Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 27 of 120
Found at i:7194569 original size:14 final size:15
Alignment explanation
Indices: 7194538--7194572 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
7194528 TCTGACCCCA
*
7194538 AAATCCCTAAACCTT
1 AAATCCCTAAACCCT
7194553 AAATCCC-AAACCCT
1 AAATCCCTAAACCCT
7194567 AAATCC
1 AAATCC
7194573 ATACAAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATCCCTAAACCCT
Found at i:7198246 original size:17 final size:17
Alignment explanation
Indices: 7198212--7198245 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
7198202 TGGGAATTAC
*
7198212 ATTTTTTTTAATTTAAA
1 ATTTTATTTAATTTAAA
7198229 ATTTTATTT-ATTTAAA
1 ATTTTATTTAATTTAAA
7198245 A
1 A
7198246 ACATTAGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTATTTAATTTAAA
Found at i:7199357 original size:19 final size:18
Alignment explanation
Indices: 7199320--7199359 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
7199310 CATAATGATA
* *
7199320 TATATAATATATTTTTAT
1 TATATAATACATATTTAT
7199338 TATATAATTACATATTTAT
1 TATATAA-TACATATTTAT
7199357 TAT
1 TAT
7199360 TTGGTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TATATAATACATATTTAT
Found at i:7199449 original size:42 final size:38
Alignment explanation
Indices: 7199370--7199451 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
7199360 TTGGTTTTAT
*
7199370 AAATAAGATAATTATTAATTAAAAATTAAAAAACTTGA
1 AAATAAGATAATTATTAATTAAAAATAAAAAAACTTGA
* *
7199408 AAATAATATATTTATTAATTAAAATAATAAAAAAAAGCTTGA
1 AAATAAGATAATTATTAATT-AAA-AAT-AAAAAAA-CTTGA
7199450 AA
1 AA
7199452 CAACATGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 18 0.49
39 3 0.08
40 3 0.08
41 6 0.16
42 7 0.19
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (38 bp):
AAATAAGATAATTATTAATTAAAAATAAAAAAACTTGA
Found at i:7199634 original size:137 final size:135
Alignment explanation
Indices: 7199435--7199698 Score: 341
Period size: 137 Copynumber: 1.9 Consensus size: 135
7199425 ATTAAAATAA
**
7199435 TAAAAAAAAGCTTGAAACAACATGAAATAAAAAATAAAAATGTGCTTAGAAGAGGAATCAAACCT
1 TAAAAAAAAGCTTGAAACAACATGAAATAAAAAATAAAAATGTGAGTAGAAGAGGAATCAAACC-
* ** * * **
7199500 AG-GACTTAAGGATGAAATCATTATTATTTAACCATCTAACCAAAAGAGCTAATGTATTAAAAAT
65 AGAGACTCAAGGACAAAACCACTAACATTTAACCATCTAACCAAAAGAGCTAATGTATTAAAAAT
7199564 ATTAAT
130 ATTAAT
* * * *
7199570 TAAAAGAAAGTTTGAAACAACATGAAATAAAAAAAATACAAATGTGAGTAGGAGAGGAATCAAAC
1 TAAAAAAAAGCTTGAAACAACATGAAAT--AAAAAATAAAAATGTGAGTAGAAGAGGAATCAAAC
* * * *
7199635 CCGAGACTCAAGGACAAAACCACTAACATTTAACCATCTAACCAAAGGAGCTGATGTTTTAAAA
64 CAGAGACTCAAGGACAAAACCACTAACATTTAACCATCTAACCAAAAGAGCTAATGTATTAAAA
7199699 GAAAACGCGT
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
135 26 0.24
136 1 0.01
137 82 0.75
ACGTcount: A:0.50, C:0.13, G:0.14, T:0.22
Consensus pattern (135 bp):
TAAAAAAAAGCTTGAAACAACATGAAATAAAAAATAAAAATGTGAGTAGAAGAGGAATCAAACCA
GAGACTCAAGGACAAAACCACTAACATTTAACCATCTAACCAAAAGAGCTAATGTATTAAAAATA
TTAAT
Found at i:7201724 original size:17 final size:19
Alignment explanation
Indices: 7201687--7201726 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
7201677 GTATATTAAC
*
7201687 TTATAATATATTTTAATTA
1 TTATAATATATTCTAATTA
7201706 TTATAATA-ATTCT-ATTA
1 TTATAATATATTCTAATTA
7201723 TTAT
1 TTAT
7201727 TGTTGAGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 4 0.20
19 8 0.40
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATAATATATTCTAATTA
Found at i:7204510 original size:27 final size:27
Alignment explanation
Indices: 7204472--7204534 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
7204462 TTTTAGTCCT
*
7204472 GTGCCGCCAATGGGAATGGCACCACCG
1 GTGCCGCCAATGAGAATGGCACCACCG
7204499 GTGCCGCCAATGAGAATGGCACCACCG
1 GTGCCGCCAATGAGAATGGCACCACCG
7204526 GTGCCGCCA
1 GTGCCGCCA
7204535 TTCCATTACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.22, C:0.35, G:0.32, T:0.11
Consensus pattern (27 bp):
GTGCCGCCAATGAGAATGGCACCACCG
Found at i:7204622 original size:18 final size:20
Alignment explanation
Indices: 7204584--7204629 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
7204574 GGTAAATAAT
7204584 TTTTTTATATTATTTTGGTA
1 TTTTTTATATTATTTTGGTA
*
7204604 TTTTTTAT-TTCTTTT-GTA
1 TTTTTTATATTATTTTGGTA
7204622 TTATTTTA
1 TT-TTTTA
7204630 GTAAAAAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 11 0.46
20 8 0.33
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (20 bp):
TTTTTTATATTATTTTGGTA
Found at i:7217242 original size:42 final size:42
Alignment explanation
Indices: 7217174--7218091 Score: 847
Period size: 42 Copynumber: 21.8 Consensus size: 42
7217164 TTCAGGTTTA
* * * * *
7217174 TACTTCGGTATATTCGATAATGCACTTATGTGCTAGTGTATT
1 TACTTCGGTATATCCGATGATGCACTTACGTGCCAGTATATT
* *
7217216 TACTTTGGTATATCCGATGATACACTTACGTGCCAGTATATT
1 TACTTCGGTATATCCGATGATGCACTTACGTGCCAGTATATT
* * *
7217258 TACTTCGGTATATCTGATGATGCACTTATGTGTCAGTATATT
1 TACTTCGGTATATCCGATGATGCACTTACGTGCCAGTATATT
* ** * * *
7217300 TACTTCGGTATGTCTAATTATGCACTTACTTGCCATTATATT
1 TACTTCGGTATATCCGATGATGCACTTACGTGCCAGTATATT
** *
7217342 TACTTCGGTATATTTGATTATGCACTTACGTGCCAGTATATT
1 TACTTCGGTATATCCGATGATGCACTTACGTGCCAGTATATT
* * * *
7217384 TACTTCGGTATGTCTGATGATGTATTTACGTGCCAGTATATT
1 TACTTCGGTATATCCGATGATGCACTTACGTGCCAGTATATT
* * * **
7217426 TACTTCGATATATCCGATGATGTACTTGCGTATCAGTATATT
1 TACTTCGGTATATCCGATGATGCACTTACGTGCCAGTATATT
* * * * *
7217468 TACTTTGGTATATTCGATAATGCACTTATGTGTCAGTATATT
1 TACTTCGGTATATCCGATGATGCACTTACGTGCCAGTATATT
* ** *
7217510 TACTTCGGTATGTCTAATTATGCACTTACGTGCCAGTATATT
1 TACTTCGGTATATCCGATGATGCACTTACGTGCCAGTATATT
* * *
7217552 TACTTTGGTATGTCCGATGATGCACTTACATGCCAGTATATT
1 TACTTCGGTATATCCGATGATGCACTTACGTGCCAGTATATT
* *
7217594 TACTTCGGTATGTCCGATGATGCATTTACGTGCCAGTATATT
1 TACTTCGGTATATCCGATGATGCACTTACGTGCCAGTATATT
* ** * * **
7217636 TACTTCGGTACATCTAATGATGTACTTGCGTATCAGTATATT
1 TACTTCGGTATATCCGATGATGCACTTACGTGCCAGTATATT
* * ** * * * *
7217678 TACTTCGATATGTTTGATTATGCATTTGCTTGCCAGTATATT
1 TACTTCGGTATATCCGATGATGCACTTACGTGCCAGTATATT
* * *
7217720 TACTTCGGTATATTCGATGATGCACTTACCTGCTAGTATATT
1 TACTTCGGTATATCCGATGATGCACTTACGTGCCAGTATATT
* * * **
7217762 TACTTCGATATGTCCGAAGATGCACTTACGTGTTAGTATATT
1 TACTTCGGTATATCCGATGATGCACTTACGTGCCAGTATATT
* * * * *
7217804 TACTTTGGTATATTCAATGATGCACTTGCGTGCTAGTATATT
1 TACTTCGGTATATCCGATGATGCACTTACGTGCCAGTATATT
* * * * * **
7217846 TACTTCGGTATGTCTGATAATACATTTACGTGTTAGTATATT
1 TACTTCGGTATATCCGATGATGCACTTACGTGCCAGTATATT
* * * *
7217888 TACTTCGGTATGTCCAATGATACACTTACGTGCCAATATATT
1 TACTTCGGTATATCCGATGATGCACTTACGTGCCAGTATATT
* * * *
7217930 TACTTCAGTATATCTGATGATGCACTTACATGCCAGTATAAT
1 TACTTCGGTATATCCGATGATGCACTTACGTGCCAGTATATT
* * * ** *
7217972 TGCTTTGGT-TCATCTGATGATGCACCTTGTGTGCCA-TATAAT
1 TACTTCGGTAT-ATCCGATGATGCA-CTTACGTGCCAGTATATT
* * ** * *
7218014 TGCTTCGGCT-T-TCCCAATGATGCACTATTTGTGTCAGTATCTT
1 TACTTCGG-TATAT-CCGATGATGCACT-TACGTGCCAGTATATT
* * *
7218057 TCCTTCGGTTTATCTGATGATGCAC-TACGGTGCCA
1 TACTTCGGTATATCCGATGATGCACTTAC-GTGCCA
7218092 TATTTAGATG
Statistics
Matches: 721, Mismatches: 146, Indels: 18
0.81 0.16 0.02
Matches are distributed among these distances:
41 5 0.01
42 683 0.95
43 32 0.04
44 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (42 bp):
TACTTCGGTATATCCGATGATGCACTTACGTGCCAGTATATT
Found at i:7224329 original size:6 final size:6
Alignment explanation
Indices: 7224313--7224386 Score: 94
Period size: 6 Copynumber: 12.2 Consensus size: 6
7224303 AACTAGAGAT
*
7224313 GGAATTG GGAATG GGAATG GGAATG GGAATG GGAATG GGAATG GAAATG
1 GGAA-TG GGAATG GGAATG GGAATG GGAATG GGAATG GGAATG GGAATG
* * * *
7224362 GAAATG GAAATG GAAATG GAAATG G
1 GGAATG GGAATG GGAATG GGAATG G
7224387 AAGTGTTCGA
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
6 62 0.94
7 4 0.06
ACGTcount: A:0.39, C:0.00, G:0.43, T:0.18
Consensus pattern (6 bp):
GGAATG
Found at i:7230739 original size:21 final size:20
Alignment explanation
Indices: 7230706--7230748 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
7230696 GTCCCTTGTA
7230706 ACTCAAAAATTTACAGTTTTG
1 ACTCAAAAATTTAC-GTTTTG
* *
7230727 ACTCAGAATTTTACGTTTTG
1 ACTCAAAAATTTACGTTTTG
7230747 AC
1 AC
7230749 CAGTTTAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.40
Consensus pattern (20 bp):
ACTCAAAAATTTACGTTTTG
Found at i:7233592 original size:37 final size:38
Alignment explanation
Indices: 7233525--7233599 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 38
7233515 GCTCCTATTT
**
7233525 AAAAGAAATAAGGATGATGTTGAATCACAGTTTCATAC
1 AAAAGAAATAAGGATGATCATGAATCACAGTTTCATAC
*
7233563 AAAA-AAATAAGGATGA-CATGAAATTACAGTTTCATAC
1 AAAAGAAATAAGGATGATCATG-AATCACAGTTTCATAC
7233600 CGTCTCTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 2 0.06
37 27 0.82
38 4 0.12
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (38 bp):
AAAAGAAATAAGGATGATCATGAATCACAGTTTCATAC
Found at i:7243624 original size:2 final size:2
Alignment explanation
Indices: 7243617--7243663 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
7243607 TAAATTTTGT
* *
7243617 TA TA TA TA TA TA TA TA TA TA TA CA TA T- TT TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
7243657 CA TA TA T
1 TA TA TA T
7243664 GGGCACACTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7243913 original size:2 final size:2
Alignment explanation
Indices: 7243901--7243937 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
7243891 ATTTAGATAC
* *
7243901 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7243938 CATTTTTTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7256445 original size:89 final size:89
Alignment explanation
Indices: 7256294--7257232 Score: 1398
Period size: 89 Copynumber: 10.6 Consensus size: 89
7256284 GAGCAGGTTG
* * * *
7256294 AAAGATAACAGATCTTGCCTTCCCATATTGGTGGCGAAGCAGATCGAAAAAAGCAGATCTTGTCT
1 AAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCT
*
7256359 TCATGTACTGGCGTGAAGTAGACC
66 TCATGTACTGGCGTGAAGTAGATC
* * *
7256383 AAAGATACCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGGAGAAAGCAGATCTTGTCT
1 AAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCT
* *
7256448 TCATGTACTGGCGTGAGGTAGACC
66 TCATGTACTGGCGTGAAGTAGATC
* * * * *
7256472 AAATATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAAAAAGTAGATTTTGTCT
1 AAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCT
7256537 TCATGTACTGGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* *
7256561 AAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC-AGAGAAAGCAGATCTTATC
1 AAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGA-AGAAAGCAGATCTTGTC
* *
7256625 TTCATGTACTGGCATGGAGTAGATC
65 TTCATGTACTGGCGTGAAGTAGATC
* * * *
7256650 AAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCTAAGAAAGCAGATATTGTCT
1 AAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCT
*
7256715 TCATGTACTGGCGTGAAGTAGACC
66 TCATGTACTGGCGTGAAGTAGATC
* *
7256739 AAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGGAGAAAGCAGATCTTGTCT
1 AAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCT
* *
7256804 TCATGTATTGGCGTGGAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* * * *
7256828 AAAGATAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATTGAAGAAAGCAGATCTTGTCT
1 AAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCT
* *
7256893 TTATGTACTAGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* *
7256917 AAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGGAGAAAGCAGATCTTGTCT
1 AAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCT
* *
7256982 TCATGTACTGGCATGGAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* * *
7257006 AAAGATAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTGTCT
1 AAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCT
* *
7257071 TCATGTACTGGCGTGGAGTAGATA
66 TCATGTACTGGCGTGAAGTAGATC
* * * *
7257095 AAAGATAACAGATCTTG-CTTTCCTATACTGATGGTGAAGC-GATCGAAGAAAGCAGATCTTGTC
1 AAAGATACCAGATCTTGTC-TTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTC
*
7257158 TTCATGTACTGGCGTGAAGTAGATA
65 TTCATGTACTGGCGTGAAGTAGATC
*
7257183 AAAGATACCAGATCTTGTCTTCCCATACTGGTGGTGAAGCAGATCGAAGA
1 AAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGA
7257233 TGGCGGATTT
Statistics
Matches: 772, Mismatches: 73, Indels: 10
0.90 0.09 0.01
Matches are distributed among these distances:
88 84 0.11
89 687 0.89
90 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (89 bp):
AAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCT
TCATGTACTGGCGTGAAGTAGATC
Found at i:7262510 original size:124 final size:124
Alignment explanation
Indices: 7262339--7262573 Score: 355
Period size: 124 Copynumber: 1.9 Consensus size: 124
7262329 TGATTCTCAA
* *
7262339 GTCATTTCCATACTTAGTAAGAAACTGCATTAATTTCCGAATGTAACTCATTTCTCTAACTTTAT
1 GTCATTTCCATACTTAGTAAGAAACTGCATTAATTTCCAAATGTAACTAATTTCTCTAACTTTAT
* *
7262404 CATTTCTATCTATTTCTGGTCATTTGATTCTAAATGCGATTCATTTCTTGTTTCAAAAG
66 CATTTCTATCTATTTCTAGTCATTTGATTCTAAATGCAATTCATTTCTTGTTTCAAAAG
* * * *
7262463 GTCATTTCCATACTTAGTGAGAAATTG-TTTTATTTCTCAAATGTAACTAATTTCTCTAACTTTA
1 GTCATTTCCATACTTAGTAAGAAACTGCATTAATTTC-CAAATGTAACTAATTTCTCTAACTTTA
* * *
7262527 TCATTTGTATCTATTTTTAGTCATTTGATTCTAAATGTAATTCATTT
65 TCATTTCTATCTATTTCTAGTCATTTGATTCTAAATGCAATTCATTT
7262574 TTTTTTTTGT
Statistics
Matches: 99, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
123 7 0.07
124 92 0.93
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.46
Consensus pattern (124 bp):
GTCATTTCCATACTTAGTAAGAAACTGCATTAATTTCCAAATGTAACTAATTTCTCTAACTTTAT
CATTTCTATCTATTTCTAGTCATTTGATTCTAAATGCAATTCATTTCTTGTTTCAAAAG
Found at i:7263985 original size:180 final size:180
Alignment explanation
Indices: 7263681--7264046 Score: 624
Period size: 180 Copynumber: 2.0 Consensus size: 180
7263671 TTTTAGGACT
* * * *
7263681 CAAAATATGTTAGATTATCATTCAAAAACTTCATATAATGCATGAGTATATCTATCTAGGAAAGA
1 CAAAATATGTTAGATTACCATTCAAAAAATTCATATAATGCATGAGTATATCCATCTAAGAAAGA
7263746 TCATCTCAAGATACAAAATGATATCAAACATGCATGACATAGTTTTGGAACCACTTAGCTACTTT
66 TCATCTCAAGATACAAAATGATATCAAACATGCATGACATAGTTTTGGAACCACTTAGCTACTTT
*
7263811 ACAACAAAAATCCATATGATCCTAAATCTATGTACAAGCCATTCTATTAC
131 ACAACAAAAATCCATATGATCCTAAATCTATGTACAAGCCACTCTATTAC
*
7263861 CGAAATATGTTAGATTACCATTCAAAAAATTCATATAATGCATGAGTATATCCATCTAAGAAAGA
1 CAAAATATGTTAGATTACCATTCAAAAAATTCATATAATGCATGAGTATATCCATCTAAGAAAGA
** * *
7263926 TCATCTTGAGGTACAAAATGATATTAAACATGCATGACATAGTTTTGGAACCACTTAGCTACTTT
66 TCATCTCAAGATACAAAATGATATCAAACATGCATGACATAGTTTTGGAACCACTTAGCTACTTT
* *
7263991 ACAACAAAAATCCATATGGTTCTAAATCTATGTACAAGCCACTCTATTAC
131 ACAACAAAAATCCATATGATCCTAAATCTATGTACAAGCCACTCTATTAC
7264041 CAAAAT
1 CAAAAT
7264047 CTAAGTTCCA
Statistics
Matches: 173, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
180 173 1.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (180 bp):
CAAAATATGTTAGATTACCATTCAAAAAATTCATATAATGCATGAGTATATCCATCTAAGAAAGA
TCATCTCAAGATACAAAATGATATCAAACATGCATGACATAGTTTTGGAACCACTTAGCTACTTT
ACAACAAAAATCCATATGATCCTAAATCTATGTACAAGCCACTCTATTAC
Found at i:7264821 original size:44 final size:44
Alignment explanation
Indices: 7264753--7264958 Score: 171
Period size: 44 Copynumber: 4.7 Consensus size: 44
7264743 AATCTTATCC
* * *
7264753 CCCTAAAGTTGCAGTAGAGCAGATTAAAGCCAC-AAGTCGGATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGACACTAA-TCGGATCT
* * * **
7264797 CCCTGAAGTTGCAGTGGGGCAGATTGAAGATACTAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGACACTAATCGGATCT
* * * * ***
7264841 CCCTGAAGTTGCAGTGTAGCAAATTGAAGATACTAATTTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGACACTAATCGGATCT
* * * * ** *
7264885 CCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGCAAATCTCATTT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGACA-CTAATCGGATCT
* *
7264930 CCCTGAAGTTGCAGTGGAACCGATTAAAG
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAG
7264959 CTACAAGTCA
Statistics
Matches: 137, Mismatches: 23, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
44 102 0.74
45 35 0.26
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTGGAGCAGATTAAAGACACTAATCGGATCT
Found at i:7264850 original size:88 final size:88
Alignment explanation
Indices: 7264743--7264967 Score: 256
Period size: 88 Copynumber: 2.5 Consensus size: 88
7264733 CATCGTGGCG
* * *
7264743 AATCTTATCCCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCACAAGTCGGATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGT-GAGCAGATTAAAGCTACAAGTCGGATCTCCCTGAAGTTG
* * *
7264808 CAGTGGGGCAGATTGAAGATA-CT
65 CAGTAGAGCAGATTGAAGATAGCA
* * * ***
7264831 AATCTTATCTCCCTGAAGTTGCAGTGTAGCAAATTGAAGATACTAA-TTTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTG-AGCAGATTAAAGCTAC-AAGTCGGATCTCCCTGAAGTT
7264895 GCAGTAGAGCAGATTGAAGATAGCA
64 GCAGTAGAGCAGATTGAAGATAGCA
* * * *
7264920 AATCTCATTTCCCTGAAGTTGCAGTGGAACCGATTAAAGCTACAAGTC
1 AATCTTATCTCCCTGAAGTTGCAGT-GAGCAGATTAAAGCTACAAGTC
7264968 ACGAATCCTA
Statistics
Matches: 112, Mismatches: 20, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
87 1 0.01
88 72 0.64
89 38 0.34
90 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTGAGCAGATTAAAGCTACAAGTCGGATCTCCCTGAAGTTGC
AGTAGAGCAGATTGAAGATAGCA
Found at i:7265152 original size:146 final size:147
Alignment explanation
Indices: 7264879--7265246 Score: 517
Period size: 146 Copynumber: 2.5 Consensus size: 147
7264869 GATACTAATT
*
7264879 TTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGCAAATCTCATTTCCCTGAAGTTGCAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTCATTTCCCTGAAGTTGCAG
* ** * * ** *
7264944 TGGAACCGATTAAAGCTACAAGTCACGAATCCTATACCTTTAAAGTTGTAGTAGGTCGGATTAAA
66 TGGAACAGATTAAAGCTACAAGTCAAAAATCCTATACCTCTAAAGTTGTAGGAGAACAGATTAAA
*
7265009 TCTACCA-TGACAAATC
131 GCTACCAGTGACAAATC
* * *
7265025 TTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAGATAGCAAATCTCATTTCCTTGAAGTTGTAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTCATTTCCCTGAAGTTGCAG
*
7265090 TGGAACAGATTAAAGCTACAAGTCAAAAATCTTATACCTCTAAAGTTGTAGCGA-AACAGATTAA
66 TGGAACAGATTAAAGCTACAAGTCAAAAATCCTATACCTCTAAAGTTGTAG-GAGAACAGATTAA
* *
7265154 AGCTACGAGTTACAAATC
130 AGCTACCAGTGACAAATC
* * * * *
7265172 TTATCTCCCTGAAGTTTCAGTGGAGCAGATTGTAGAT-GCGAGTCTAATTTCCCTGAAGTTGCAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTCATTTCCCTGAAGTTGCAG
7265236 TGGAACAGATT
66 TGGAACAGATT
7265247 GTAGATGCGA
Statistics
Matches: 196, Mismatches: 24, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
146 153 0.78
147 43 0.22
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (147 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTCATTTCCCTGAAGTTGCAG
TGGAACAGATTAAAGCTACAAGTCAAAAATCCTATACCTCTAAAGTTGTAGGAGAACAGATTAAA
GCTACCAGTGACAAATC
Found at i:7265201 original size:51 final size:50
Alignment explanation
Indices: 7264918--7265202 Score: 176
Period size: 51 Copynumber: 5.7 Consensus size: 50
7264908 TTGAAGATAG
* * * *
7264918 CAAATCTCATTTCCCTGAAGTTGCAGTGGAACCGATTAAAGCTACAAGTCA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGT-A
* * ** * * * * *
7264969 CGAATCCTATAC-CTTTAAAGTTGTAGTAGG-TCGGATTAAATCTACCA-TGA
1 CAAATCTTAT-CTCCCTGAAGTTGTAGT-GGAACAGATTAAAGCTACAAGT-A
* * * * *
7265019 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAG--A-TAG--
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTA
* * *
7265064 CAAATCTCATTTCCTTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTCA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGT-A
* * * * * *
7265115 AAAATCTTATAC-CTCTAAAGTTGTAGCGAAACAGATTAAAGCTACGAGTTA
1 CAAATCTTAT-CTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAG-TA
*
7265166 CAAATCTTATCTCCCTGAAGTT-TCAGTGGAGCAGATT
1 CAAATCTTATCTCCCTGAAGTTGT-AGTGGAACAGATT
7265203 GTAGATGCGA
Statistics
Matches: 171, Mismatches: 48, Indels: 30
0.69 0.19 0.12
Matches are distributed among these distances:
45 34 0.20
47 2 0.01
48 3 0.02
49 3 0.02
50 29 0.17
51 97 0.57
52 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (50 bp):
CAAATCTTATCTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTA
Found at i:7265273 original size:44 final size:44
Alignment explanation
Indices: 7265174--7265283 Score: 157
Period size: 44 Copynumber: 2.5 Consensus size: 44
7265164 TACAAATCTT
* *
7265174 ATCTCCCTGAAGTTTCAGTGGAGCAGATTGTAGATGCGAGTCTA
1 ATCTCCCTGAAGTTACAGTGGAACAGATTGTAGATGCGAGTCTA
* *
7265218 ATTTCCCTGAAGTTGCAGTGGAACAGATTGTAGATGCGAGTCTA
1 ATCTCCCTGAAGTTACAGTGGAACAGATTGTAGATGCGAGTCTA
* **
7265262 GTCTCGTTGAAGTTACAGTGGA
1 ATCTCCCTGAAGTTACAGTGGA
7265284 GTAGATCGAA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (44 bp):
ATCTCCCTGAAGTTACAGTGGAACAGATTGTAGATGCGAGTCTA
Found at i:7267652 original size:21 final size:21
Alignment explanation
Indices: 7267628--7267667 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7267618 CGAATATCCT
* *
7267628 TTTAAAATCAAAATAATAAGA
1 TTTAAAATAAAAAAAATAAGA
7267649 TTTAAAATAAAAAAAATAA
1 TTTAAAATAAAAAAAATAA
7267668 AGGCAGGCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (21 bp):
TTTAAAATAAAAAAAATAAGA
Found at i:7268309 original size:22 final size:23
Alignment explanation
Indices: 7268284--7268326 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
7268274 AGAAATATAC
*
7268284 ATGGGC-AAAGTTAAAATTTTGG
1 ATGGGCTAAAATTAAAATTTTGG
*
7268306 ATGGGCTAAAATTAAATTTTT
1 ATGGGCTAAAATTAAAATTTT
7268327 ATCAAAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (23 bp):
ATGGGCTAAAATTAAAATTTTGG
Found at i:7280309 original size:21 final size:21
Alignment explanation
Indices: 7280285--7280326 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7280275 TTAGGGATAT
7280285 AAATAAT-TAATTCAAGTATTA
1 AAATAATATAA-TCAAGTATTA
*
7280306 AAATAATATAATCATGTATTA
1 AAATAATATAATCAAGTATTA
7280327 TTATATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (21 bp):
AAATAATATAATCAAGTATTA
Found at i:7282363 original size:47 final size:47
Alignment explanation
Indices: 7282284--7282407 Score: 169
Period size: 47 Copynumber: 2.6 Consensus size: 47
7282274 AGTTGACTGT
* * *
7282284 TCATTTGCTCGACCT-GTGGTTTATCTACAATGTATTCTAGTCGGCAG
1 TCATATGCTCGA-CTAGTGGTTTATCCACAATGTATTCTAATCGGCAG
* *
7282331 TCATATGCTCGACTAGTGGTTTATCCATAATGTATTCTAATTGGCAG
1 TCATATGCTCGACTAGTGGTTTATCCACAATGTATTCTAATCGGCAG
* *
7282378 TCATCTGCTCAACTAGTGGTTTATCCACAA
1 TCATATGCTCGACTAGTGGTTTATCCACAA
7282408 CATATTACCA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
46 2 0.03
47 66 0.97
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (47 bp):
TCATATGCTCGACTAGTGGTTTATCCACAATGTATTCTAATCGGCAG
Found at i:7282528 original size:19 final size:20
Alignment explanation
Indices: 7282501--7282562 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
7282491 CGATATAGTA
7282501 AATAATTATTAGGAGTAATT
1 AATAATTATTAGGAGTAATT
* *
7282521 AA-AATTATGA-GACTGATAATA
1 AATAATTATTAGGA--G-TAATT
7282542 AATAATTATTAGGAGTAATT
1 AATAATTATTAGGAGTAATT
7282562 A
1 A
7282563 GGAAAAAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
18 2 0.06
19 7 0.21
20 8 0.24
21 7 0.21
22 7 0.21
23 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.35
Consensus pattern (20 bp):
AATAATTATTAGGAGTAATT
Found at i:7284179 original size:39 final size:39
Alignment explanation
Indices: 7284125--7284230 Score: 113
Period size: 45 Copynumber: 2.6 Consensus size: 39
7284115 GGCATTTATA
* * *
7284125 TGTCGACTATTGTTACTGTTACCGATTCGACACTTTGTG
1 TGTCGAATATTGTTACTGTTACAGATTCAACACTTTGTG
7284164 TGTCGAATATTGTTACCGTTACTGTTACAGATTCAACACTTTGTG
1 TGTCGAATA---TT---GTTACTGTTACAGATTCAACACTTTGTG
* *
7284209 TGTTGAATATTGTTATTGTTAC
1 TGTCGAATATTGTTACTGTTAC
7284231 TGCTACTGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
39 18 0.32
42 4 0.07
45 34 0.61
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (39 bp):
TGTCGAATATTGTTACTGTTACAGATTCAACACTTTGTG
Found at i:7284226 original size:51 final size:45
Alignment explanation
Indices: 7284136--7284232 Score: 149
Period size: 45 Copynumber: 2.2 Consensus size: 45
7284126 GTCGACTATT
* *
7284136 GTTACTGTTACCGATTCGACACTTTGTGTGTCGAATATTGTTACC
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATATTGTTACC
* **
7284181 GTTACTGTTACAGATTCAACACTTTGTGTGTTGAATATTGTTATT
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATATTGTTACC
7284226 GTTACTG
1 GTTACTG
7284233 CTACTGTTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATATTGTTACC
Found at i:7286200 original size:82 final size:83
Alignment explanation
Indices: 7286030--7286206 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 83
7286020 AATTTAACAT
* *
7286030 ATTCATCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACGTAGCCTGCTAG
1 ATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACGTAGCCTGCTAG
**
7286095 GTTTATAACCTGATTCAG
66 ACTTATAACCTGATTCAG
* * *
7286113 A-TCACCGGCACTTAGCCTGCTAGG-TTCATAACCTGGTTCAGATCATCGGCACTTAGCCTGCTA
1 ATTCACCGGCACTTAGCCTGCTAGGCTT-ATAACCTGATTCAGATCACCGGCACGTAGCCTGCTA
*
7286176 GACTTA-AAGTCTGAATT-A-
65 GACTTATAA-CCTG-ATTCAG
7286194 ATTCACCGGCACT
1 ATTCACCGGCACT
7286207 ACATCTGCTA
Statistics
Matches: 82, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
81 5 0.06
82 73 0.89
83 4 0.05
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (83 bp):
ATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACGTAGCCTGCTAG
ACTTATAACCTGATTCAG
Found at i:7286206 original size:41 final size:41
Alignment explanation
Indices: 7286036--7286181 Score: 222
Period size: 41 Copynumber: 3.6 Consensus size: 41
7286026 ACATATTCAT
*
7286036 CGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCAC
1 CGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCAC
* *
7286077 CGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGATCAC
1 CGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCAC
* *
7286118 CGGCACTTAGCCTGCTAGG-TTCATAACCTGGTTCAGATCAT
1 CGGCACTTAGCCTGCTAGGCTT-ATAACCTGATTCAGATCAC
*
7286159 CGGCACTTAGCCTGCTAGACTTA
1 CGGCACTTAGCCTGCTAGGCTTA
7286182 AAGTCTGAAT
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
40 2 0.02
41 92 0.96
42 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (41 bp):
CGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCAC
Found at i:7293924 original size:41 final size:41
Alignment explanation
Indices: 7293864--7293997 Score: 157
Period size: 41 Copynumber: 3.3 Consensus size: 41
7293854 TTTAACATAT
7293864 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
* * *
7293905 TCACCGGCACTTAGTCTGCTAGG-TTCATAACCTGGTTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTT-ATAGCCTGATTCAGA
* * * *
7293946 TCATCGGCACTTAGCCTGCTAGACTTAAAGTCTGAATT-A-A
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG-ATTCAGA
7293986 TTCACCGGCACT
1 -TCACCGGCACT
7293998 ACATCTGCTA
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
40 3 0.04
41 71 0.91
42 4 0.05
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
Found at i:7304685 original size:12 final size:12
Alignment explanation
Indices: 7304670--7304696 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7304660 AAAATTTTGA
7304670 AAAAATATATAT
1 AAAAATATATAT
7304682 AAAAATATATAT
1 AAAAATATATAT
7304694 AAA
1 AAA
7304697 TAAACACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAAATATATAT
Found at i:7306368 original size:9 final size:9
Alignment explanation
Indices: 7306354--7306384 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7306344 GTTAAACGAA
7306354 TCGAGTTAT
1 TCGAGTTAT
*
7306363 TCGAGTTAA
1 TCGAGTTAT
7306372 TCGAGTTAT
1 TCGAGTTAT
7306381 TCGA
1 TCGA
7306385 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:7306454 original size:9 final size:9
Alignment explanation
Indices: 7306437--7306473 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
7306427 TGAGTTTTCG
7306437 AATTCGAAT
1 AATTCGAAT
*
7306446 AACTCGAAT
1 AATTCGAAT
7306455 AATTCGAAT
1 AATTCGAAT
7306464 AATTCGAAT
1 AATTCGAAT
7306473 A
1 A
7306474 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:7307869 original size:18 final size:18
Alignment explanation
Indices: 7307808--7307874 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
7307798 AACCCTTTTT
*
7307808 TTATTATTTTTGCTATTAA
1 TTATTATTTTTACTATT-A
* *
7307827 TTAATTAATTTTAAC-AATA
1 TT-ATT-ATTTTTACTATTA
*
7307846 TCATTATTTTTACTATTA
1 TTATTATTTTTACTATTA
7307864 TTATTATTTTT
1 TTATTATTTTT
7307875 TTTAAATATT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
17 7 0.18
18 16 0.42
19 4 0.11
20 5 0.13
21 6 0.16
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.61
Consensus pattern (18 bp):
TTATTATTTTTACTATTA
Found at i:7308029 original size:2 final size:2
Alignment explanation
Indices: 7308024--7308259 Score: 117
Period size: 2 Copynumber: 118.0 Consensus size: 2
7308014 TTAAAAAACT
7308024 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* ** * * * *
7308066 T- TCA TA CA CGC TCA TA TA TA TA T- TT TT TA TA T- TT TA CA TA
1 TA T-A TA TA -TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * *
7308106 CA TA TC TA TA TA TA TA TA TC TA TA TA CA TA TT TT TA T- TT TCA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
* * * * * * *
7308148 TGA -A TA TA TA CA TA CA TA TA TT TT TT TA TA T- TC TA TA -A TT
1 T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
7308188 TT TA TA TA CA TA TA TT TGC TCA TT TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A T-A TA TA TA TA TA TA TA TA TA TA TA
*
7308232 TA TA TA TA TA TA TA TA TA TA TC TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7308260 CGCATGCTTA
Statistics
Matches: 182, Mismatches: 40, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
1 7 0.04
2 169 0.93
3 6 0.03
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7316712 original size:20 final size:20
Alignment explanation
Indices: 7316683--7316722 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
7316673 TTCACCTCAT
*
7316683 GCATCGCATCATATGCATTA
1 GCATCACATCATATGCATTA
7316703 GCATCACATCATATGCATTA
1 GCATCACATCATATGCATTA
7316723 AAGACCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (20 bp):
GCATCACATCATATGCATTA
Found at i:7324891 original size:45 final size:43
Alignment explanation
Indices: 7324850--7325086 Score: 213
Period size: 44 Copynumber: 5.4 Consensus size: 43
7324840 CATACTGGTG
* *
7324850 GCGAAGCAGATAAAAGAAAGCAGATCTTGTTTTCATGTACTGGC
1 GCGAAGCAGATCAAAGAAA-CAGATCTTGTCTTCATGTACTGGC
* * * *** *
7324894 GTGAAGTAGATCAAAGAAACAGATCTTATCTTCCCATACTGGTG
1 GCGAAGCAGATCAAAGAAACAGATCTTGTCTTCATGTACTGG-C
7324938 GCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGGC
1 GCGAAGCAGATCAAAGAAA-CAGATCTTGTCTTCATGTACTGGC
* * * *** *
7324982 GTGAAGTAGATCAAAGAAACAGATCTTGTCTCCCCATACTGGTG
1 GCGAAGCAGATCAAAGAAACAGATCTTGTCTTCATGTACTGG-C
* * * * * *
7325026 GTGGAGTAGGTCGAAGAAAACAGATCGTGTCTTCATGTACTGGC
1 GCGAAGCAGATCAAAG-AAACAGATCTTGTCTTCATGTACTGGC
* *
7325070 GTGAAGTAGATCAAAGA
1 GCGAAGCAGATCAAAGA
7325087 TAGTAGGTCC
Statistics
Matches: 154, Mismatches: 35, Indels: 9
0.78 0.18 0.05
Matches are distributed among these distances:
43 38 0.25
44 76 0.49
45 40 0.26
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (43 bp):
GCGAAGCAGATCAAAGAAACAGATCTTGTCTTCATGTACTGGC
Found at i:7324928 original size:88 final size:88
Alignment explanation
Indices: 7324835--7325086 Score: 405
Period size: 88 Copynumber: 2.9 Consensus size: 88
7324825 CTGATCTTGC
* *
7324835 CTTCCCATACTGGTGGCGAAGCAGATAAAAGAAAGCAGATCTTGTTTTCATGTACTGGCGTGAAG
1 CTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAG
7324900 TAGATCAAAGAAACAGATCTTAT
66 TAGATCAAAGAAACAGATCTTAT
7324923 CTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAG
1 CTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAG
*
7324988 TAGATCAAAGAAACAGATCTTGT
66 TAGATCAAAGAAACAGATCTTAT
* * * * * * * *
7325011 CTCCCCATACTGGTGGTGGAGTAGGTCGAAGAAAACAGATCGTGTCTTCATGTACTGGCGTGAAG
1 CTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAG
7325076 TAGATCAAAGA
66 TAGATCAAAGA
7325087 TAGTAGGTCC
Statistics
Matches: 153, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 153 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (88 bp):
CTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAG
TAGATCAAAGAAACAGATCTTAT
Found at i:7324949 original size:44 final size:45
Alignment explanation
Indices: 7324811--7325059 Score: 227
Period size: 44 Copynumber: 5.6 Consensus size: 45
7324801 AGTAGATCAG
* * *
7324811 AGATCAGAAAAAAGCTGATCTTGCCTTCCCATACTGGTGGCGAAGC
1 AGATCA-AAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGC
* * *** * * *
7324857 AGATAAAAGAAAGCAGATCTTGTTTTCATGTACTGG-CGTGAAGT
1 AGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGC
*
7324901 AGATCAAAGAAA-CAGATCTTATCTTCCCATACTGGTGGCGAAGC
1 AGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGC
*** * * *
7324945 AGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGT
1 AGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGC
* * * *
7324989 AGATCAAAGAAA-CAGATCTTGTCTCCCCATACTGGTGGTGGAGT
1 AGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGC
* * * *
7325033 AGGTCGAAGAAAACAGATCGTGTCTTC
1 AGATCAAAGAAAGCAGATCTTGTCTTC
7325060 ATGTACTGGC
Statistics
Matches: 162, Mismatches: 37, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
43 37 0.23
44 66 0.41
45 54 0.33
46 5 0.03
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (45 bp):
AGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGC
Found at i:7325147 original size:88 final size:87
Alignment explanation
Indices: 7324827--7325129 Score: 351
Period size: 88 Copynumber: 3.4 Consensus size: 87
7324817 GAAAAAAGCT
* ** * *
7324827 GATCTTGCCTTCCCATACTGGTGGCGAAGCAGAT-AAAAGAAAGCAGATCTTGTTTTCATGTACT
1 GATCTTGTCTTCCCATACTGGTGGCGAAGTGGATCGAAA-AAA-CAGATCTTGTCTTCATGTACT
7324891 GGCGTGAAGTAGATCAAAGAAACA
64 GGCGTGAAGTAGATCAAAGAAACA
* **
7324915 GATCTTATCTTCCCATACTGGTGGCGAAGCAGATC-AAAGAAAGCAGATCTTGTCTTCATGTACT
1 GATCTTGTCTTCCCATACTGGTGGCGAAGTGGATCGAAA-AAA-CAGATCTTGTCTTCATGTACT
7324979 GGCGTGAAGTAGATCAAAGAAACA
64 GGCGTGAAGTAGATCAAAGAAACA
* * * *
7325003 GATCTTGTCTCCCCATACTGGTGGTGGAGTAGG-TCGAAGAAAACAGATCGTGTCTTCATGTACT
1 GATCTTGTCTTCCCATACTGGTGGCGAAGT-GGATCGAA-AAAACAGATCTTGTCTTCATGTACT
**
7325067 GGCGTGAAGTAGATCAAAGATAGTA
64 GGCGTGAAGTAGATCAAAGA-AACA
* * * * *
7325092 GGTCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAA
1 GATCTTGTCTTCCCATACTGGTGGCGAAGTGGATCGAA
7325130 TATACATATT
Statistics
Matches: 189, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
88 153 0.81
89 35 0.19
90 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (87 bp):
GATCTTGTCTTCCCATACTGGTGGCGAAGTGGATCGAAAAAACAGATCTTGTCTTCATGTACTGG
CGTGAAGTAGATCAAAGAAACA
Found at i:7346797 original size:14 final size:14
Alignment explanation
Indices: 7346778--7346828 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
7346768 TTGAACTGTA
7346778 AAATATTTATTATT
1 AAATATTTATTATT
*
7346792 AAATATTTATAAATT
1 AAATATTTAT-TATT
7346807 GCAACATATTT-TTATT
1 --AA-ATATTTATTATT
7346823 AAATAT
1 AAATAT
7346829 AAACATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 4 0.13
14 12 0.39
15 3 0.10
16 3 0.10
17 3 0.10
18 6 0.19
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (14 bp):
AAATATTTATTATT
Found at i:7346798 original size:31 final size:31
Alignment explanation
Indices: 7346763--7346828 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
7346753 TGAAATATTC
* *
7346763 ATATTT-TGAACTGTAAAATATTTATTATTAA
1 ATATTTATAAACTGCAAAATATTT-TTATTAA
* *
7346794 ATATTTATAAATTGCAACATATTTTTATTAA
1 ATATTTATAAACTGCAAAATATTTTTATTAA
7346825 ATAT
1 ATAT
7346829 AAACATAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 17 0.57
32 13 0.43
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (31 bp):
ATATTTATAAACTGCAAAATATTTTTATTAA
Found at i:7346884 original size:20 final size:20
Alignment explanation
Indices: 7346855--7346898 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
7346845 CATTAATATA
7346855 TTAAAATATTA-TTTAAAAT
1 TTAAAATATTATTTTAAAAT
7346874 TTAAAATTATTATTTTTAAAAT
1 TTAAAA-TATTA-TTTTAAAAT
7346896 TTA
1 TTA
7346899 TTATTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.27
20 5 0.23
22 11 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTAAAATATTATTTTAAAAT
Found at i:7346893 original size:15 final size:16
Alignment explanation
Indices: 7346873--7346903 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7346863 TTATTTAAAA
7346873 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
7346888 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
7346904 AAAATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:7346930 original size:17 final size:19
Alignment explanation
Indices: 7346892--7346937 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
7346882 ATTATTTTTA
7346892 AAATTTAT--TATTAAAAT
1 AAATTTATAATATTAAAAT
*
7346909 AAATTTGTAATATT-AAAT
1 AAATTTATAATATTAAAAT
7346927 -AATTTATAATA
1 AAATTTATAATA
7346938 ATTTATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 17 0.68
18 4 0.16
19 4 0.16
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
AAATTTATAATATTAAAAT
Found at i:7353675 original size:19 final size:19
Alignment explanation
Indices: 7353646--7353699 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
7353636 AATCTTCAAG
7353646 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
7353665 GGTATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
7353684 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
7353700 AGATATGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:7353725 original size:22 final size:21
Alignment explanation
Indices: 7353646--7353725 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 21
7353636 AATCTTCAAG
*
7353646 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
7353665 GGTATGTAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
7353684 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
7353706 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
7353726 TTAATTTGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 28 0.55
22 12 0.24
23 11 0.22
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:7354678 original size:27 final size:29
Alignment explanation
Indices: 7354628--7354697 Score: 110
Period size: 27 Copynumber: 2.5 Consensus size: 29
7354618 AAATTAAAAA
*
7354628 TTACCAAAATGT-TATAAATTTTTTTTAT
1 TTACCAAAATATATATAAATTTTTTTTAT
7354656 TTACCAAAATATATAT-AA-TTTTTTTAT
1 TTACCAAAATATATATAAATTTTTTTTAT
7354683 TTACCAAAATATATA
1 TTACCAAAATATATA
7354698 AAAAAACAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 24 0.60
28 13 0.32
29 3 0.08
ACGTcount: A:0.41, C:0.09, G:0.01, T:0.49
Consensus pattern (29 bp):
TTACCAAAATATATATAAATTTTTTTTAT
Found at i:7354801 original size:27 final size:27
Alignment explanation
Indices: 7354760--7354839 Score: 133
Period size: 27 Copynumber: 3.0 Consensus size: 27
7354750 ACTCCCTGGG
*
7354760 ACAAGGGAACACTGTTGGCGGCACCAA
1 ACAAGGGAACCCTGTTGGCGGCACCAA
7354787 ACAAGGGAACCCTGTTGGCGGCACCAA
1 ACAAGGGAACCCTGTTGGCGGCACCAA
**
7354814 ACAAGGGTTCCCTGTTGGCGGCACCA
1 ACAAGGGAACCCTGTTGGCGGCACCA
7354840 CTCGTGTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.28, C:0.29, G:0.30, T:0.14
Consensus pattern (27 bp):
ACAAGGGAACCCTGTTGGCGGCACCAA
Found at i:7354949 original size:21 final size:20
Alignment explanation
Indices: 7354919--7354957 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
7354909 AGGTGCTGCG
7354919 GAAAAAAAGAGAAAAAGAGA
1 GAAAAAAAGAGAAAAAGAGA
7354939 GAAAAAGAAGAGAAAAAGA
1 GAAAAA-AAGAGAAAAAGA
7354958 AGTTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (20 bp):
GAAAAAAAGAGAAAAAGAGA
Found at i:7354956 original size:11 final size:11
Alignment explanation
Indices: 7354919--7354959 Score: 68
Period size: 10 Copynumber: 3.9 Consensus size: 11
7354909 AGGTGCTGCG
7354919 GAAAAA-AAGA
1 GAAAAAGAAGA
7354929 GAAAAAG-AGA
1 GAAAAAGAAGA
7354939 GAAAAAGAAGA
1 GAAAAAGAAGA
7354950 GAAAAAGAAG
1 GAAAAAGAAG
7354960 TTATTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 16 0.55
11 13 0.45
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAGA
Found at i:7355134 original size:3 final size:3
Alignment explanation
Indices: 7355126--7355160 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
7355116 AATTTTATAG
7355126 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
7355161 AGATGTTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:7355270 original size:12 final size:12
Alignment explanation
Indices: 7355126--7355270 Score: 55
Period size: 12 Copynumber: 11.8 Consensus size: 12
7355116 AATTTTATAG
*
7355126 TATTATTATTAT
1 TATTATTATTAA
*
7355138 TATTATTATTAT
1 TATTATTATTAA
7355150 TATTATTATTAA
1 TATTATTATTAA
* * *
7355162 GA-TGTTACTTAG
1 TATTATTA-TTAA
* *
7355174 TATTATTGTTAG
1 TATTATTATTAA
* ** *
7355186 TA-AAAAATTAC
1 TATTATTATTAA
*
7355197 TATTATT-TTTA
1 TATTATTATTAA
7355208 TAGTTAGTTATTAA
1 TA-TTA-TTATTAA
*
7355222 TAATT-TTAGTTAG
1 T-ATTATTA-TTAA
*
7355235 TATTATTTTGTATA
1 TATTATTAT-TA-A
**
7355249 TAAAATTATTAA
1 TATTATTATTAA
7355261 TATTATTATT
1 TATTATTATT
7355271 GTGTTAGTTA
Statistics
Matches: 96, Mismatches: 26, Indels: 22
0.67 0.18 0.15
Matches are distributed among these distances:
11 14 0.15
12 54 0.56
13 15 0.16
14 12 0.12
15 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.56
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:7358159 original size:18 final size:18
Alignment explanation
Indices: 7358133--7358170 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
7358123 ATCACAATGA
*
7358133 TCGCCACCACATTCTTCT
1 TCGCAACCACATTCTTCT
7358151 TCGCAACCACATTCTTCT
1 TCGCAACCACATTCTTCT
7358169 TC
1 TC
7358171 ACCACCAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.42, G:0.05, T:0.34
Consensus pattern (18 bp):
TCGCAACCACATTCTTCT
Found at i:7358177 original size:18 final size:18
Alignment explanation
Indices: 7358136--7358177 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
7358126 ACAATGATCG
*
7358136 CCACCACATTCTTCTTCG
1 CCACCACATTCTTCTTCA
*
7358154 CAACCACATTCTTCTTCA
1 CCACCACATTCTTCTTCA
7358172 CCACCA
1 CCACCA
7358178 ACCATATCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (18 bp):
CCACCACATTCTTCTTCA
Found at i:7370212 original size:46 final size:46
Alignment explanation
Indices: 7370145--7370284 Score: 235
Period size: 46 Copynumber: 3.0 Consensus size: 46
7370135 ACAATGCTAT
* * *
7370145 AACTCAGTATAGTTTCCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
7370191 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
7370237 AACTCAGTATGGCTTTATTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
7370283 AA
1 AA
7370285 TTTTCCATGG
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 89 1.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.34
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:7371280 original size:27 final size:25
Alignment explanation
Indices: 7371220--7371280 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 25
7371210 CCCGGCCCAT
* *
7371220 TTTTAAAATAAACATTAAAAAATTA
1 TTTTAAAATAAAAATAAAAAAATTA
7371245 TTTTAAAAATAAAAAAATAAAAAAATTA
1 TTTT-AAAAT--AAAAATAAAAAAATTA
7371273 TTTTAAAA
1 TTTTAAAA
7371281 GTATTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 4 0.13
26 5 0.16
27 4 0.13
28 18 0.58
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (25 bp):
TTTTAAAATAAAAATAAAAAAATTA
Found at i:7371404 original size:26 final size:27
Alignment explanation
Indices: 7371342--7371404 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
7371332 GGCCGGGCCG
*
7371342 GGCCCGGGCCAAAAAAGTGGTGCCCGA
1 GGCCCAGGCCAAAAAAGTGGTGCCCGA
7371369 GGCCCAGGCCAAAAAAGTGGTGCCCGA
1 GGCCCAGGCCAAAAAAGTGGTGCCCGA
7371396 GGCCC-GGCC
1 GGCCCAGGCC
7371405 TGTTTTTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 4 0.11
27 31 0.89
ACGTcount: A:0.24, C:0.33, G:0.37, T:0.06
Consensus pattern (27 bp):
GGCCCAGGCCAAAAAAGTGGTGCCCGA
Found at i:7378656 original size:23 final size:23
Alignment explanation
Indices: 7378630--7378797 Score: 264
Period size: 23 Copynumber: 7.3 Consensus size: 23
7378620 ATAAGTGCCA
7378630 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
7378653 CACTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
7378676 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
7378699 CACTGATACGTAGCTGAATCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
7378722 CACTGATACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
7378745 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
7378768 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
7378791 CACTGAT
1 CACTGAT
7378798 CAATAACACT
Statistics
Matches: 131, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 131 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:7381322 original size:12 final size:12
Alignment explanation
Indices: 7381307--7381335 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
7381297 TTACTGTTTT
7381307 ATTTAATATTTC
1 ATTTAATATTTC
7381319 ATTTAATATTTC
1 ATTTAATATTTC
7381331 ATTTA
1 ATTTA
7381336 TTTATTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTAATATTTC
Found at i:7382948 original size:16 final size:16
Alignment explanation
Indices: 7382929--7382962 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7382919 TGTGTTTTGC
*
7382929 TTTGATTGCATGACAT
1 TTTGACTGCATGACAT
*
7382945 TTTGACTGCATGGCAT
1 TTTGACTGCATGACAT
7382961 TT
1 TT
7382963 CATCATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (16 bp):
TTTGACTGCATGACAT
Found at i:7384916 original size:22 final size:22
Alignment explanation
Indices: 7384891--7384935 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
7384881 AATAAATGAG
7384891 ATGTGTGGACTTATATGAAGAC
1 ATGTGTGGACTTATATGAAGAC
7384913 ATGTGTGGACTTATATGAAGAC
1 ATGTGTGGACTTATATGAAGAC
7384935 A
1 A
7384936 AGGAACATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (22 bp):
ATGTGTGGACTTATATGAAGAC
Found at i:7386270 original size:41 final size:41
Alignment explanation
Indices: 7386211--7386313 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 41
7386201 TATCTTATGC
* * *
7386211 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCAGGT
*
7386252 GATCTGAATCAGGTTATAAACCTAGCAGGCTCAGTGCAGGT
1 GATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCAGGT
*
7386293 GATCTGAATCAAGTTATAAAC
1 GATCTGAATCAGGTTATAAAC
7386314 TTATATGCAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.24
Consensus pattern (41 bp):
GATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCAGGT
Found at i:7389696 original size:22 final size:23
Alignment explanation
Indices: 7389671--7389714 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
7389661 AGATCCAATT
7389671 AAAAAATA-TTTCAAAAAAAATC
1 AAAAAATATTTTCAAAAAAAATC
7389693 AAAAAATATTTTTCAAAAAAAA
1 AAAAAATA-TTTTCAAAAAAAA
7389715 AGAAAGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (23 bp):
AAAAAATATTTTCAAAAAAAATC
Found at i:7389742 original size:15 final size:15
Alignment explanation
Indices: 7389724--7389752 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7389714 AAGAAAGAAA
7389724 GAAAATGATGAAAAT
1 GAAAATGATGAAAAT
7389739 GAAAATGATGAAAA
1 GAAAATGATGAAAA
7389753 AAGGAAAGAA
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:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (15 bp):
GAAAATGATGAAAAT
Found at i:7389782 original size:16 final size:17
Alignment explanation
Indices: 7389751--7389793 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
7389741 AAATGATGAA
* *
7389751 AAAAGGAAAGAAAAA-G
1 AAAAGAAAAAAAAAAGG
*
7389767 AGAAGAAAAAAAAAAGG
1 AAAAGAAAAAAAAAAGG
7389784 AAAAGAAAAA
1 AAAAGAAAAA
7389794 GGAGAGGTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAAAAAAGG
Found at i:7389794 original size:12 final size:12
Alignment explanation
Indices: 7389749--7389796 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
7389739 GAAAATGATG
7389749 AAAAAAGGAAAGA
1 AAAAAAGGAAA-A
*
7389762 AAAAGAGAAGAAAA
1 AAAA-A-AGGAAAA
7389776 AAAAAAGGAAAA
1 AAAAAAGGAAAA
*
7389788 GAAAAAGGA
1 AAAAAAGGA
7389797 GAGGTCAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 14 0.47
13 5 0.17
14 6 0.20
15 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AAAAAAGGAAAA
Found at i:7391118 original size:51 final size:50
Alignment explanation
Indices: 7391048--7391329 Score: 236
Period size: 46 Copynumber: 5.9 Consensus size: 50
7391038 AGTCATTATG
7391048 GCGAAT-TTATTT-CCTCGGCGTTGTAGTGAAACAGATTAAAGCTGAAGGCA
1 GCGAATCTTATTTCCCT-GGCGTTGTAGTG-AACAGATTAAAGCTGAAGGCA
* * * * *
7391098 ACGAATCTTATTTCCCCGGCGTTGCATTGGAACAGATTAAAGCTCAAGGCA
1 GCGAATCTTATTTCCCTGGCGTTGTAGT-GAACAGATTAAAGCTGAAGGCA
* * * * *
7391149 GCAAATCTTATTTCCCTAGC---GT--TGCACAGACTAAAGTTGAAGGCA
1 GCGAATCTTATTTCCCTGGCGTTGTAGTGAACAGATTAAAGCTGAAGGCA
* * * *
7391194 GC-AAGTCTTATTTCTCTGGC-AT-T-G-CAACAGATTAAAGCTGAAGGCT
1 GCGAA-TCTTATTTCCCTGGCGTTGTAGTGAACAGATTAAAGCTGAAGGCA
* * *
7391240 GCGAGTCTTATTTCCCTGGCGCTGCAGT----AGATTAAAGCTGAAGGCA
1 GCGAATCTTATTTCCCTGGCGTTGTAGTGAACAGATTAAAGCTGAAGGCA
* *
7391286 GCGAATCTTATTTCTCTGGCATTGTAGTGGAACAGATTAAAGCT
1 GCGAATCTTATTTCCCTGGCGTTGTAGT-GAACAGATTAAAGCT
7391330 ACAAATCATG
Statistics
Matches: 184, Mismatches: 31, Indels: 33
0.74 0.12 0.13
Matches are distributed among these distances:
44 2 0.01
45 33 0.18
46 75 0.41
47 2 0.01
48 1 0.01
49 1 0.01
50 5 0.03
51 62 0.34
52 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (50 bp):
GCGAATCTTATTTCCCTGGCGTTGTAGTGAACAGATTAAAGCTGAAGGCA
Found at i:7391251 original size:91 final size:92
Alignment explanation
Indices: 7391079--7391309 Score: 268
Period size: 91 Copynumber: 2.5 Consensus size: 92
7391069 TGTAGTGAAA
* * * * *
7391079 CAGATTAAAGCTGAAGGCAACGAATCTTATTTCCCCGGCGTTGCATTGGAACAGATTAAAGCTCA
1 CAGACTAAAGCTGAAGGCAGCGAATCTTATTT---C-TC-TGGCATTGCAACAGATTAAAGCTCA
*
7391144 AGGCAGCAAATCTTATTTCCCTAGCGTTGCA-
61 AGGCAGCAAATCTTATTTCCCTAGCGCTGCAG
* *
7391175 CAGACTAAAGTTGAAGGCAGC-AAGTCTTATTTCTCTGGCATTGCAACAGATTAAAGCTGAAGGC
1 CAGACTAAAGCTGAAGGCAGCGAA-TCTTATTTCTCTGGCATTGCAACAGATTAAAGCTCAAGGC
* * * *
7391239 TGCGAGTCTTATTTCCCTGGCGCTGCAG
65 AGCAAATCTTATTTCCCTAGCGCTGCAG
* *
7391267 TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCTCTGGCATTG
1 CAGACTAAAGCTGAAGGCAGCGAATCTTATTTCTCTGGCATTG
7391310 TAGTGGAACA
Statistics
Matches: 117, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
91 48 0.41
92 38 0.32
93 3 0.03
95 2 0.02
96 26 0.22
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (92 bp):
CAGACTAAAGCTGAAGGCAGCGAATCTTATTTCTCTGGCATTGCAACAGATTAAAGCTCAAGGCA
GCAAATCTTATTTCCCTAGCGCTGCAG
Found at i:7391667 original size:9 final size:9
Alignment explanation
Indices: 7391650--7391686 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
7391640 TGAGTTTTCG
7391650 AATTCGAAT
1 AATTCGAAT
*
7391659 AACTCGAAT
1 AATTCGAAT
7391668 AATTCGAAT
1 AATTCGAAT
7391677 AATTCGAAT
1 AATTCGAAT
7391686 A
1 A
7391687 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:7394084 original size:16 final size:16
Alignment explanation
Indices: 7394035--7394084 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
7394025 TCTATTGTTC
7394035 TTATTTTTTA-GTTAATA
1 TTATTTTTTATG-T-ATA
* *
7394052 TTA-TTTTTATATCTA
1 TTATTTTTTATGTATA
7394067 TTATTTTTTATGTATA
1 TTATTTTTTATGTATA
7394083 TT
1 TT
7394085 TAAATCTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
15 5 0.19
16 19 0.70
17 3 0.11
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (16 bp):
TTATTTTTTATGTATA
Found at i:7394235 original size:12 final size:12
Alignment explanation
Indices: 7394227--7394259 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
7394217 ATTTTTACTG
7394227 TTTTATTTAATA
1 TTTTATTTAATA
*
7394239 TTTCATTTAATA
1 TTTTATTTAATA
7394251 TTTTATTTA
1 TTTTATTTA
7394260 TTTACTTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTATTTAATA
Found at i:7395493 original size:21 final size:19
Alignment explanation
Indices: 7395469--7395531 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
7395459 AAAAATTATA
*
7395469 AAAAAATCAAAATAACTTTT
1 AAAAATTCAAAATAA-TTTT
*
7395489 CAAAAATTTAAAATAATTTT
1 -AAAAATTCAAAATAATTTT
*
7395509 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
7395528 AAAA
1 AAAA
7395532 TCTAATATTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 4 0.11
19 15 0.42
20 4 0.11
21 13 0.36
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:7395515 original size:19 final size:19
Alignment explanation
Indices: 7395470--7395532 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 19
7395460 AAAATTATAA
* *
7395470 AAAAATCAAAATAACTTTTCA
1 AAAATTCAAAATAA-TTTT-T
*
7395491 AAAATTTAAAATAATTTTT
1 AAAATTCAAAATAATTTTT
*
7395510 AAAATTCAAAAT-ATTTAT
1 AAAATTCAAAATAATTTTT
7395528 AAAAT
1 AAAAT
7395533 CTAATATTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 10 0.27
19 11 0.30
20 4 0.11
21 12 0.32
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:7399434 original size:9 final size:9
Alignment explanation
Indices: 7399420--7399445 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
7399410 CATCATCTTC
7399420 TTCTTGTTG
1 TTCTTGTTG
7399429 TTCTTGTTG
1 TTCTTGTTG
7399438 TTCTTGTT
1 TTCTTGTT
7399446 CTTCCCTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.19, T:0.69
Consensus pattern (9 bp):
TTCTTGTTG
Found at i:7401333 original size:22 final size:22
Alignment explanation
Indices: 7401305--7401349 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
7401295 AGAGTACATC
7401305 ACAACTATATCTTGATCATGAT
1 ACAACTATATCTTGATCATGAT
7401327 ACAACTATATCTTGATCATGAT
1 ACAACTATATCTTGATCATGAT
7401349 A
1 A
7401350 GACATCCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (22 bp):
ACAACTATATCTTGATCATGAT
Found at i:7402233 original size:18 final size:18
Alignment explanation
Indices: 7402206--7402251 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
7402196 CTTGTTTAGT
* *
7402206 AATA-TTTTTATTTCGAA
1 AATATTTTTTATTCCAAA
*
7402223 AGTATTTTTTATTCCAAA
1 AATATTTTTTATTCCAAA
7402241 AATATTTTTTA
1 AATATTTTTTA
7402252 AAAATAATGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (18 bp):
AATATTTTTTATTCCAAA
Found at i:7405714 original size:14 final size:15
Alignment explanation
Indices: 7405695--7405733 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
7405685 GAAGTAGAGG
*
7405695 AATTAAATTTA-TAA
1 AATTAAATTTAGAAA
*
7405709 AATTAAAATTAGAAA
1 AATTAAATTTAGAAA
7405724 AATTAAATTT
1 AATTAAATTT
7405734 CAAAATTACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
AATTAAATTTAGAAA
Found at i:7410526 original size:20 final size:20
Alignment explanation
Indices: 7410498--7410535 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7410488 CGATTTTTAA
*
7410498 TAAACATAAAAAAAATATTT
1 TAAAAATAAAAAAAATATTT
7410518 TAAAAATAAAAAAAATAT
1 TAAAAATAAAAAAAATAT
7410536 ATATTTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAAATAAAAAAAATATTT
Found at i:7413499 original size:22 final size:21
Alignment explanation
Indices: 7413468--7413518 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
7413458 AATAGAGCCC
7413468 TTAAAAAAT-ATGTGAGTATTT
1 TTAAAAAATAATGTGAGT-TTT
*
7413489 TTAAAGAAATAAATTTGAGTTTT
1 TTAAA-AAAT-AATGTGAGTTTT
7413512 TTAAAAA
1 TTAAAAA
7413519 CTAACCTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 5 0.19
22 6 0.23
23 8 0.31
24 7 0.27
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (21 bp):
TTAAAAAATAATGTGAGTTTT
Found at i:7417527 original size:16 final size:16
Alignment explanation
Indices: 7417508--7417546 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
7417498 GCTGAGTTCT
* *
7417508 TTTCTTTTGTTTTTTC
1 TTTCTTTCGTTTTTGC
*
7417524 TTTCATTCGTTTTTGC
1 TTTCTTTCGTTTTTGC
7417540 TTTCTTT
1 TTTCTTT
7417547 GCTACTGCCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.03, C:0.15, G:0.08, T:0.74
Consensus pattern (16 bp):
TTTCTTTCGTTTTTGC
Found at i:7419568 original size:21 final size:20
Alignment explanation
Indices: 7419534--7419573 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
7419524 AAAATTTATC
*
7419534 CCGAACCCTGAACTTCAAACA
1 CCGAACCCTAAAC-TCAAACA
*
7419555 CCGAATCCTAAACTCAAAC
1 CCGAACCCTAAACTCAAAC
7419574 CCTAAATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.40, C:0.38, G:0.07, T:0.15
Consensus pattern (20 bp):
CCGAACCCTAAACTCAAACA
Found at i:7419620 original size:19 final size:21
Alignment explanation
Indices: 7419570--7419622 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
7419560 TCCTAAACTC
*
7419570 AAACCCTAAATCTTAAATCTT
1 AAACCCTAAATCTCAAATCTT
*
7419591 AAACTCTAAAT-TCAAAT-TT
1 AAACCCTAAATCTCAAATCTT
*
7419610 GAACCCTAAATCT
1 AAACCCTAAATCT
7419623 TGAAACATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 11 0.41
20 6 0.22
21 10 0.37
ACGTcount: A:0.43, C:0.23, G:0.02, T:0.32
Consensus pattern (21 bp):
AAACCCTAAATCTCAAATCTT
Found at i:7419905 original size:16 final size:17
Alignment explanation
Indices: 7419870--7419908 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
7419860 AGTGAAAAAT
* *
7419870 GAAAATTTGAAGTGATA
1 GAAAATTAGAAGTCATA
7419887 GAAAATTAGAA-TCATA
1 GAAAATTAGAAGTCATA
7419903 GAAAAT
1 GAAAAT
7419909 ATAATTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.54, C:0.03, G:0.18, T:0.26
Consensus pattern (17 bp):
GAAAATTAGAAGTCATA
Found at i:7425837 original size:6 final size:6
Alignment explanation
Indices: 7425814--7425887 Score: 112
Period size: 6 Copynumber: 12.3 Consensus size: 6
7425804 GTTTATTTGC
* * *
7425814 TATCTG TATTTA TATCTG TATCTG TATCTG TATATG TATCTG TATCTG
1 TATCTG TATCTG TATCTG TATCTG TATCTG TATCTG TATCTG TATCTG
*
7425862 TATCTG TATCTG TATCTA TATCTG TA
1 TATCTG TATCTG TATCTG TATCTG TA
7425888 AAGGACTTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.22, C:0.14, G:0.14, T:0.51
Consensus pattern (6 bp):
TATCTG
Found at i:7443358 original size:2 final size:2
Alignment explanation
Indices: 7443351--7443386 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7443341 ATTTTGGATA
7443351 AT AT AT AT AT 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 AT AT AT AT AT
7443387 GTTAGAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7454148 original size:30 final size:30
Alignment explanation
Indices: 7454104--7454166 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
7454094 ACTTAACAAG
7454104 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
7454134 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
7454164 CAA
1 CAA
7454167 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:7454214 original size:14 final size:14
Alignment explanation
Indices: 7454197--7454227 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7454187 ATTCAAACAA
7454197 TAACAACAAAATAG
1 TAACAACAAAATAG
*
7454211 TAACAACATAATAG
1 TAACAACAAAATAG
7454225 TAA
1 TAA
7454228 AATGGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:7454567 original size:17 final size:16
Alignment explanation
Indices: 7454517--7454572 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 16
7454507 TAAATACTTA
7454517 TTTTTGTAATTATTAT
1 TTTTTGTAATTATTAT
* *
7454533 GTTTT-T--TTATTTT
1 TTTTTGTAATTATTAT
7454546 TTTTTGTAATTAATTAT
1 TTTTTGTAATT-ATTAT
*
7454563 TTTTTATAAT
1 TTTTTGTAAT
7454573 ATTTAAGTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
13 10 0.32
14 1 0.03
15 1 0.03
16 6 0.19
17 13 0.42
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.71
Consensus pattern (16 bp):
TTTTTGTAATTATTAT
Found at i:7458547 original size:26 final size:26
Alignment explanation
Indices: 7458491--7458548 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
7458481 GGGATGGGTC
* * *
7458491 AGAGGTCCTTTGAGTTTGAGTTGGTT
1 AGAGGACCCTTGAGTTTAAGTTGGTT
*
7458517 GGAGGACCCTTGAGTTTAAGTTAGG-T
1 AGAGGACCCTTGAGTTTAAGTT-GGTT
7458543 AGAGGA
1 AGAGGA
7458549 TTATGAGCGG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.22, C:0.09, G:0.36, T:0.33
Consensus pattern (26 bp):
AGAGGACCCTTGAGTTTAAGTTGGTT
Found at i:7462590 original size:51 final size:52
Alignment explanation
Indices: 7462521--7462618 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 52
7462511 ATGTTGATAA
* * *
7462521 TGCAAAAAAGTATTTTCAGAATATTTTTAGTTGTGGAAAATCTTCTGAATGT
1 TGCAAAAAAGTATTTTCAGAATATTTTCAGTTGAGGAAAATCCTCTGAATGT
*
7462573 TGCAAAAAA-TATTTTCAGAATATTTTCGGTTGAGGAAAATCCTCTG
1 TGCAAAAAAGTATTTTCAGAATATTTTCAGTTGAGGAAAATCCTCTG
7462619 CTATTTTTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
51 33 0.79
52 9 0.21
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (52 bp):
TGCAAAAAAGTATTTTCAGAATATTTTCAGTTGAGGAAAATCCTCTGAATGT
Found at i:7466037 original size:20 final size:21
Alignment explanation
Indices: 7466014--7466052 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
7466004 ATTAATCCAT
7466014 TTGATTAAC-AATTAATTAAA
1 TTGATTAACTAATTAATTAAA
*
7466034 TTGATTAACTAGTTAATTA
1 TTGATTAACTAATTAATTA
7466053 TATATACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (21 bp):
TTGATTAACTAATTAATTAAA
Found at i:7470441 original size:34 final size:34
Alignment explanation
Indices: 7470375--7470455 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 34
7470365 TAATCTATTT
* ** *
7470375 TAAGCATATTATTTGCTGTTGTATTGAACTGTTA
1 TAAGCATATTAATTGCTACTGTACTGAACTGTTA
**
7470409 TAAGCATATTAATTGCTACTGTACTGTCCTGTTA
1 TAAGCATATTAATTGCTACTGTACTGAACTGTTA
*
7470443 AAAGCATAATTAA
1 TAAGCAT-ATTAA
7470456 ATTGTATCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 34 0.87
35 5 0.13
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (34 bp):
TAAGCATATTAATTGCTACTGTACTGAACTGTTA
Found at i:7470707 original size:45 final size:45
Alignment explanation
Indices: 7470658--7470748 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
7470648 GTACATCTAT
** * *
7470658 AGCCTAGTGGTAGATTTTATCTGTGATATTTTGCTGTACACCCAC
1 AGCCTAGTGACAGATTTTATCTGCGATATTTTGCAGTACACCCAC
*
7470703 AGCCTAGTGACAGATTTTATCTGCGATATTTTGCAGTGCACCCAC
1 AGCCTAGTGACAGATTTTATCTGCGATATTTTGCAGTACACCCAC
7470748 A
1 A
7470749 TCCCGGTGGC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (45 bp):
AGCCTAGTGACAGATTTTATCTGCGATATTTTGCAGTACACCCAC
Found at i:7476365 original size:11 final size:12
Alignment explanation
Indices: 7476344--7476368 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7476334 TATATTGACA
7476344 TTTTAATTTTTT
1 TTTTAATTTTTT
7476356 TTTTAATTTTTT
1 TTTTAATTTTTT
7476368 T
1 T
7476369 GATGATATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTAATTTTTT
Found at i:7478008 original size:45 final size:43
Alignment explanation
Indices: 7477955--7478346 Score: 316
Period size: 45 Copynumber: 8.8 Consensus size: 43
7477945 AGATTTGCTC
* *
7477955 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAATATCTGCTT
1 TCTTCGATCTACTTC-CCACCAGTATGGGAAGACAAGATCTG-TA
* * * *
7478000 TATTCGATCTACTCCACCACCAGTATGGGGAGACAATATCTGGTA
1 TCTTCGATCTACTTC-CCACCAGTATGGGAAGACAAGATCT-GTA
* * * *** * *
7478045 TCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGTTT
1 TCTTCGATCTACTTCCCACCAGTATGGGAAGACAAGATCTG-TA
* * *
7478089 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATTTGGTA
1 TCTTCGATCTACTTC-CCACCAGTATGGGAAGACAAGATCT-GTA
* * * ** *
7478134 TCTTCGATCTACTTCACGCCAATATATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCCCACCAGTATGGGAAGACAAGATCTG-TA
* * *
7478178 TCTTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTA
1 TC-TTCGATCTACTTC-CCACCAGTATGGGAAGACAAGATCTGTA
* * * ***
7478223 TATTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTA
1 TCTTCGATCTACTTCCCACCAGTATGGGAAGACAAGATCTGTA
*
7478266 TTCCTTCGATCTGCTTCACCACCAGTATGGGAAGACAAGATCTGTA
1 -T-CTTCGATCTACTTC-CCACCAGTATGGGAAGACAAGATCTGTA
* * * * *
7478312 TATTCGATCCACTTCGCTACCAATATAGGAAGACA
1 TCTTCGATCTACTTC-CCACCAGTATGGGAAGACA
7478347 GGACCTGCTG
Statistics
Matches: 268, Mismatches: 69, Indels: 21
0.75 0.19 0.06
Matches are distributed among these distances:
43 23 0.09
44 92 0.34
45 109 0.41
46 44 0.16
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
TCTTCGATCTACTTCCCACCAGTATGGGAAGACAAGATCTGTA
Found at i:7478076 original size:89 final size:89
Alignment explanation
Indices: 7477822--7478326 Score: 539
Period size: 89 Copynumber: 5.7 Consensus size: 89
7477812 AAGACTTGTA
* * * * *
7477822 TATTCGATCTACTTCACCACCAGTATGGGAAGACAAGATTTGCTTTCTTCAATCTACTTCACGTC
1 TATTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTCGATCTACTTCACGCC
7477887 AATACATGAAGACAAGATCTGTTT
66 AATACATGAAGACAAGATCTGTTT
* * * * * **** * * * * * *
7477911 TATTCAATCTGCTTTA-CGCCAATACATAAAGATAAGATTTGCTCTCTTCGATCTACTTCGCCAC
1 TATTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTCGATCTACTTC-ACGC
* *** * *
7477975 CAGTATGGGAAGACAATATCTGCTT
65 CAATACATGAAGACAAGATCTGTTT
* * *
7478000 TATTCGATCTACTCCACCACCAGTATGGGGAGACAATATCTGGTATCTTCGATCTACTTCACGCC
1 TATTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTCGATCTACTTCACGCC
*
7478065 AATACATGAAGATAAGATCTGTTT
66 AATACATGAAGACAAGATCTGTTT
* * * *
7478089 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATTTGGTATCTTCGATCTACTTCACGCC
1 TATTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTCGATCTACTTCACGCC
*
7478154 AATATATGAAGACAAGATCTGTTT
66 AATACATGAAGACAAGATCTGTTT
* * * * * *
7478178 TCTTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCT-GTATATTCGATCTACTTCACGC
1 T-ATTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTCGATCTACTTCACGC
*
7478242 CAGTACATGAAGACAAGATCTGTATT
65 CAATACATGAAGACAAGATCTGT-TT
** * * *
7478268 CCTTCGATCTGCTTCACCACCAGTATGGGAAGACAAGATCT-GTATATTCGATCCACTTC
1 TATTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTCGATCTACTTC
7478327 GCTACCAATA
Statistics
Matches: 344, Mismatches: 68, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
88 34 0.10
89 245 0.71
90 65 0.19
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (89 bp):
TATTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTCGATCTACTTCACGCC
AATACATGAAGACAAGATCTGTTT
Found at i:7478167 original size:178 final size:178
Alignment explanation
Indices: 7477822--7478355 Score: 606
Period size: 178 Copynumber: 3.0 Consensus size: 178
7477812 AAGACTTGTA
* * * * *
7477822 TATTCGATCTACTTCACCACCAGTATGGGAAGACAAGATTTGCTTTCTTCAATCTACTTCACGTC
1 TATTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTCGATCTACTTCACGCC
* * * * * **** *
7477887 AATACATGAAGACAAGATCTGTTTTATTCAATCTGCTTTA-CGCCAATACATAAAGATAAGATTT
66 AATACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCACCACCAGTATGGGAAGACAAGATTT
* * * * * *
7477951 GCTCTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAATATCTGCTT
131 GGTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGATCTGCTT
* * *
7478000 TATTCGATCTACTCCACCACCAGTATGGGGAGACAATATCTGGTATCTTCGATCTACTTCACGCC
1 TATTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTCGATCTACTTCACGCC
* * * *
7478065 AATACATGAAGATAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATTT
66 AATACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCACCACCAGTATGGGAAGACAAGATTT
* * *
7478130 GGTATCTTCGATCTACTTCACGCCAATATATGAAGACAAGATCTGTTT
131 GGTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCTT
* * * * * *
7478178 TCTTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCT-GTATATTCGATCTACTTCACGC
1 T-ATTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTCGATCTACTTCACGC
* *
7478242 CAGTACATGAAGACAAGATCTGTATTCCTTCGATCTGCTTCACCACCAGTATGGGAAGACAAGAT
65 CAATACATGAAGACAAGATCTGT-TTTCTTCGATCTGCTTCACCACCAGTATGGGAAGACAAGAT
* * * * * *
7478307 CT-GTATATTCGATCCACTTCGCTACCAATATAGGAAGACAGGACCTGCT
129 TTGGTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGATCTGCT
7478356 GCTTTTCAAC
Statistics
Matches: 297, Mismatches: 55, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
178 173 0.58
179 124 0.42
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (178 bp):
TATTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTCGATCTACTTCACGCC
AATACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCACCACCAGTATGGGAAGACAAGATTT
GGTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCTT
Found at i:7478221 original size:46 final size:44
Alignment explanation
Indices: 7477824--7478346 Score: 339
Period size: 44 Copynumber: 11.7 Consensus size: 44
7477814 GACTTGTATA
* *
7477824 TTCGATCTACTTCACCACCAGTATGGGAAGACAAGATTTGCTTTC
1 TTCGATCTACTTC-CCACCAGTATGGGAAGACAAGATCTGTTTTC
* * ** * *** *
7477869 TTCAATCTACTTCACGTCAATACATGAAGACAAGATCTGTTTTA
1 TTCGATCTACTTCCCACCAGTATGGGAAGACAAGATCTGTTTTC
* * ** * * **** * * * *
7477913 TTCAATCTGCTTTACGCCAATACATAAAGATAAGATTTGCTCTC
1 TTCGATCTACTTCCCACCAGTATGGGAAGACAAGATCTGTTTTC
* * *
7477957 TTCGATCTACTTCGCCACCAGTATGGGAAGACAATATCTGCTTTA
1 TTCGATCTACTTC-CCACCAGTATGGGAAGACAAGATCTGTTTTC
* * * * *
7478002 TTCGATCTACTCCACCACCAGTATGGGGAGACAATATCTGGTATC
1 TTCGATCTACTTC-CCACCAGTATGGGAAGACAAGATCTGTTTTC
* * * *** *
7478047 TTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGTTTTC
1 TTCGATCTACTTCCCACCAGTATGGGAAGACAAGATCTGTTTTC
* * * * *
7478091 TTCGATCTACTCCACCACCAGTATGGGGAGACAAGATTTGGTATC
1 TTCGATCTACTTC-CCACCAGTATGGGAAGACAAGATCTGTTTTC
* * * **
7478136 TTCGATCTACTTCACGCCAATATATGAAGACAAGATCTGTTTTC
1 TTCGATCTACTTCCCACCAGTATGGGAAGACAAGATCTGTTTTC
* * * * *
7478180 TTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTG-TATA
1 -TTCGATCTACTTC-CCACCAGTATGGGAAGACAAGATCTGTTTTC
* * *** *
7478225 TTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTATTCC
1 TTCGATCTACTTCCCACCAGTATGGGAAGACAAGATCTGT-TTTC
* * *
7478270 TTCGATCTGCTTCACCACCAGTATGGGAAGACAAGATCTG-TATA
1 TTCGATCTACTTC-CCACCAGTATGGGAAGACAAGATCTGTTTTC
* * * *
7478314 TTCGATCCACTTCGCTACCAATATAGGAAGACA
1 TTCGATCTACTTC-CCACCAGTATGGGAAGACA
7478347 GGACCTGCTG
Statistics
Matches: 360, Mismatches: 111, Indels: 15
0.74 0.23 0.03
Matches are distributed among these distances:
43 19 0.05
44 160 0.44
45 141 0.39
46 40 0.11
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (44 bp):
TTCGATCTACTTCCCACCAGTATGGGAAGACAAGATCTGTTTTC
Found at i:7478229 original size:134 final size:134
Alignment explanation
Indices: 7477808--7478310 Score: 425
Period size: 134 Copynumber: 3.8 Consensus size: 134
7477798 AACTTCAGGG
* *
7477808 AGATAAGA-CTTG-TATATTCGATCTACTTCACCACCAGTATGGGAAGACAAGATTTGCTTTCTT
1 AGATAAGATC-TGCTATATTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTT
* ** * * * *
7477871 CAATCTACTTCA-CGTCAATACATGAAGACAAGATCTGTTTTATTCAATCTGCTTTACGCCA--A
65 CGATCTACTTCACCACCAATATAGGAAGACAAGATCTGTTTTCTTCGATCTGC-TT-CGCCACCA
*
7477933 TACATAA
128 TACATGA
* * * * * * *
7477940 AGATAAGATTTGCTCTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAATATCTGCTTTATTC
1 AGATAAGATCTGCTATATTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTC
* * * * * * * *
7478005 GATCTACTCCACCACCAGTATGGGGAGACAATATCTGGTATCTTCGATCTACTTCACGCCA--AT
66 GATCTACTTCACCACCAATATAGGAAGACAAGATCTGTTTTCTTCGATCTGCTT--CGCCACCAT
7478068 ACATGA
129 ACATGA
* * * * * * *
7478074 AGATAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATTTGGTATCTTC
1 AGATAAGATCTGCTATATTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTC
* *
7478139 GATCTACTTCA-CGCCAATATATGAAGACAAGATCTGTTTTCTTTCGATCTGCTTCGCCACCAGT
66 GATCTACTTCACCACCAATATAGGAAGACAAGATCTGTTTTC-TTCGATCTGCTTCGCCACCA-T
***
7478203 ATGGGA
129 ACATGA
*** * ***
7478209 AGGCGAGATCTG-TATATTCGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTG-TATTCCT
1 AGATAAGATCTGCTATATTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTA-T-CT
* * *
7478271 TCGATCTGCTTCACCACCAGTATGGGAAGACAAGATCTGT
64 TCGATCTACTTCACCACCAATATAGGAAGACAAGATCTGT
7478311 ATATTCGATC
Statistics
Matches: 296, Mismatches: 64, Indels: 19
0.78 0.17 0.05
Matches are distributed among these distances:
132 17 0.06
133 99 0.33
134 145 0.49
135 35 0.12
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (134 bp):
AGATAAGATCTGCTATATTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTC
GATCTACTTCACCACCAATATAGGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCATAC
ATGA
Found at i:7479723 original size:46 final size:46
Alignment explanation
Indices: 7479633--7479723 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
7479623 AGCCTCTCCA
* * * *
7479633 TTTTTTTTTTACTCAAGGCTCCCTTTGTAGGGTGTCACCCTGGTCT
1 TTTTTTTTTTACTCAAAGCGCCCTTTGTAGGCTGTCACACTGGTCT
* *
7479679 TTTTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACATTGGTC
1 TTTTTTTTTTACTCAAAGCGCCCTTTGTAGGCTGTCACACTGGTC
7479724 CCACCTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (46 bp):
TTTTTTTTTTACTCAAAGCGCCCTTTGTAGGCTGTCACACTGGTCT
Found at i:7484591 original size:24 final size:23
Alignment explanation
Indices: 7484547--7484591 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
7484537 GTTTTATGGC
*
7484547 TTTTAGGGTTTAGGGTGCAGGCT
1 TTTTAGGGTTTAGGGTCCAGGCT
7484570 TTTTAGGAG-TTAGGGGTCCAGG
1 TTTTAGG-GTTTA-GGGTCCAGG
7484592 AAATTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.16, C:0.09, G:0.40, T:0.36
Consensus pattern (23 bp):
TTTTAGGGTTTAGGGTCCAGGCT
Found at i:7487225 original size:22 final size:22
Alignment explanation
Indices: 7487195--7487236 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7487185 ATTTGGAGAT
*
7487195 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
7487217 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
7487237 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:7487257 original size:52 final size:51
Alignment explanation
Indices: 7487186--7487288 Score: 120
Period size: 52 Copynumber: 2.0 Consensus size: 51
7487176 TTAATATGGA
* * *
7487186 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
* *
7487237 TTTGAGAGAATTTTGGAAGGAGATTGATAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
7487289 AAATTTTGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
51 4 0.09
52 31 0.70
53 9 0.20
ACGTcount: A:0.34, C:0.00, G:0.33, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:7487319 original size:22 final size:22
Alignment explanation
Indices: 7487238--7487329 Score: 123
Period size: 22 Copynumber: 4.2 Consensus size: 22
7487228 ATTTGAGAGT
*
7487238 TTGAGAG-AATTTTGGAAGGAGA
1 TTGAGAGAAATTTTGAAAGGA-A
* *
7487260 TTGATAGAAATTTTGAAGGGAA
1 TTGAGAGAAATTTTGAAAGGAA
7487282 TTGAGAGAAATTTTGAAAGGAA
1 TTGAGAGAAATTTTGAAAGGAA
* *
7487304 TTGAGAGAATTTTTGAAAGAAA
1 TTGAGAGAAATTTTGAAAGGAA
7487326 TTGA
1 TTGA
7487330 TATTGAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
22 51 0.82
23 11 0.18
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.30
Consensus pattern (22 bp):
TTGAGAGAAATTTTGAAAGGAA
Found at i:7490084 original size:62 final size:62
Alignment explanation
Indices: 7489987--7490146 Score: 221
Period size: 62 Copynumber: 2.6 Consensus size: 62
7489977 GTAATGTCAC
* * * *
7489987 ATTTGCTACTTGTACTTTTATAAAATGTTCAATGTGATACCTAAACTATTAATTTGTATATT
1 ATTTGGTACTTGTACTTTCATAAAATGTCCAATGTGATACCTAAACTATCAATTTGTATATT
* * * *
7490049 ATTTGGTATTTGTACTTTCATAAAATGTCCAATGTGGTACCTGAACTATCAATTTGTGTATT
1 ATTTGGTACTTGTACTTTCATAAAATGTCCAATGTGATACCTAAACTATCAATTTGTATATT
* * *
7490111 ATTTAGTACTTGTACTTTCATAAATTGTCTAATGTG
1 ATTTGGTACTTGTACTTTCATAAAATGTCCAATGTG
7490147 GTACTTATAT
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 86 1.00
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (62 bp):
ATTTGGTACTTGTACTTTCATAAAATGTCCAATGTGATACCTAAACTATCAATTTGTATATT
Found at i:7495809 original size:28 final size:27
Alignment explanation
Indices: 7495766--7495853 Score: 97
Period size: 28 Copynumber: 3.2 Consensus size: 27
7495756 AGCCCCGTGA
* *
7495766 CAAGTGGTATCCGAGCAAGGTTCGAAC
1 CAAGTGGTATTCGAGCAAGGTTTGAAC
* *
7495793 CAAG-GAGATATTCGAGCCAGGTTTAAAC
1 CAAGTG-G-TATTCGAGCAAGGTTTGAAC
*
7495821 CAAGTGGTATTCGAGCCAAGTTTTGAAC
1 CAAGTGGTATTCGAG-CAAGGTTTGAAC
7495849 CAAGT
1 CAAGT
7495854 AATATCTGAG
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 13 0.26
28 35 0.70
29 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (27 bp):
CAAGTGGTATTCGAGCAAGGTTTGAAC
Found at i:7516911 original size:17 final size:19
Alignment explanation
Indices: 7516867--7516911 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
7516857 ACAAAAAATG
*
7516867 ATAAAAAGTAAGATTTATA
1 ATAAAAATTAAGATTTATA
*
7516886 A-AAATATTAA-ATTTA-A
1 ATAAAAATTAAGATTTATA
7516902 ATAAAAATTA
1 ATAAAAATTA
7516912 TAAAAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
16 2 0.09
17 12 0.55
18 7 0.32
19 1 0.05
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (19 bp):
ATAAAAATTAAGATTTATA
Found at i:7516914 original size:9 final size:9
Alignment explanation
Indices: 7516902--7517026 Score: 69
Period size: 9 Copynumber: 13.2 Consensus size: 9
7516892 TTAAATTTAA
7516902 ATAAAAATT
1 ATAAAAATT
7516911 ATAAAAAATTT
1 AT-AAAAA-TT
7516922 ATTAAAAATT
1 A-TAAAAATT
*
7516932 ATAAAAATCGC
1 ATAAAAAT--T
7516943 A-AAAAATT
1 ATAAAAATT
7516951 AT-AAAATT
1 ATAAAAATT
* * *
7516959 TTATAAAGTC
1 ATA-AAAATT
7516969 ATAAAAAATT
1 AT-AAAAATT
7516979 ATAAAAA-T
1 ATAAAAATT
* *
7516987 ACAAAGAAAT
1 ATAAA-AATT
7516997 AT-AAAATT
1 ATAAAAATT
*
7517005 CGTAAAAAATT
1 -AT-AAAAATT
7517016 ATAAAAATT
1 ATAAAAATT
7517025 AT
1 AT
7517027 CGTACTAAAA
Statistics
Matches: 89, Mismatches: 13, Indels: 28
0.68 0.10 0.22
Matches are distributed among these distances:
8 16 0.18
9 28 0.31
10 28 0.31
11 16 0.18
12 1 0.01
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.30
Consensus pattern (9 bp):
ATAAAAATT
Found at i:7516917 original size:10 final size:10
Alignment explanation
Indices: 7516904--7517026 Score: 66
Period size: 10 Copynumber: 12.9 Consensus size: 10
7516894 AAATTTAAAT
7516904 AAAAATTATA
1 AAAAATTATA
*
7516914 AAAAATTTATT
1 AAAAA-TTATA
7516925 AAAAATTAT-
1 AAAAATTATA
***
7516934 AAAAATCGCA
1 AAAAATTATA
7516944 AAAAATTAT-
1 AAAAATTATA
*
7516953 -AAAATTTTA
1 AAAAATTATA
* * *
7516962 TAAAGTCATA
1 AAAAATTATA
7516972 AAAAATTAT-
1 AAAAATTATA
*
7516981 AAAAA-TACA
1 AAAAATTATA
7516990 AAGAAA-TAT-
1 AA-AAATTATA
*
7516999 -AAAATTCGTA
1 AAAAATT-ATA
7517009 AAAAATTAT-
1 AAAAATTATA
7517018 AAAAATTAT
1 AAAAATTAT
7517027 CGTACTAAAA
Statistics
Matches: 85, Mismatches: 18, Indels: 21
0.69 0.15 0.17
Matches are distributed among these distances:
7 3 0.04
8 11 0.13
9 23 0.27
10 33 0.39
11 15 0.18
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (10 bp):
AAAAATTATA
Found at i:7516929 original size:21 final size:22
Alignment explanation
Indices: 7516894--7516938 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
7516884 TAAAAATATT
7516894 AAATTTAAATAAAAATTATAAA
1 AAATTTAAATAAAAATTATAAA
*
7516916 AAATTT-ATTAAAAATTATAAA
1 AAATTTAAATAAAAATTATAAA
7516937 AA
1 AA
7516939 TCGCAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATTTAAATAAAAATTATAAA
Found at i:7516985 original size:29 final size:28
Alignment explanation
Indices: 7516902--7516986 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
7516892 TTAAATTTAA
*
7516902 ATAAAAATTATAAAAAATTTATTAAAAATT
1 ATAAAAATCATAAAAAA-TTA-TAAAAATT
**
7516932 ATAAAAATCGCAAAAAATTAT-AAAATT
1 ATAAAAATCATAAAAAATTATAAAAATT
* *
7516959 TTATAAAGTCATAAAAAATTATAAAAAT
1 ATA-AAAATCATAAAAAATTATAAAAAT
7516987 ACAAAGAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
27 8 0.17
28 16 0.35
29 8 0.17
30 14 0.30
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (28 bp):
ATAAAAATCATAAAAAATTATAAAAATT
Found at i:7517020 original size:19 final size:18
Alignment explanation
Indices: 7516970--7517021 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
7516960 TATAAAGTCA
7516970 TAAAAAATTATAAAAATAC
1 TAAAAAATTAT-AAAATAC
*
7516989 -AAAGAAA-TATAAAATTC
1 TAAA-AAATTATAAAATAC
7517006 GTAAAAAATTATAAAA
1 -TAAAAAATTATAAAA
7517022 ATTATCGTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
17 6 0.21
18 9 0.32
19 13 0.46
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (18 bp):
TAAAAAATTATAAAATAC
Found at i:7517275 original size:29 final size:30
Alignment explanation
Indices: 7517212--7517290 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 30
7517202 TTTTTATGTA
* *
7517212 TTTTATAATTTTTTAAATAAAATATAAATACT
1 TTTTAT-ATTTTTT-ATTAAAATATAAATAAT
*
7517244 TTTTATATTTTTTATTAAAATCT-AATAAT
1 TTTTATATTTTTTATTAAAATATAAATAAT
* **
7517273 TTTCATAACTTTTATTAA
1 TTTTATATTTTTTATTAA
7517291 TTTTTACTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 20 0.49
30 8 0.20
31 7 0.17
32 6 0.15
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (30 bp):
TTTTATATTTTTTATTAAAATATAAATAAT
Found at i:7517530 original size:88 final size:88
Alignment explanation
Indices: 7517398--7517566 Score: 200
Period size: 87 Copynumber: 1.9 Consensus size: 88
7517388 TCAAAGGGCA
* ** ** *
7517398 TTTTTGATGCATTTGACCGTTCAAGTACCCAATTGAGCGCAAAAAAAAAAAG-GAGTTTAATTGC
1 TTTTTGATGCATTTAAAAGTTCAAGTACCCAATTGAAAG-AAAAAAAAAAAGAGA-TTTAATTAC
*
7517462 TTTTTT-TGAAAAAAATTAAGGGTC
64 TTTTTTCTAAAAAAAATTAAGGGTC
* **
7517486 TTTTTGATGCATTTTAAAAGTTCAAGTACCCAATT-AAATAAAAAAAAGCAGAGATTTAATTACT
1 TTTTTGATGCA-TTTAAAAGTTCAAGTACCCAATTGAAAGAAAAAAAAAAAGAGATTTAATTACT
7517550 TTTTTCTAAAAAAAATT
65 TTTTTCTAAAAAAAATT
7517567 GAAAACTTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
87 24 0.35
88 24 0.35
89 20 0.29
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (88 bp):
TTTTTGATGCATTTAAAAGTTCAAGTACCCAATTGAAAGAAAAAAAAAAAGAGATTTAATTACTT
TTTTCTAAAAAAAATTAAGGGTC
Found at i:7526306 original size:18 final size:20
Alignment explanation
Indices: 7526285--7526332 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
7526275 ATATATTTTT
7526285 TATTTT-TA-ATCAAATATA
1 TATTTTATATATCAAATATA
*
7526303 TATTTTATATATTAAATATA
1 TATTTTATATATCAAATATA
*
7526323 TATTTAATAT
1 TATTTTATAT
7526333 GGGCCGGGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 6 0.23
19 2 0.08
20 18 0.69
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTTTATATATCAAATATA
Found at i:7526720 original size:11 final size:11
Alignment explanation
Indices: 7526689--7526833 Score: 107
Period size: 11 Copynumber: 13.9 Consensus size: 11
7526679 ACCAAAAATT
7526689 TATTTT-AAAA
1 TATTTTAAAAA
*
7526699 T-TTTAAAAAA
1 TATTTTAAAAA
7526709 TATTTTAAAAA
1 TATTTTAAAAA
7526720 TATTTTAAAAAA
1 TATTTT-AAAAA
7526732 TATTTT--AAA
1 TATTTTAAAAA
7526741 -A--TTAAAAA
1 TATTTTAAAAA
* *
7526749 AAATTTAAAAA
1 TATTTTAAAAA
7526760 GTATTTTAAAAA
1 -TATTTTAAAAA
7526772 TATTTT--AAA
1 TATTTTAAAAA
*
7526781 -A-TTAAAAAA
1 TATTTTAAAAA
***
7526790 TAATAAAAAAAA
1 T-ATTTTAAAAA
7526802 GTATTTTAAAAA
1 -TATTTTAAAAA
7526814 TATTTT-AAAA
1 TATTTTAAAAA
7526824 TATTTTAAAA
1 TATTTTAAAA
7526834 TTAAAAAATT
Statistics
Matches: 109, Mismatches: 10, Indels: 31
0.73 0.07 0.21
Matches are distributed among these distances:
6 2 0.02
7 2 0.02
8 5 0.05
9 13 0.12
10 16 0.15
11 37 0.34
12 33 0.30
13 1 0.01
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:7526750 original size:42 final size:41
Alignment explanation
Indices: 7526689--7526824 Score: 186
Period size: 40 Copynumber: 3.3 Consensus size: 41
7526679 ACCAAAAATT
7526689 TATTTTAAAATTTTAAAAAATATTTTAAAAA-TATTTTAAAAAA
1 TATTTTAAAA--TTAAAAAATATTTTAAAAAGTATTTT-AAAAA
*
7526732 TATTTTAAAATTAAAAAA-AATTTAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAATATTTTAAAAAGTATTTTAAAAA
***
7526772 TATTTTAAAATTAAAAAATAATAAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAT-ATTTTAAAAAGTATTTTAAAAA
7526814 TATTTTAAAAT
1 TATTTTAAAAT
7526825 ATTTTAAAAT
Statistics
Matches: 85, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
40 32 0.38
41 14 0.16
42 29 0.34
43 10 0.12
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (41 bp):
TATTTTAAAATTAAAAAATATTTTAAAAAGTATTTTAAAAA
Done.