTAAAGAACATG-ATCTTTAGCGGCGCTTTACCCACAAAC
20193312 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAAC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAAC
20193355 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAAC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAAC
* * *
20193398 GCCGCTGAAGAACATGATCTTTAGCGGCGCTTTACCAACAAAT
1 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAAC
* *
20193441 GCCGCTAAAGAACATGATCTTTAGCTGCGCTTTTA-TCACAAAC
1 GCCGCTAAAGAACATGATCTTTAGCGGCGC-TTTACCCACAAAC
*
20193484 GCCGCTAAAAGTAC--GATTCTTTAGCGGCG-TTTA
1 GCCGCT-AAAGAACATGA-TCTTTAGCGGCGCTTTA
20193517 TTGAAAAACG
Statistics
Matches: 268, Mismatches: 16, Indels: 16
0.89 0.05 0.05
Matches are distributed among these distances:
41 4 0.01
42 4 0.01
43 248 0.93
44 12 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (43 bp):
GCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAAC
Found at i:20193632 original size:6 final size:6
Alignment explanation
Indices: 20193623--20193647 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
20193613 TTTAAATGAT
20193623 ACTTCA ACTTCA ACTTCA ACTTCA A
1 ACTTCA ACTTCA ACTTCA ACTTCA A
20193648 TGAAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (6 bp):
ACTTCA
Found at i:20193679 original size:71 final size:71
Alignment explanation
Indices: 20193594--20193735 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
20193584 TAACATAAAA
20193594 TCCAACCAAAAACGGCAAATTTAAATGATACTTCAACTTCAACTTCAACTTCAATGAAATATATA
1 TCCAACCAAAAACGGCAAATTTAAATGATACTTCAACTTCAACTTCAACTTCAATGAAATATATA
20193659 TATATG
66 TATATG
20193665 TCCAACCAAAAACGGCAAATTTAAATGATACTTCAACTTCAACTTCAACTTCAATGAAATATATA
1 TCCAACCAAAAACGGCAAATTTAAATGATACTTCAACTTCAACTTCAACTTCAATGAAATATATA
20193730 TATATG
66 TATATG
20193736 ATATAAATTA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.30
Consensus pattern (71 bp):
TCCAACCAAAAACGGCAAATTTAAATGATACTTCAACTTCAACTTCAACTTCAATGAAATATATA
TATATG
Found at i:20193703 original size:6 final size:6
Alignment explanation
Indices: 20193694--20193718 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
20193684 TTTAAATGAT
20193694 ACTTCA ACTTCA ACTTCA ACTTCA A
1 ACTTCA ACTTCA ACTTCA ACTTCA A
20193719 TGAAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (6 bp):
ACTTCA
Found at i:20195513 original size:10 final size:11
Alignment explanation
Indices: 20195487--20195512 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
20195477 AAAATCAGTC
20195487 AAAAATAGGAT
1 AAAAATAGGAT
20195498 AAAAATAGGAT
1 AAAAATAGGAT
20195509 AAAA
1 AAAA
20195513 TTCCTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (11 bp):
AAAAATAGGAT
Found at i:20196482 original size:9 final size:9
Alignment explanation
Indices: 20196468--20196501 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
20196458 CTTTTCGAAC
*
20196468 TCGAATCAT
1 TCGAATAAT
20196477 TCGAATAAT
1 TCGAATAAT
20196486 TCGAATAAT
1 TCGAATAAT
20196495 TCGAATA
1 TCGAATA
20196502 TCAAACTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (9 bp):
TCGAATAAT
Found at i:20200492 original size:59 final size:59
Alignment explanation
Indices: 20200366--20200485 Score: 156
Period size: 59 Copynumber: 2.1 Consensus size: 59
20200356 ATTTAATATA
* * *
20200366 TAAATTAAAAATACTAATTAATATAAACCCTAAACCTCTAACCTCTATCCCTTAAACCC
1 TAAATTAAAAATACTAACTAATATAAACCCTAAACCTCTAACCTCGATCCCTGAAACCC
* * *
20200425 TAAATTAAAAA-AGCTAACTAATCTAAACCTTAAACC-CTAACC-CGATCCCTGAACCCC
1 TAAATTAAAAATA-CTAACTAATATAAACCCTAAACCTCTAACCTCGATCCCTGAAACCC
20200482 TAAA
1 TAAA
20200486 CCTTAAACCC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
57 16 0.30
58 7 0.13
59 31 0.57
ACGTcount: A:0.44, C:0.28, G:0.03, T:0.25
Consensus pattern (59 bp):
TAAATTAAAAATACTAACTAATATAAACCCTAAACCTCTAACCTCGATCCCTGAAACCC
Found at i:20200498 original size:14 final size:14
Alignment explanation
Indices: 20200482--20200597 Score: 58
Period size: 14 Copynumber: 8.3 Consensus size: 14
20200472 CCTGAACCCC
* *
20200482 TAAACCTTAAACCC
1 TAAACCCTAAACCT
*
20200496 TAAACCCTTAACCT
1 TAAACCCTAAACCT
* *
20200510 CTAACCCCTAACCCT
1 -TAAACCCTAAACCT
*
20200525 TAAACCTTAAATCC-
1 TAAACCCTAAA-CCT
* * * *
20200539 -CAACTCTAACCCC
1 TAAACCCTAAACCT
*
20200552 TAACCCCTAAACCT
1 TAAACCCTAAACCT
*
20200566 TAAATCCC-AACCCT
1 TAAA-CCCTAAACCT
* *
20200580 TAAACCATAATCCT
1 TAAACCCTAAACCT
20200594 TAAA
1 TAAA
20200598 TCCATACTCC
Statistics
Matches: 74, Mismatches: 22, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
12 2 0.03
13 8 0.11
14 48 0.65
15 16 0.22
ACGTcount: A:0.38, C:0.39, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAACCT
Found at i:20200551 original size:34 final size:34
Alignment explanation
Indices: 20200476--20200576 Score: 141
Period size: 34 Copynumber: 2.9 Consensus size: 34
20200466 CCGATCCCTG
* *
20200476 AACCCCTAAACCTTAAACCCTAAA-CCCTTAACCTCT
1 AACCCCTAACCCTTAAACCTTAAATCCC--AA-CTCT
20200512 AACCCCTAACCCTTAAACCTTAAATCCCAACTCT
1 AACCCCTAACCCTTAAACCTTAAATCCCAACTCT
*
20200546 AACCCCTAACCCCTAAACCTTAAATCCCAAC
1 AACCCCTAACCCTTAAACCTTAAATCCCAAC
20200577 CCTTAAACCA
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
34 34 0.56
35 2 0.03
36 22 0.36
37 3 0.05
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.21
Consensus pattern (34 bp):
AACCCCTAACCCTTAAACCTTAAATCCCAACTCT
Found at i:20200577 original size:28 final size:28
Alignment explanation
Indices: 20200546--20200614 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
20200536 TCCCAACTCT
* *
20200546 AACCCCTAACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCATAAACCTTAAATCCC
* *
20200574 AACCCTTAAACCATAATCCTTAAAT-CC
1 AACCCCTAAACCATAAACCTTAAATCCC
20200601 ATACTCCCTAAACC
1 A-AC-CCCTAAACC
20200615 TTACACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 3 0.09
28 23 0.68
29 8 0.24
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.22
Consensus pattern (28 bp):
AACCCCTAAACCATAAACCTTAAATCCC
Found at i:20201076 original size:41 final size:42
Alignment explanation
Indices: 20201008--20201273 Score: 199
Period size: 41 Copynumber: 6.5 Consensus size: 42
20200998 CGGCGCTTTT
*
20201008 TCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGA-CGCTCCC
1 TCAAAAACGCCGCTAAAACCCCAAGCATTAGCGAGCGCTCCC
* * * * **
20201049 T-AGAAAATGCCGCTAAAACACCGAGCATTAG-TAGCGCTTTC
1 TCA-AAAACGCCGCTAAAACCCCAAGCATTAGCGAGCGCTCCC
* ***
20201090 TCAAAAACGCCGCTAAAACCCCAAGCATTAGCG-GTGCTTTT
1 TCAAAAACGCCGCTAAAACCCCAAGCATTAGCGAGCGCTCCC
* * * ***
20201131 TCAAAAACGCCGCTAAAACCTCGAGTATTAGCG-GCGCTTTT
1 TCAAAAACGCCGCTAAAACCCCAAGCATTAGCGAGCGCTCCC
* * ** * * *
20201172 TTAAAAACGCTGCTAAAACCCTGAGCATTAGCG-GCACTTCT
1 TCAAAAACGCCGCTAAAACCCCAAGCATTAGCGAGCGCTCCC
* **
20201213 TCAAAAACGCCGCTAAAACCCCGAA-CATTAGCG-GTGCT-TT
1 TCAAAAACGCCGCTAAAACCCC-AAGCATTAGCGAGCGCTCCC
20201253 TACAAAAACGCCGCTAAAACC
1 T-CAAAAACGCCGCTAAAACC
20201274 ATAAAAGGTC
Statistics
Matches: 188, Mismatches: 31, Indels: 12
0.81 0.13 0.05
Matches are distributed among these distances:
40 4 0.02
41 182 0.97
42 2 0.01
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (42 bp):
TCAAAAACGCCGCTAAAACCCCAAGCATTAGCGAGCGCTCCC
Found at i:20201143 original size:82 final size:81
Alignment explanation
Indices: 20200997--20201273 Score: 340
Period size: 82 Copynumber: 3.4 Consensus size: 81
20200987 AAATGTTTTT
* * * * *
20200997 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGACGCTCCCT-AGAAAATGCCG
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCAAGCATTAGCGGCGCTTCTTCA-AAAACGCCG
20201061 CTAAAACACCGAGCATTA
65 CTAAAAC-CCGAGCATTA
** * * *
20201079 GTAGCGCTTTCTCAAAAACGCCGCTAAAACCCCAAGCATTAGCGGTGCTTTTTCAAAAACGCCGC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCAAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
*
20201144 TAAAACCTCGAGTATTA
66 TAAAACC-CGAGCATTA
* * ** *
20201161 GCGGCGCTTTTTTAAAAACGCTGCTAAAACCCTGAGCATTAGCGGCACTTCTTCAAAAACGCCGC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCAAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
*
20201226 TAAAACCCCGAACATTA
66 TAAAA-CCCGAGCATTA
* *
20201243 GCGGTGCTTTTACAAAAACGCCGCTAAAACC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAACC
20201274 ATAAAAGGTC
Statistics
Matches: 165, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
81 1 0.01
82 161 0.98
83 3 0.02
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.21
Consensus pattern (81 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCAAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
TAAAACCCGAGCATTA
Found at i:20201221 original size:123 final size:123
Alignment explanation
Indices: 20200997--20201273 Score: 355
Period size: 123 Copynumber: 2.3 Consensus size: 123
20200987 AAATGTTTTT
* * *
20200997 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGACGCTCCCTAGAAAATGCCGC
1 GCGGTGCTTTTTCAAAAACGCCGCTAAAACCCCAAGCATTAGCGACGCTCCCTAGAAAACGCCGC
* *
20201062 TAAAACACCGAGCATTAGTAGCGCTTTCTCAAAAACGCCGCTAAAACCCC-AAGCATTA
66 TAAAACACCGAGCATTAGCAGCACTTTCTCAAAAACGCCGCTAAAACCCCGAA-CATTA
* * * * *** *
20201120 GCGGTGCTTTTTCAAAAACGCCGCTAAAACCTCGAGTATTAGCGGCGCTTTTTTA-AAAACGCTG
1 GCGGTGCTTTTTCAAAAACGCCGCTAAAACCCCAAGCATTAGCGACGC-TCCCTAGAAAACGCCG
*
20201184 CTAAAAC-CCTGAGCATTAGCGGCAC-TTCTTCAAAAACGCCGCTAAAACCCCGAACATTA
65 CTAAAACACC-GAGCATTAGCAGCACTTTC-TCAAAAACGCCGCTAAAACCCCGAACATTA
*
20201243 GCGGTGCTTTTACAAAAACGCCGCTAAAACC
1 GCGGTGCTTTTTCAAAAACGCCGCTAAAACC
20201274 ATAAAAGGTC
Statistics
Matches: 135, Mismatches: 15, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
122 5 0.04
123 125 0.93
124 5 0.04
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.21
Consensus pattern (123 bp):
GCGGTGCTTTTTCAAAAACGCCGCTAAAACCCCAAGCATTAGCGACGCTCCCTAGAAAACGCCGC
TAAAACACCGAGCATTAGCAGCACTTTCTCAAAAACGCCGCTAAAACCCCGAACATTA
Found at i:20203843 original size:21 final size:22
Alignment explanation
Indices: 20203818--20203866 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
20203808 GAAATAGTTA
*
20203818 AATTTTGC-T-TTGTTATACTTT
1 AATTTTGCATCTTGTCATA-TTT
20203839 AA-TTTGCATCTTGTCATATTT
1 AATTTTGCATCTTGTCATATTT
20203860 AATTTTG
1 AATTTTG
20203867 TAACGGCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 5 0.21
21 8 0.33
22 11 0.46
ACGTcount: A:0.22, C:0.10, G:0.10, T:0.57
Consensus pattern (22 bp):
AATTTTGCATCTTGTCATATTT
Found at i:20207708 original size:30 final size:30
Alignment explanation
Indices: 20207672--20207770 Score: 87
Period size: 30 Copynumber: 3.3 Consensus size: 30
20207662 ACACGGGTGT
20207672 GTGGGCCCACATGAGCATGCAACATGGGTC
1 GTGGGCCCACATGAGCATGCAACATGGGTC
** * ** **
20207702 GTGGGCCCATTTTCA-CTATTTAAC-T-GCCC
1 GTGGGCCCA-CATGAGC-ATGCAACATGGGTC
20207731 GTGTGGCCCACATGAGCATGCAACATGGGTC
1 GTG-GGCCCACATGAGCATGCAACATGGGTC
20207762 GTGGGCCCA
1 GTGGGCCCA
20207771 TTTTCACTAT
Statistics
Matches: 49, Mismatches: 14, Indels: 12
0.65 0.19 0.16
Matches are distributed among these distances:
29 12 0.24
30 25 0.51
31 12 0.24
ACGTcount: A:0.20, C:0.28, G:0.29, T:0.22
Consensus pattern (30 bp):
GTGGGCCCACATGAGCATGCAACATGGGTC
Found at i:20207764 original size:60 final size:61
Alignment explanation
Indices: 20207670--20207786 Score: 227
Period size: 60 Copynumber: 1.9 Consensus size: 61
20207660 CCACACGGGT
20207670 GTGTGGGCCCACATGAGCATGCAACATGGGTCGTGGGCCCATTTTCACTATTTAACTGCCC
1 GTGTGGGCCCACATGAGCATGCAACATGGGTCGTGGGCCCATTTTCACTATTTAACTGCCC
20207731 GTGT-GGCCCACATGAGCATGCAACATGGGTCGTGGGCCCATTTTCACTATTTAACT
1 GTGTGGGCCCACATGAGCATGCAACATGGGTCGTGGGCCCATTTTCACTATTTAACT
20207787 TCTAAGGTTG
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
60 52 0.93
61 4 0.07
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.27
Consensus pattern (61 bp):
GTGTGGGCCCACATGAGCATGCAACATGGGTCGTGGGCCCATTTTCACTATTTAACTGCCC
Found at i:20209068 original size:25 final size:25
Alignment explanation
Indices: 20209040--20209088 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
20209030 CTGTTTTGGA
* *
20209040 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATACTGAAACTACTATAGG
*
20209065 TAGTATATACTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
20209089 ATAAACTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:20215514 original size:131 final size:131
Alignment explanation
Indices: 20215371--20215631 Score: 513
Period size: 131 Copynumber: 2.0 Consensus size: 131
20215361 AATTCTCACT
20215371 CTAACTCTTACTTATGAACATTAAATATTTTTACCGATTATGTTATTTTGCTCGGTTTCACTTAA
1 CTAACTCTTACTTATGAACATTAAATATTTTTACCGATTATGTTATTTTGCTCGGTTTCACTTAA
*
20215436 AATCGACTAGCAAAAGTTGTTTAACATAAATTCTAGCTTCATATTCTTTCATAAAACATCAAAAT
66 AATCGACTAGCAAAAGTTGTTTAACATAAATTCTAGCTTCATATTCTTCCATAAAACATCAAAAT
20215501 G
131 G
20215502 CTAACTCTTACTTATGAACATTAAATATTTTTACCGATTATGTTATTTTGCTCGGTTTCACTTAA
1 CTAACTCTTACTTATGAACATTAAATATTTTTACCGATTATGTTATTTTGCTCGGTTTCACTTAA
20215567 AATCGACTAGCAAAAGTTGTTTAACATAAATTCTAGCTTCATATTCTTCCATAAAACATCAAAAT
66 AATCGACTAGCAAAAGTTGTTTAACATAAATTCTAGCTTCATATTCTTCCATAAAACATCAAAAT
20215632 ACATACATTT
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 129 1.00
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.39
Consensus pattern (131 bp):
CTAACTCTTACTTATGAACATTAAATATTTTTACCGATTATGTTATTTTGCTCGGTTTCACTTAA
AATCGACTAGCAAAAGTTGTTTAACATAAATTCTAGCTTCATATTCTTCCATAAAACATCAAAAT
G
Found at i:20218606 original size:25 final size:25
Alignment explanation
Indices: 20218578--20218700 Score: 135
Period size: 25 Copynumber: 4.9 Consensus size: 25
20218568 AGACACACCA
*
20218578 CAGCTCGT-ATGAGCTTACAGATTTG
1 CAGCTCGTGA-GAGCTTACTGATTTG
*
20218603 CAGCTCGTGAGAGCTTACCGATTTG
1 CAGCTCGTGAGAGCTTACTGATTTG
20218628 CAGCTCGTGAGAGCTTACTGATTCT-
1 CAGCTCGTGAGAGCTTACTGATT-TG
*
20218653 CAGCTCGT-ATGAGCTTACTGATTTT
1 CAGCTCGTGA-GAGCTTACTGATTTG
* * * *
20218678 TAGCTCGAGAGAGCATACCGATT
1 CAGCTCGTGAGAGCTTACTGATT
20218701 CATAGCTTGT
Statistics
Matches: 87, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
24 2 0.02
25 82 0.94
26 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (25 bp):
CAGCTCGTGAGAGCTTACTGATTTG
Found at i:20218713 original size:50 final size:50
Alignment explanation
Indices: 20218603--20218715 Score: 131
Period size: 50 Copynumber: 2.3 Consensus size: 50
20218593 TACAGATTTG
* * *
20218603 CAGCTCGTGA-GAGCTTACCGATTTGCAGCTCGTGAGAGCTTACTGATTCT
1 CAGCTCGT-ATGAGCTTACCGATTTGCAGCTCGAGAGAGCATACCGATTCT
* **
20218653 CAGCTCGTATGAGCTTACTGATTTTTAGCTCGAGAGAGCATACCGATTCAT
1 CAGCTCGTATGAGCTTACCGATTTGCAGCTCGAGAGAGCATACCGATTC-T
*
20218704 -AGCTTGTATGAG
1 CAGCTCGTATGAG
20218716 AATACATGTA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
49 1 0.02
50 52 0.96
51 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTACCGATTTGCAGCTCGAGAGAGCATACCGATTCT
Found at i:20221160 original size:115 final size:115
Alignment explanation
Indices: 20221030--20221273 Score: 416
Period size: 115 Copynumber: 2.1 Consensus size: 115
20221020 AAAAGTATAC
* * *
20221030 TATTAGCGGCGCTTTCTTAGAAGCTCCGCAATATATATTAACGGAAACGCTGCGTTTAAATCTTG
1 TATTAGCGGCGCTTTCTTAGAAGCGCCACAATATATATTAACCGAAACGCTGCGTTTAAATCTTG
* *
20221095 ATGTATACTGGAGTTAGTGGCGTTCACGAGAAATCGCCGCTAAATCATAT
66 ATGTATACTGGAATTAGTGGCGTTCACGAGAAATCGCCACTAAATCATAT
* *
20221145 TATTAGCGGCGCTTTCTTAGAAGCGCTACAATATATATTAACCGAAACGCTGTGTTTAAATCTTG
1 TATTAGCGGCGCTTTCTTAGAAGCGCCACAATATATATTAACCGAAACGCTGCGTTTAAATCTTG
20221210 ATGTATACTGGAATTAGTGGCGTTCACGAGAAATCGCCACTAAATCATAT
66 ATGTATACTGGAATTAGTGGCGTTCACGAGAAATCGCCACTAAATCATAT
*
20221260 TATTAGCGACGCTT
1 TATTAGCGGCGCTT
20221274 ATTTGTTAGC
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
115 121 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (115 bp):
TATTAGCGGCGCTTTCTTAGAAGCGCCACAATATATATTAACCGAAACGCTGCGTTTAAATCTTG
ATGTATACTGGAATTAGTGGCGTTCACGAGAAATCGCCACTAAATCATAT
Found at i:20221649 original size:7 final size:7
Alignment explanation
Indices: 20221634--20221689 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
20221624 GAGTTATGGT
*
20221634 GTTTTGG
1 GTTTAGG
20221641 GTTTAGG
1 GTTTAGG
*
20221648 GTTTAAGA
1 GTTT-AGG
20221656 GTTTAGG
1 GTTTAGG
* *
20221663 GTGTAAG
1 GTTTAGG
20221670 GTTTAGG
1 GTTTAGG
*
20221677 GTTTGGG
1 GTTTAGG
20221684 GTTTAG
1 GTTTAG
20221690 ACTGTTTAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
7 33 0.85
8 6 0.15
ACGTcount: A:0.16, C:0.00, G:0.41, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:20221661 original size:15 final size:14
Alignment explanation
Indices: 20221640--20221680 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 14
20221630 TGGTGTTTTG
20221640 GGTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
*
20221654 GAGTTTAGGGTGTAA
1 G-GTTTAGGGTTTAA
20221669 GGTTTAGGGTTT
1 GGTTTAGGGTTT
20221681 GGGGTTTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:20222936 original size:45 final size:45
Alignment explanation
Indices: 20222876--20222966 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
20222866 TGTTGCGTCC
* *
20222876 TTCTTGCCCAATTTCTTGAATTCCCAAATCCGTAAATCGCCTCCT
1 TTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCCTCCT
* *
20222921 TTCTTGCCTAATTTCTTGAAATCCGAAATCCCTAAATCGCCTCCT
1 TTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCCTCCT
20222966 T
1 T
20222967 CCTCCTTCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (45 bp):
TTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCCTCCT
Found at i:20223495 original size:37 final size:37
Alignment explanation
Indices: 20223445--20223529 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
20223435 CTGTCGATGG
*
20223445 GTTACTGTTTTCCTGCATTTTTTTGGCATACTGGTCT
1 GTTACTGTTTTCCTGCATTTTTTAGGCATACTGGTCT
*
20223482 GTTACTGTTTTCCTGTATTTTTTAGGCATACTGGTCT
1 GTTACTGTTTTCCTGCATTTTTTAGGCATACTGGTCT
20223519 GTTACTGTTTT
1 GTTACTGTTTT
20223530 GTAGAAATCT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.12, C:0.16, G:0.19, T:0.53
Consensus pattern (37 bp):
GTTACTGTTTTCCTGCATTTTTTAGGCATACTGGTCT
Found at i:20224672 original size:15 final size:15
Alignment explanation
Indices: 20224652--20224686 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
20224642 ATTTACCTAA
20224652 TTAAATAAATTGTAT
1 TTAAATAAATTGTAT
20224667 TTAAATAAATTGTAT
1 TTAAATAAATTGTAT
20224682 TTAAA
1 TTAAA
20224687 GTTTTATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (15 bp):
TTAAATAAATTGTAT
Found at i:20233873 original size:28 final size:28
Alignment explanation
Indices: 20233836--20233922 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 28
20233826 TCTAGAAAGT
*
20233836 TAAGTTTTTGTGGTGAACCTATTAAAGGA
1 TAAGTCTTTGTGGTGAACCT-TTAAAGGA
* **
20233865 TAA-TCTTTGTGGCAGAACTCTGGAAAGG-
1 TAAGTCTTTGTGG-TGAAC-CTTTAAAGGA
20233893 TAAGTCTTTGTGGTGAACCTGTTAAAGGA
1 TAAGTCTTTGTGGTGAACCT-TTAAAGGA
20233922 T
1 T
20233923 TGCCTTTGTG
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
27 2 0.04
28 20 0.43
29 22 0.48
30 2 0.04
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.34
Consensus pattern (28 bp):
TAAGTCTTTGTGGTGAACCTTTAAAGGA
Found at i:20233873 original size:57 final size:57
Alignment explanation
Indices: 20233811--20233963 Score: 216
Period size: 57 Copynumber: 2.7 Consensus size: 57
20233801 TTTAAGGACG
* *
20233811 TCTTTGTGGCAAAACTCTAGAAAGTTAAGTTTTTGTGGTGAACCTATTAAAGGATAA
1 TCTTTGTGGCAAAACTCTGGAAAGGTAAGTTTTTGTGGTGAACCTATTAAAGGATAA
* * * **
20233868 TCTTTGTGGCAGAACTCTGGAAAGGTAAGTCTTTGTGGTGAACCTGTTAAAGGATTG
1 TCTTTGTGGCAAAACTCTGGAAAGGTAAGTTTTTGTGGTGAACCTATTAAAGGATAA
* * *
20233925 CCTTTGTGGAAAAACTCTGGAAAGGTAAGGTTTTGTGGT
1 TCTTTGTGGCAAAACTCTGGAAAGGTAAGTTTTTGTGGT
20233964 AAATTTGTGA
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 84 1.00
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (57 bp):
TCTTTGTGGCAAAACTCTGGAAAGGTAAGTTTTTGTGGTGAACCTATTAAAGGATAA
Found at i:20233891 original size:29 final size:28
Alignment explanation
Indices: 20233859--20233949 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 28
20233849 TGAACCTATT
20233859 AAAGGATAATCTTTGTGGCAGAACTCTGG
1 AAAGGATAATCTTTGTGG-AGAACTCTGG
* *
20233888 AAAGG-TAAGTCTTTGTGGTGAAC-CTGTT
1 AAAGGATAA-TCTTTGTGGAGAACTCTG-G
*** *
20233916 AAAGGATTGCCTTTGTGGAAAAACTCTGG
1 AAAGGATAATCTTTGTGG-AGAACTCTGG
20233945 AAAGG
1 AAAGG
20233950 TAAGGTTTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
27 3 0.06
28 20 0.41
29 23 0.47
30 3 0.06
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.29
Consensus pattern (28 bp):
AAAGGATAATCTTTGTGGAGAACTCTGG
Found at i:20233977 original size:57 final size:57
Alignment explanation
Indices: 20233812--20233990 Score: 209
Period size: 57 Copynumber: 3.1 Consensus size: 57
20233802 TTAAGGACGT
* * * * **
20233812 CTTTGTGGCAAAACTCTAGAAAGTTAAGTTTTTGTGGTGAACCTATTAAAGGATAAT
1 CTTTGTGGCAAAACTCTGGAAAGGTAAGGTTTTGTGGTGAACCTGTTAAAGGATAGC
* *
20233869 CTTTGTGGCAGAACTCTGGAAAGGTAA-GTCTTTGTGGTGAACCTGTTAAAGGATTGC
1 CTTTGTGGCAAAACTCTGGAAAGGTAAGGT-TTTGTGGTGAACCTGTTAAAGGATAGC
* * ** *
20233926 CTTTGTGGAAAAACTCTGGAAAGGTAAGGTTTTGTGGTAAATTTGTGAAAGGA-AGGC
1 CTTTGTGGCAAAACTCTGGAAAGGTAAGGTTTTGTGGTGAACCTGTTAAAGGATA-GC
20233983 CTTTGTGG
1 CTTTGTGG
20233991 TGATCTCTGT
Statistics
Matches: 104, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
56 1 0.01
57 101 0.97
58 2 0.02
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.33
Consensus pattern (57 bp):
CTTTGTGGCAAAACTCTGGAAAGGTAAGGTTTTGTGGTGAACCTGTTAAAGGATAGC
Found at i:20238510 original size:42 final size:41
Alignment explanation
Indices: 20238420--20238497 Score: 122
Period size: 42 Copynumber: 1.9 Consensus size: 41
20238410 TTATGAACCA
* *
20238420 TATCCAATGGTAAACCAACCGATTGGAACAAATGTTTTAAAT
1 TATCCAATGGTAAACCAACCAATTGGAAC-AATCTTTTAAAT
20238462 TATCCAATGGTAAACCAACCAATTGGAAC-ATCTTTT
1 TATCCAATGGTAAACCAACCAATTGGAACAATCTTTT
20238498 TCATTAACTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 6 0.18
42 28 0.82
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (41 bp):
TATCCAATGGTAAACCAACCAATTGGAACAATCTTTTAAAT
Found at i:20240115 original size:3 final size:3
Alignment explanation
Indices: 20240107--20240144 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
20240097 AAAAGGGTAA
20240107 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
20240145 GTATTATAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:20240189 original size:10 final size:9
Alignment explanation
Indices: 20240154--20240193 Score: 50
Period size: 8 Copynumber: 4.7 Consensus size: 9
20240144 AGTATTATAG
20240154 TTTCTTT-T
1 TTTCTTTCT
20240162 TTT-TTTCT
1 TTTCTTTCT
20240170 TTTC-TTCT
1 TTTCTTTCT
20240178 TTTCTTTACT
1 TTTCTTT-CT
20240188 TTTCTT
1 TTTCTT
20240194 GCCATATGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 3 0.11
8 15 0.54
9 2 0.07
10 8 0.29
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTCTTTCT
Found at i:20240189 original size:18 final size:16
Alignment explanation
Indices: 20240154--20240193 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
20240144 AGTATTATAG
*
20240154 TTTCTTTTTTTTTTCT
1 TTTCTTTTTTTTTACT
20240170 TTTCTTCTTTTCTTTACT
1 TTTCTT-TTTT-TTTACT
20240188 TTTCTT
1 TTTCTT
20240194 GCCATATGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 4 0.19
18 11 0.52
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTCTTTTTTTTTACT
Found at i:20240606 original size:153 final size:153
Alignment explanation
Indices: 20240384--20240662 Score: 463
Period size: 153 Copynumber: 1.8 Consensus size: 153
20240374 TTAAAAAACT
* *
20240384 GAAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTTAGTCATATTAAAGGAAAATTTTAAATTC
1 GAAAGATTAGATTTTTAAAATAAAAATATGTTTTTTTAGTCATATTAAAGGAAAAGTTTAAATTC
* *
20240449 TTAAAAC-AAAGTTTTCATCTTTTTCAACTATTTCGAAATAAAGTTTTTATTTTTAAGAAAAATA
66 TT-AAACTAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAAATA
20240513 ACGATTTTTTAAATAAAAAATAGA
130 ACGATTTTTTAAATAAAAAATAGA
* *
20240537 GAAAGATTAGATTTTTAAAATAAAAATATG-TTTTTTAGTCATTTTAAAGGAAAAGTTTAATTTT
1 GAAAGATTAGATTTTTAAAATAAAAATATGTTTTTTTAGTCATATTAAAGGAAAAGTTTAA-ATT
*
20240601 TTTAAACTAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAA
65 CTTAAACTAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAA
20240663 GTGGTAATTT
Statistics
Matches: 117, Mismatches: 7, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
152 32 0.27
153 85 0.73
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.43
Consensus pattern (153 bp):
GAAAGATTAGATTTTTAAAATAAAAATATGTTTTTTTAGTCATATTAAAGGAAAAGTTTAAATTC
TTAAACTAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAAATAA
CGATTTTTTAAATAAAAAATAGA
Found at i:20240612 original size:21 final size:22
Alignment explanation
Indices: 20240588--20240631 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
20240578 TTTTAAAGGA
*
20240588 AAAG-TTTAATTTTTTTAAACT
1 AAAGTTTTAATCTTTTTAAACT
*
20240609 AAAGTTTTAATCTTTTTCAACT
1 AAAGTTTTAATCTTTTTAAACT
20240631 A
1 A
20240632 TTTCGAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (22 bp):
AAAGTTTTAATCTTTTTAAACT
Found at i:20241425 original size:31 final size:33
Alignment explanation
Indices: 20241385--20241451 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 33
20241375 AATGTCTTAT
*
20241385 TTATTTCATTTATT-TA-AGTTTT-CTTTTTTA
1 TTATTTCATTTATTATAGAGTTTTAATTTTTTA
*
20241415 TTATTGTCATTTTTTATAGAGTTTTAATTTTTTA
1 TTATT-TCATTTATTATAGAGTTTTAATTTTTTA
20241449 TTA
1 TTA
20241452 ACTTTAGCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 5 0.16
31 8 0.26
32 2 0.06
33 6 0.19
34 10 0.32
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.67
Consensus pattern (33 bp):
TTATTTCATTTATTATAGAGTTTTAATTTTTTA
Found at i:20241595 original size:27 final size:27
Alignment explanation
Indices: 20241565--20241626 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
20241555 TAAGTAGGTG
*
20241565 TTACATTTTAATGAAACCATAAGGTTT
1 TTACATTTTAATAAAACCATAAGGTTT
*
20241592 TTACATTTTAATAAAACCTTAAGGTTT
1 TTACATTTTAATAAAACCATAAGGTTT
20241619 TTACATTT
1 TTACATTT
20241627 GAATTTAGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.45
Consensus pattern (27 bp):
TTACATTTTAATAAAACCATAAGGTTT
Found at i:20246870 original size:18 final size:17
Alignment explanation
Indices: 20246839--20246878 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
20246829 TATTATAACC
20246839 TATAATATAATAATAGT
1 TATAATATAATAATAGT
* *
20246856 TATATATATATTAATATT
1 TATA-ATATAATAATAGT
20246874 TATAA
1 TATAA
20246879 AATATATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TATAATATAATAATAGT
Found at i:20251164 original size:13 final size:14
Alignment explanation
Indices: 20251135--20251161 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20251125 TGATTGGTGT
20251135 AAAATATTTTTCGG
1 AAAATATTTTTCGG
20251149 AAAATATTTTTCG
1 AAAATATTTTTCG
20251162 AAATTTCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.44
Consensus pattern (14 bp):
AAAATATTTTTCGG
Found at i:20253059 original size:13 final size:13
Alignment explanation
Indices: 20253041--20253068 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
20253031 CTTGTACAAG
20253041 TAAACTTCATAAA
1 TAAACTTCATAAA
20253054 TAAACTTCATAAA
1 TAAACTTCATAAA
20253067 TA
1 TA
20253069 GAGAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAACTTCATAAA
Found at i:20258365 original size:22 final size:22
Alignment explanation
Indices: 20258340--20258382 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
20258330 AAAATGACCT
20258340 CTTC-AGGCTTTAATGTCGCGAC
1 CTTCTAGGC-TTAATGTCGCGAC
* *
20258362 CTTCTATGCTTGATGTCGCGA
1 CTTCTAGGCTTAATGTCGCGA
20258383 TTTCCTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (22 bp):
CTTCTAGGCTTAATGTCGCGAC
Found at i:20260300 original size:68 final size:68
Alignment explanation
Indices: 20260179--20260458 Score: 290
Period size: 68 Copynumber: 4.1 Consensus size: 68
20260169 GAGTTATAAG
* ** * * *
20260179 GTGTAAGACCATAGCTCGATTATGGTAACCAATAGAGTCCGCTAGGACATTAAACATGGGGTTAA
1 GTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACAAGGACATTAAACATGGGGTTAC
20260244 AAA
66 AAA
* * * * * * * *
20260247 GTGAAAGGCCATAGCTAGACTATGACAACCAATAAAGTCCATAAGGACCTTAAATATTGGGTTAC
1 GTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACAAGGACATTAAACATGGGGTTAC
20260312 AAA
66 AAA
** * * ** ** * *
20260315 GTGTAAGATTAAAGCTTGACTACAACAACCAATAGAGTTTACCAGGACATTAAACATGAGGTTAC
1 GTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACAAGGACATTAAACATGGGGTTAC
*
20260380 AAT
66 AAA
* * **
20260383 GTGTAAGACCATAGCTCGGCTATGACAACCAACAGAGTCTGCAAGGACATTAAACATGGGGTTAC
1 GTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACAAGGACATTAAACATGGGGTTAC
*
20260448 AAG
66 AAA
20260451 GTGTAAGA
1 GTGTAAGA
20260459 TTATAGGTTG
Statistics
Matches: 167, Mismatches: 45, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
68 167 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.23
Consensus pattern (68 bp):
GTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCACAAGGACATTAAACATGGGGTTAC
AAA
Found at i:20262182 original size:35 final size:35
Alignment explanation
Indices: 20262141--20262211 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
20262131 TCTAGGATCA
*
20262141 CATATCTCTAAAGATCACCTTCCATATCTGCCAAG
1 CATATCTCTAAAGATCACCTTCCATATCTACCAAG
* * * *
20262176 CATATCTTTGAAGATCACTTTCCATATTTACCAAG
1 CATATCTCTAAAGATCACCTTCCATATCTACCAAG
20262211 C
1 C
20262212 TCCGGGATGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.32
Consensus pattern (35 bp):
CATATCTCTAAAGATCACCTTCCATATCTACCAAG
Found at i:20262271 original size:22 final size:22
Alignment explanation
Indices: 20262239--20262282 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
20262229 ATCTCTCCAA
20262239 GCAATGAACCAGTCCGATTGGG
1 GCAATGAACCAGTCCGATTGGG
*
20262261 GCAATGGACCAGTCCGATTGGG
1 GCAATGAACCAGTCCGATTGGG
20262283 CCAAATGACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.23, G:0.34, T:0.18
Consensus pattern (22 bp):
GCAATGAACCAGTCCGATTGGG
Found at i:20262292 original size:22 final size:21
Alignment explanation
Indices: 20262240--20262292 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
20262230 TCTCTCCAAG
*
20262240 CAATGAACCAGTCCGATTGGGG
1 CAATG-ACCAGTCCGATTGGGC
20262262 CAATGGACCAGTCCGATTGGGC
1 CAAT-GACCAGTCCGATTGGGC
20262284 CAAATGACC
1 C-AATGACC
20262293 TCCCTCGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.17
Consensus pattern (21 bp):
CAATGACCAGTCCGATTGGGC
Found at i:20267292 original size:35 final size:35
Alignment explanation
Indices: 20267222--20267292 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
20267212 TATAGGATCA
* **
20267222 CATATCTCTGAAGATCACCTTCCATATTTGTCAAG
1 CATATCTCTGAAGACCACCTTCCATATTTACCAAG
* *
20267257 CATATCTTTGAAGACCACTTTCCATATTTACCAAG
1 CATATCTCTGAAGACCACCTTCCATATTTACCAAG
20267292 C
1 C
20267293 CCCGAAGACG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.34
Consensus pattern (35 bp):
CATATCTCTGAAGACCACCTTCCATATTTACCAAG
Found at i:20271998 original size:68 final size:66
Alignment explanation
Indices: 20271820--20272169 Score: 243
Period size: 67 Copynumber: 5.3 Consensus size: 66
20271810 TCAAAAGTGG
* ** * * * *
20271820 TACAATGTGTAAAACCATAGCTCGACTATGACAACCAATAGAGTCCACCA-GATCATTAAACATG
1 TACAAGGTGTAAGGCCATAGCTC-ACTAAG-CAACCAATAGAGTCCGCTAGGA-CATTAAACATA
20271884 GGGT
63 GGGT
* * * * * *
20271888 TAAAAGGT-TTA-CCCATAGCTTTACT-AGACAACCAATAGAGTCCGCTAGGACATTCAATATAG
1 TACAAGGTGTAAGGCCATAGC-TCACTAAG-CAACCAATAGAGTCCGCTAGGACATTAAACATAG
*
20271950 GTT
64 GGT
* *
20271953 TACAAGGTGTAAGGCCATAGCTCAACTATAGCAACCAATAAAGTCCG-TCATGACATTAAACATA
1 TACAAGGTGTAAGGCCATAGCTC-ACTA-AGCAACCAATAGAGTCCGCT-AGGACATTAAACATA
20272017 GGGT
63 GGGT
** ** * * ** * * *
20272021 TACAAAATGTAAAACCATAGCTCAGTACAACAAGAAATAGAGTTCGTTAGGACATTAAATATAGG
1 TACAAGGTGTAAGGCCATAGCTCACTA-AGCAACCAATAGAGTCCGCTAGGACATTAAACATAGG
20272086 GT
65 GT
* * * * * *
20272088 TACAAGGTGTAA-GAC-T---TGACTACGACAACCAATAGAGTCCGCTAGGATATTCAACATGGG
1 TACAAGGTGTAAGGCCATAGCTCACTAAG-CAACCAATAGAGTCCGCTAGGACATTAAACATAGG
20272148 GT
65 GT
20272150 TACAAGGTGTAAGGCCATAG
1 TACAAGGTGTAAGGCCATAG
20272170 GTCGATTATG
Statistics
Matches: 217, Mismatches: 51, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
62 45 0.21
63 2 0.01
64 1 0.00
65 38 0.18
66 16 0.07
67 57 0.26
68 56 0.26
69 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (66 bp):
TACAAGGTGTAAGGCCATAGCTCACTAAGCAACCAATAGAGTCCGCTAGGACATTAAACATAGGG
T
Found at i:20272092 original size:67 final size:68
Alignment explanation
Indices: 20271915--20272092 Score: 187
Period size: 68 Copynumber: 2.6 Consensus size: 68
20271905 GCTTTACTAG
* * * * ** **
20271915 ACAACCAATAGAGTCCGCTAGGACATTCAATATAGGTTTACAAGGTGTAAGGCCATAGCTCAACT
1 ACAACAAATAGAGTCCGTTAGGACATTAAATATAGGGTTACAAAATGTAAAACCATAGCTCAACT
*
20271980 ATA
66 ACA
* * * * * * *
20271983 GCAACCAATAAAGTCCGTCATGACATTAAACATAGGGTTACAAAATGTAAAACCATAGCTC-AGT
1 ACAACAAATAGAGTCCGTTAGGACATTAAATATAGGGTTACAAAATGTAAAACCATAGCTCAACT
20272047 ACA
66 ACA
* *
20272050 ACAAGAAATAGAGTTCGTTAGGACATTAAATATAGGGTTACAA
1 ACAACAAATAGAGTCCGTTAGGACATTAAATATAGGGTTACAA
20272093 GGTGTAAGAC
Statistics
Matches: 88, Mismatches: 22, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
67 39 0.44
68 49 0.56
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (68 bp):
ACAACAAATAGAGTCCGTTAGGACATTAAATATAGGGTTACAAAATGTAAAACCATAGCTCAACT
ACA
Found at i:20275025 original size:21 final size:21
Alignment explanation
Indices: 20274985--20275047 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
20274975 TCAAAGCTAC
* *
20274985 ATGTTTAGAGACATTGGCCTGT
1 ATGTTCAGAGACA-TAGCCTGT
*
20275007 ATG-TCAGAGACATAAGCCTAT
1 ATGTTCAGAGACAT-AGCCTGT
20275028 ATGTTTC-GAGACATAGCCTG
1 ATG-TTCAGAGACATAGCCTG
20275048 CCAACAACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 1 0.03
21 21 0.62
22 10 0.29
23 2 0.06
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (21 bp):
ATGTTCAGAGACATAGCCTGT
Found at i:20280605 original size:17 final size:18
Alignment explanation
Indices: 20280565--20280606 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
20280555 TCATTGCAAT
*
20280565 ATATGTAAAAATAATTTA
1 ATATATAAAAATAATTTA
* *
20280583 AAATATAAAAATTA-TTA
1 ATATATAAAAATAATTTA
20280600 ATATATA
1 ATATATA
20280607 TTAATATATG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
ATATATAAAAATAATTTA
Found at i:20280717 original size:14 final size:15
Alignment explanation
Indices: 20280695--20280771 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
20280685 CAATCAAACA
20280695 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
20280709 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
20280724 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
20280744 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
20280758 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
20280772 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:20280736 original size:20 final size:20
Alignment explanation
Indices: 20280711--20280750 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20280701 AATATTTTCC
*
20280711 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
20280731 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
20280751 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:20280756 original size:34 final size:35
Alignment explanation
Indices: 20280699--20280765 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
20280689 CAAACACCAG
*
20280699 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
20280734 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
20280766 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:20283484 original size:18 final size:18
Alignment explanation
Indices: 20283449--20283481 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
20283439 GAATGATGGT
20283449 TTTAACTATTATTTATAA
1 TTTAACTATTATTTATAA
20283467 TTTAA-TATT-TTTATA
1 TTTAACTATTATTTATA
20283482 TAACATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAACTATTATTTATAA
Found at i:20283530 original size:23 final size:21
Alignment explanation
Indices: 20283478--20283540 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 21
20283468 TTAATATTTT
20283478 TATATAACATTATTA-TT-AAA
1 TATAT-ACATTATTATTTCAAA
20283498 TATATA-ATTACTTATTTCAAA
1 TATATACATTA-TTATTTCAAA
20283519 TATATATCATTATATATTTCAA
1 TATATA-CATTAT-TATTTCAA
20283541 CTTGTAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
18 4 0.11
19 4 0.11
20 7 0.19
21 9 0.24
22 1 0.03
23 12 0.32
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (21 bp):
TATATACATTATTATTTCAAA
Found at i:20284149 original size:21 final size:21
Alignment explanation
Indices: 20284110--20284150 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
20284100 GTTTAGGGGC
*
20284110 AGAGGTGATGGAGGGAGAGGG
1 AGAGGTGATGGAGGAAGAGGG
* *
20284131 AGAGGTGGTGGTGGAAGAGG
1 AGAGGTGATGGAGGAAGAGG
20284151 TGGCGATAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.61, T:0.12
Consensus pattern (21 bp):
AGAGGTGATGGAGGAAGAGGG
Found at i:20284226 original size:15 final size:15
Alignment explanation
Indices: 20284206--20284234 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20284196 TGGTGGCCGC
20284206 GGTGGAGGAAGAGGG
1 GGTGGAGGAAGAGGG
20284221 GGTGGAGGAAGAGG
1 GGTGGAGGAAGAGG
20284235 TGGAATGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.66, T:0.07
Consensus pattern (15 bp):
GGTGGAGGAAGAGGG
Found at i:20293398 original size:22 final size:24
Alignment explanation
Indices: 20293368--20293411 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
20293358 AGTTCAAAAT
20293368 TTTTCTTTT-CATTTATTAAAAGA
1 TTTTCTTTTGCATTTATTAAAAGA
20293391 TTTT-TTTTGCATTTATTAAAA
1 TTTTCTTTTGCATTTATTAAAA
20293412 CTATATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.59
Consensus pattern (24 bp):
TTTTCTTTTGCATTTATTAAAAGA
Found at i:20294048 original size:45 final size:45
Alignment explanation
Indices: 20293993--20294102 Score: 177
Period size: 45 Copynumber: 2.5 Consensus size: 45
20293983 GAAAAATACC
*
20293993 AAAAAGGAAGCAACGTGGAAAAACAACCACATCCATGTCTAGACA
1 AAAAAGGAAGCAACGTGGAAAAACAACCACATCCATGTCTAAACA
* * *
20294038 AAAAAGGAAGCAATGTGGAAAAGCAACCACATTCATGTCTAAACA
1 AAAAAGGAAGCAACGTGGAAAAACAACCACATCCATGTCTAAACA
20294083 AAAAAGGAAGC-ACGTGGAAA
1 AAAAAGGAAGCAACGTGGAAA
20294103 CAATCACATC
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
44 8 0.13
45 52 0.87
ACGTcount: A:0.50, C:0.18, G:0.20, T:0.12
Consensus pattern (45 bp):
AAAAAGGAAGCAACGTGGAAAAACAACCACATCCATGTCTAAACA
Found at i:20295797 original size:15 final size:15
Alignment explanation
Indices: 20295774--20295805 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20295764 TGTTTATATA
*
20295774 TTATGTTATTTTATT
1 TTATCTTATTTTATT
20295789 TTATCTTATTTTATT
1 TTATCTTATTTTATT
20295804 TT
1 TT
20295806 NNNNNNNNNN
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:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (15 bp):
TTATCTTATTTTATT
Found at i:20303545 original size:38 final size:38
Alignment explanation
Indices: 20303503--20303581 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
20303493 ATGCACAAGG
20303503 AGATCGAAGTCTATGTTGACGATATGATCGCAAAGTCT
1 AGATCGAAGTCTATGTTGACGATATGATCGCAAAGTCT
* *
20303541 AGATCGGAGTCTATGTTGACGATATGATCGCGAAGTCT
1 AGATCGAAGTCTATGTTGACGATATGATCGCAAAGTCT
20303579 AGA
1 AGA
20303582 ACGGAAGAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (38 bp):
AGATCGAAGTCTATGTTGACGATATGATCGCAAAGTCT
Found at i:20307717 original size:44 final size:40
Alignment explanation
Indices: 20307479--20307772 Score: 200
Period size: 44 Copynumber: 6.9 Consensus size: 40
20307469 CAAAGAATTG
* *
20307479 CAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAATA
1 CAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTG-A-A
* * *
20307521 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AA
1 CAG--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA
* * * *
20307562 -AGGATCTTATCTCTCTGA-AGTTACAGTAGAGCAGATCGCAC
1 CA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-AA
* * * *
20307603 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAA
1 CAGATCTTATCTCCCTGAGATTACAGTGGAGCAGA-T--TGAA
* *
20307646 TTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAGGC
1 ---CAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGA--A
*
20307691 CAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGA
1 CAG--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTG-A-A
* * *
20307735 CACTATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATT
1 CA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATT
20307773 AAAATAAAGG
Statistics
Matches: 200, Mismatches: 31, Indels: 41
0.74 0.11 0.15
Matches are distributed among these distances:
38 1 0.00
39 27 0.14
40 1 0.00
41 29 0.14
42 10 0.05
43 32 0.16
44 67 0.34
45 2 0.01
46 31 0.16
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (40 bp):
CAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA
Found at i:20307761 original size:43 final size:44
Alignment explanation
Indices: 20307486--20307805 Score: 145
Period size: 44 Copynumber: 7.4 Consensus size: 44
20307476 TTGCAGATCT
* * * * *
20307486 TATCTCCCTG-AGATTACAGCGGAACAGATTGAATATAGTAATCC
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAGACAGAAATCC
* * *
20307530 TATCTCCCTG-AGATTACAGTGGAGCGGATT--A-A-AG-GATCT
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAGACAGAAATCC
* * * * * * *
20307569 TATCTCTCTGAAGTTACAGTAGAGCAGATCGCA-CCAG--GTCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAGAAATCC
* * * * *
20307610 TATTTCCCTG-AGATTACAGTGGAACAGACTAAAGAATTTCAG--ATCT
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAG-A---CAGAAATCC
* * * *
20307656 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAGGCCAGAAATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAGAAATCC
* **
20307700 TATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGACA-CTATCC
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAGACAGAAATCC
* * *
20307743 TATCTCCCTGAAGTTACAGTGGAGCGGATT-AA-A-ATAAAGGGTCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAGAAA---TCC
20307787 TATCTCCCTGAAGTTACAG
1 TATCTCCCTGAAGTTACAG
20307806 CAGAGTAGAT
Statistics
Matches: 217, Mismatches: 40, Indels: 38
0.74 0.14 0.13
Matches are distributed among these distances:
39 26 0.12
40 7 0.03
41 29 0.13
42 8 0.04
43 29 0.13
44 85 0.39
46 32 0.15
47 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAGAAATCC
Found at i:20307921 original size:218 final size:214
Alignment explanation
Indices: 20307482--20307903 Score: 485
Period size: 218 Copynumber: 2.0 Consensus size: 214
20307472 AGAATTGCAG
* * *
20307482 ATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAATATAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGACACTAATCCTATCTCCCTGAGATTAC
* * *
20307547 AGTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTA
66 AGTGGAGCGGATTAAAGGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCACCAAGTCTTA
** * * * * * *
20307612 TTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTG
131 TTTCCCTGAGATTACAGTGGAACAGACTAAAGAATAACAGATCATACCCCCCTAAAGTTACAGCG
** *
20307677 GAGCAGATTGAGGCCAGAA
196 GAGCAGACAGAGGACAGAA
*
20307696 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACT-ATCCTATCTCCCTGA-AGTTA
1 ATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGACACTAATCCTATCTCCCTGAGA-TTA
* * *
20307759 CAGTGGAGCGGATTAAAATAAAGGGTCTTATCTCCCTGAAGTTACAGCAGAGTAGATCGCATCAA
65 CAGTGGAGCGGA-T----TAAAGGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCACCAA
* * * *
20307824 GTCTTATTTCCCTGAAGA-TGCAGTGGAATAGACTGAA-AATAACA-AGTCATGCCCCCCTAAAG
125 GTCTTATTTCCCTG-AGATTACAGTGGAACAGACTAAAGAATAACAGA-TCATACCCCCCTAAAG
** *
20307886 TTGTAGCGGAGCGGACAG
188 TTACAGCGGAGCAGACAG
20307904 TAGATAGCAA
Statistics
Matches: 173, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
212 1 0.01
213 30 0.17
214 40 0.23
216 1 0.01
217 27 0.16
218 71 0.41
219 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (214 bp):
ATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGACACTAATCCTATCTCCCTGAGATTAC
AGTGGAGCGGATTAAAGGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCACCAAGTCTTA
TTTCCCTGAGATTACAGTGGAACAGACTAAAGAATAACAGATCATACCCCCCTAAAGTTACAGCG
GAGCAGACAGAGGACAGAA
Found at i:20309691 original size:3 final size:3
Alignment explanation
Indices: 20309685--20309724 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
20309675 TTGTTTAGTC
*
20309685 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
20309725 CCTTACTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:20309987 original size:15 final size:15
Alignment explanation
Indices: 20309964--20309995 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20309954 TGTTTATATA
*
20309964 TTATGTTATTTTATT
1 TTATCTTATTTTATT
20309979 TTATCTTATTTTATT
1 TTATCTTATTTTATT
20309994 TT
1 TT
20309996 CCATATATGT
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:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (15 bp):
TTATCTTATTTTATT
Found at i:20313811 original size:18 final size:19
Alignment explanation
Indices: 20313764--20313814 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
20313754 TCTCTCACAA
*
20313764 CAAAAATTATAAAAAAAATT
1 CAAAAATT-TATAAAAAATT
*
20313784 CAAAATATTTATAAAAATTT
1 CAAAA-ATTTATAAAAAATT
20313804 C-AAAATTTATA
1 CAAAAATTTATA
20313815 TTATTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 7 0.25
19 3 0.11
20 15 0.54
21 3 0.11
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
CAAAAATTTATAAAAAATT
Found at i:20314249 original size:26 final size:26
Alignment explanation
Indices: 20314220--20314278 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
20314210 ATACGTATTT
* *
20314220 AATTATTTATATTTAGTC-ATATAATA
1 AATTATTTA-ATATAATCAATATAATA
*
20314246 AATTA-TTAATATAATCAATATAATT
1 AATTATTTAATATAATCAATATAATA
20314271 AATTATTT
1 AATTATTT
20314279 TTAATAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 6 0.21
25 15 0.54
26 7 0.25
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (26 bp):
AATTATTTAATATAATCAATATAATA
Done.