Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 196 of 410
Found at i:59919552 original size:21 final size:21
Alignment explanation
Indices: 59919526--59919565 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
59919516 TCTTCAGTCT
*
59919526 TGATGG-TGAATTCGGCTTTTG
1 TGATGGATCAATT-GGCTTTTG
59919547 TGATGGATCAATTGGCTTT
1 TGATGGATCAATTGGCTTT
59919566 CTTGGAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.17, C:0.10, G:0.30, T:0.42
Consensus pattern (21 bp):
TGATGGATCAATTGGCTTTTG
Found at i:59928623 original size:43 final size:43
Alignment explanation
Indices: 59928542--59928624 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
59928532 ATCGACATCG
* **
59928542 TATTTGATTTCATGTAAGACCCTGTCTAGGACAGTGGCATCTA
1 TATTTGATTACATGTAAGACCAGGTCTAGGACAGTGGCATCTA
*
59928585 TATTTGATTACATGTAAGACCAGGTCTGGGAC-GTTGGCAT
1 TATTTGATTACATGTAAGACCAGGTCTAGGACAG-TGGCAT
59928625 TGTACGAGCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 1 0.03
43 34 0.97
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
TATTTGATTACATGTAAGACCAGGTCTAGGACAGTGGCATCTA
Found at i:59939628 original size:16 final size:16
Alignment explanation
Indices: 59939590--59939629 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
59939580 TTTCCAACCG
59939590 ATTTGATGCTATTGCC
1 ATTTGATGCTATTGCC
* *
59939606 ATATGATGCTATTGCT
1 ATTTGATGCTATTGCC
59939622 ATTTGATG
1 ATTTGATG
59939630 AGTTTCATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.45
Consensus pattern (16 bp):
ATTTGATGCTATTGCC
Found at i:59945005 original size:46 final size:46
Alignment explanation
Indices: 59944955--59945126 Score: 208
Period size: 45 Copynumber: 3.7 Consensus size: 46
59944945 TGGTTGAGCA
*
59944955 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
59945001 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
59945048 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
59945094 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59945127 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
43 6 0.06
45 34 0.32
46 30 0.28
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:59952570 original size:46 final size:46
Alignment explanation
Indices: 59952520--59952692 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
59952510 TGGTTGAGCA
*
59952520 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
59952566 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
59952613 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
59952659 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59952693 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:59952676 original size:93 final size:93
Alignment explanation
Indices: 59952517--59952687 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
59952507 GGATGGTTGA
* *
59952517 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
59952582 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
59952610 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
59952675 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
59952688 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59955879 original size:26 final size:26
Alignment explanation
Indices: 59955846--59955900 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
59955836 CAGGCGTGTC
59955846 TGTCTGCCACGTGAGTCACACGGCTG
1 TGTCTGCCACGTGAGTCACACGGCTG
**
59955872 TGTCTGCCGTGTGAGTCACACGGCTG
1 TGTCTGCCACGTGAGTCACACGGCTG
59955898 TGT
1 TGT
59955901 GACCCCTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (26 bp):
TGTCTGCCACGTGAGTCACACGGCTG
Found at i:59956734 original size:32 final size:32
Alignment explanation
Indices: 59956690--59956754 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
59956680 CTTGAGCCAA
*
59956690 TTTAGTTGATGAATTGAGCATGAATAGATGAT
1 TTTAGTTAATGAATTGAGCATGAATAGATGAT
59956722 TTTAGTTAATGAATTGAGCATGAATAGATGAT
1 TTTAGTTAATGAATTGAGCATGAATAGATGAT
59956754 T
1 T
59956755 AATGCTATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.38
Consensus pattern (32 bp):
TTTAGTTAATGAATTGAGCATGAATAGATGAT
Found at i:59957228 original size:55 final size:55
Alignment explanation
Indices: 59957122--59957237 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 55
59957112 ACATTTTGTT
* *
59957122 ACACGGTCTAGCATATGACTTGTAACACGACCGTGTGACCCAACTTCGAATA-TAC
1 ACACGGTCTAGCATATGACCTGTAACACGACCATGTGACCCAACTTCGAATACT-C
* * * * * *
59957177 ACACGGTCTAGC-TCATGGCCTGTGACACGACCATGTGGCCCTATTTGGAATACTC
1 ACACGGTCTAGCAT-ATGACCTGTAACACGACCATGTGACCCAACTTCGAATACTC
59957232 ACACGG
1 ACACGG
59957238 GCAGACACAC
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
54 1 0.02
55 49 0.96
56 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (55 bp):
ACACGGTCTAGCATATGACCTGTAACACGACCATGTGACCCAACTTCGAATACTC
Found at i:59958059 original size:112 final size:112
Alignment explanation
Indices: 59957862--59958086 Score: 432
Period size: 112 Copynumber: 2.0 Consensus size: 112
59957852 CTATAACCAT
59957862 TAGCTCATTTTCTTAAATCATCAACTGTTTGTCACCAGGAACAGTTTACTATTAACAAAACATAA
1 TAGCTCATTTTCTTAAATCATCAACTGTTTGTCACCAGGAACAGTTTACTATTAACAAAACATAA
*
59957927 TCCATACTTCTATCTACTATATCATGGTTAATTTTCCCTTATTATTG
66 TCCATACTTCTATCTACTATATCATGGTCAATTTTCCCTTATTATTG
*
59957974 TAGCTCATTTTCTTAAATCATCAACTGTTTGTCACCAGGAATAGTTTACTATTAACAAAACATAA
1 TAGCTCATTTTCTTAAATCATCAACTGTTTGTCACCAGGAACAGTTTACTATTAACAAAACATAA
59958039 TCCATACTTCTATCTACTATATCATGGTCAATTTTCCCTTATTATTG
66 TCCATACTTCTATCTACTATATCATGGTCAATTTTCCCTTATTATTG
59958086 T
1 T
59958087 TTCATCAGTG
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 111 1.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.40
Consensus pattern (112 bp):
TAGCTCATTTTCTTAAATCATCAACTGTTTGTCACCAGGAACAGTTTACTATTAACAAAACATAA
TCCATACTTCTATCTACTATATCATGGTCAATTTTCCCTTATTATTG
Found at i:59975648 original size:25 final size:26
Alignment explanation
Indices: 59975613--59975670 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
59975603 CACTTTTATC
59975613 TTTA-TTTATCTTC-TTTAAGTACT-T
1 TTTATTTTATCTTCATTTAA-TACTAT
59975637 TTTATTTTATCTTCATTTAATACTAT
1 TTTATTTTATCTTCATTTAATACTAT
*
59975663 TTCATTTT
1 TTTATTTT
59975671 TAGGTTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 4 0.13
25 13 0.43
26 13 0.43
ACGTcount: A:0.22, C:0.12, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTATTTTATCTTCATTTAATACTAT
Found at i:59979526 original size:48 final size:46
Alignment explanation
Indices: 59979407--59979628 Score: 200
Period size: 46 Copynumber: 4.7 Consensus size: 46
59979397 GTGATATGCG
* *
59979407 AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-A-ATATGA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAT-A
* * *
59979452 GAGCCAGTGTAAGACATTTTTGGGACATGCATCGGCCTCGAGATATTTA
1 -AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATA--TA
* * * * *
59979501 AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGACGA-G
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA-TATA
* * * *
59979547 AGCTAGTGTAACACATGTCTGGGACATGCATTGGCCTCGCGATACACA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAT--ATA
*
59979595 AGCTAGTGTAAGA-ACTATCTGGGACATGTCATCG
1 AGCTAGTGTAAGACA-TGTCTGGGACATG-CATCG
59979629 ACACTGATAG
Statistics
Matches: 142, Mismatches: 24, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
46 69 0.49
47 3 0.02
48 63 0.44
49 6 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (46 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATA
Found at i:59979620 original size:94 final size:93
Alignment explanation
Indices: 59979407--59979628 Score: 257
Period size: 94 Copynumber: 2.4 Consensus size: 93
59979397 GTGATATGCG
* * * * *
59979407 AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAATATGAGAGCCAGTGTAAGACATTTT
1 AGCTAGTGTAAGACATGTCTGGGACATGCATC-GCCACAAGACGAGAGCCAGTGTAACACATGTC
***
59979472 TGGGACATGCATCGGCCTCGAGATATTTA
65 TGGGACATGCATCGGCCTCGAGATACACA
* * ** *
59979501 AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGACGAGAGCTAGTGTAACACATGTC
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGCCA-CAAGACGAGAGCCAGTGTAACACATGTC
* *
59979566 TGGGACATGCATTGGCCTCGCGATACACA
65 TGGGACATGCATCGGCCTCGAGATACACA
*
59979595 AGCTAGTGTAAGA-ACTATCTGGGACATGTCATCG
1 AGCTAGTGTAAGACA-TGTCTGGGACATG-CATCG
59979629 ACACTGATAG
Statistics
Matches: 108, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
93 4 0.04
94 99 0.92
95 5 0.05
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (93 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGCCACAAGACGAGAGCCAGTGTAACACATGTCT
GGGACATGCATCGGCCTCGAGATACACA
Found at i:59986373 original size:198 final size:198
Alignment explanation
Indices: 59986125--59986720 Score: 1147
Period size: 198 Copynumber: 3.0 Consensus size: 198
59986115 GTATGAAATT
*
59986125 TGGGTCATGGTTGAATATGCTAAAAATTTGAAAATTATGGTAGAAAAATGAAAAGTTATTCATAG
1 TGGGTCATGGTTGAATATGCTAAAAATTTGAAATTTATGGTAGAAAAATGAAAAGTTATTCATAG
59986190 ATAAACAACTTTTACAAAGCAATTTTTGATGAAAACTTGATTCAATGACTAAAATGAAAAAGTGG
66 ATAAACAACTTTTACAAAGCAATTTTTGATGAAAACTTGATTCAATGACTAAAATGAAAAAGTGG
*
59986255 TAAAACCCATGGAAAATTTTGAAATTTATGAAATGTATGTACTGTAAATGTAGTATATAAATTTC
131 TAAAACCCATGGAAAATTCTGAAATTTATGAAATGTATGTACTGTAAATGTAGTATATAAATTTC
59986320 AGC
196 AGC
59986323 TGGGTCATGGTTGAATATGCTAAAAATTTGAAATTTATGGTAGAAAAATGAAAAGTTATTCATAG
1 TGGGTCATGGTTGAATATGCTAAAAATTTGAAATTTATGGTAGAAAAATGAAAAGTTATTCATAG
*
59986388 ATAAACAACTTTTACAAAGCAATTTTTGATGAAAACTAGATTCAATGACTAAAATGAAAAAGTGG
66 ATAAACAACTTTTACAAAGCAATTTTTGATGAAAACTTGATTCAATGACTAAAATGAAAAAGTGG
*
59986453 TAAAACCCATGGAAAATTCTAAAATTTATGAAATGTATGTACTGTAAATGTAGTATATAAATTTC
131 TAAAACCCATGGAAAATTCTGAAATTTATGAAATGTATGTACTGTAAATGTAGTATATAAATTTC
59986518 AGC
196 AGC
59986521 TGGGTCATGGTTGAATATGCTAAAAATTTGAAATTTATGGTAGAAAAATGAAAAGTTATTCATAG
1 TGGGTCATGGTTGAATATGCTAAAAATTTGAAATTTATGGTAGAAAAATGAAAAGTTATTCATAG
59986586 ATAAACAACTTTTACAAAGCAATTTTTGATGAAAACTTGATTCAATGACTAAAATGAAAAAGTGG
66 ATAAACAACTTTTACAAAGCAATTTTTGATGAAAACTTGATTCAATGACTAAAATGAAAAAGTGG
59986651 TAAAAACCCATGGAAAATTCTGAAATTTATGAAATGTATGTACTGTAAATGTAGTATATAAATTT
131 T-AAAACCCATGGAAAATTCTGAAATTTATGAAATGTATGTACTGTAAATGTAGTATATAAATTT
59986716 CAGC
195 CAGC
59986720 T
1 T
59986721 AGGCTTGGAA
Statistics
Matches: 391, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
198 324 0.83
199 67 0.17
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.32
Consensus pattern (198 bp):
TGGGTCATGGTTGAATATGCTAAAAATTTGAAATTTATGGTAGAAAAATGAAAAGTTATTCATAG
ATAAACAACTTTTACAAAGCAATTTTTGATGAAAACTTGATTCAATGACTAAAATGAAAAAGTGG
TAAAACCCATGGAAAATTCTGAAATTTATGAAATGTATGTACTGTAAATGTAGTATATAAATTTC
AGC
Found at i:59988677 original size:28 final size:29
Alignment explanation
Indices: 59988645--59988743 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
59988635 ATAATAAGCC
*
59988645 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
59988673 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
59988701 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
59988730 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59988744 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:59996672 original size:28 final size:29
Alignment explanation
Indices: 59996640--59996738 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
59996630 ATAATAAGCC
*
59996640 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
59996668 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
59996696 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
59996725 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59996739 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:60000291 original size:40 final size:40
Alignment explanation
Indices: 60000247--60000353 Score: 155
Period size: 40 Copynumber: 2.7 Consensus size: 40
60000237 CGGATGATAA
*
60000247 CCGGGCTAAGTCCCGAAGGCATGTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
60000287 CCGGGCTAAGTCCCGAA-GCATTTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCA-TTTGTGCGAGTTACTATTT
* * *
60000327 TCGAGCTAAG-CCTGAAGGCATTTGTGC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC
60000354 NATGAGGGGG
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
39 15 0.25
40 46 0.75
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:60006449 original size:29 final size:29
Alignment explanation
Indices: 60006410--60006484 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
60006400 GGTTGAGAGA
* *
60006410 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
60006439 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
60006468 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
60006485 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:60009956 original size:39 final size:40
Alignment explanation
Indices: 60009855--60010078 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
60009845 TCGAATGATG
* *
60009855 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
60009894 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
60009935 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTATTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
60009974 TCCGGGTTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
60010013 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
60010052 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
60010079 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
39 73 0.45
40 81 0.49
41 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:60012643 original size:37 final size:37
Alignment explanation
Indices: 60012584--60012729 Score: 229
Period size: 37 Copynumber: 3.9 Consensus size: 37
60012574 AGCTCAGACG
* * *
60012584 AAATCTCCACACGAAGTTATCGGGACTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
60012621 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
60012658 TAATCTCCACACGTAGTCATCGGGTTTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
60012695 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
60012730 ATATATTTCC
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:60012984 original size:48 final size:48
Alignment explanation
Indices: 60012875--60013063 Score: 254
Period size: 48 Copynumber: 3.8 Consensus size: 48
60012865 GCACATCGCC
*
60012875 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC------A
* * *
60012929 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
60012977 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
60013025 TACATATTCCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
60013064 TGCATGTTCA
Statistics
Matches: 124, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
48 81 0.65
49 1 0.01
53 1 0.01
54 41 0.33
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:60013112 original size:47 final size:47
Alignment explanation
Indices: 60013033--60013226 Score: 262
Period size: 47 Copynumber: 4.1 Consensus size: 47
60013023 CATACATATT
* * * *
60013033 CCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 CCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
60013080 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 CCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
60013127 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 CCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * * **
60013174 TCACATTGGCCATTCGGCGTTATCTCATATATACACATTCACATTCA
1 CCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
60013221 TCACAT
1 CCACAT
60013227 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.32
Consensus pattern (47 bp):
CCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:60016927 original size:21 final size:21
Alignment explanation
Indices: 60016901--60016953 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
60016891 TATACTGCCT
60016901 GACCACACGGGCATGTCCCTA
1 GACCACACGGGCATGTCCCTA
60016922 GACCACACGGGCATGTCCCTA
1 GACCACACGGGCATGTCCCTA
60016943 GACCACACGGG
1 GACCACACGGG
60016954 AGTGTGAGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.38, G:0.26, T:0.11
Consensus pattern (21 bp):
GACCACACGGGCATGTCCCTA
Found at i:60020528 original size:40 final size:40
Alignment explanation
Indices: 60020438--60020622 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
60020428 GTATCCAGGC
* * * *
60020438 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAATCCGGGT
* *
60020479 CAATTCCCGAAGGCATTTGTGCGAGTTACC-AATACCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT-CCGGGT
* *
60020519 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGT
* * *
60020559 TAAGTCCCGAAGGCATTTGTGGGAGTTACTAAATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGT
* *
60020599 TAATTCCCGAAGGCAATTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCGA
60020623 ATCACTATAA
Statistics
Matches: 124, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
39 3 0.02
40 100 0.81
41 21 0.17
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCGGGT
Found at i:60020646 original size:80 final size:80
Alignment explanation
Indices: 60020483--60020650 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 80
60020473 CCGGGTCAAT
* * * * *
60020483 TCCCGAAGGCATTTGTGCGAGTTACCAATACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 TCCCGAAGGCATTTGTGCGAGTTACAAATACCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCAC
*
60020548 CAAAACCGAGTTAAG
66 CAAAACCGAGCTAAG
* *
60020563 TCCCGAAGGCATTTGTGGGAGTTACTAAAT-CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCA
1 TCCCGAAGGCATTTGTGCGAGTTAC-AAATACCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCA
* * *
60020627 CTATAACCG-GACTATG
65 CCAAAACCGAG-CTAAG
60020643 TCCCGAAG
1 TCCCGAAG
60020651 ACAGTCGAGC
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 71 0.95
81 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (80 bp):
TCCCGAAGGCATTTGTGCGAGTTACAAATACCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCAC
CAAAACCGAGCTAAG
Found at i:60020647 original size:40 final size:39
Alignment explanation
Indices: 60020441--60020650 Score: 165
Period size: 40 Copynumber: 5.2 Consensus size: 39
60020431 TCCAGGCTAA
* * * * *
60020441 GTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAAT
1 GTCCCGAAGGCATTTGTGC-GAGTTACTAAA-CC-GGACTAT
* ** *
60020483 -TCCCGAAGGCATTTGTGCGAGTTACCAATACCGGGTTAA
1 GTCCCGAAGGCATTTGTGCGAGTTACTAA-ACCGGACTAT
* * *
60020522 GTCCCGAAGGCATTTGTGCGAGTTACCAAAACC-GAGTTAA
1 GTCCCGAAGGCATTTGTGCGAGTTA-CTAAACCGGA-CTAT
* *
60020562 GTCCCGAAGGCATTTGTGGGAGTTACTAAATCCGGGCTAAT
1 GTCCCGAAGGCATTTGTGCGAGTTACTAAA-CCGGACT-AT
* * *
60020603 -TCCCGAAGGCAATTGTGCGAATCACTATAACCGGACTAT
1 GTCCCGAAGGCATTTGTGCGAGTTACTA-AACCGGACTAT
60020642 GTCCCGAAG
1 GTCCCGAAG
60020651 ACAGTCGAGC
Statistics
Matches: 139, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
39 10 0.07
40 104 0.75
41 25 0.18
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
GTCCCGAAGGCATTTGTGCGAGTTACTAAACCGGACTAT
Found at i:60020663 original size:120 final size:121
Alignment explanation
Indices: 60020438--60020664 Score: 280
Period size: 120 Copynumber: 1.9 Consensus size: 121
60020428 GTATCCAGGC
* * *
60020438 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCGAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGA
* * ** * * * *
60020503 GTTACCAATACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGAGT
66 ATCACCAATACCGGACTAAGTCCCGAAGACAGTCGAGCGAGTTACCAAAACCGAGT
* *
60020559 TAAGTCCCGAAGGCATTTGTG-GGAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCG
1 TAAGTCCCGAAGGCATTTGTGCGAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTGCG
* *
60020622 AATCA-CTATAACCGGACTATGTCCCGAAGACAGTCGAGCGAGT
65 AATCACCAAT-ACCGGACTAAGTCCCGAAGACAGTCGAGCGAGT
60020665 CGCTATATCC
Statistics
Matches: 89, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
119 4 0.04
120 65 0.73
121 20 0.22
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (121 bp):
TAAGTCCCGAAGGCATTTGTGCGAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGA
ATCACCAATACCGGACTAAGTCCCGAAGACAGTCGAGCGAGTTACCAAAACCGAGT
Found at i:60023668 original size:47 final size:47
Alignment explanation
Indices: 60023615--60023988 Score: 523
Period size: 47 Copynumber: 8.0 Consensus size: 47
60023605 TTAGGATTTT
** * *
60023615 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
60023662 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
60023709 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
60023756 ATGGGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
60023803 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATAGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
60023850 ATGGGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
60023897 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
60023944 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
60023989 TAGTGTGAAA
Statistics
Matches: 285, Mismatches: 42, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 285 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:60023996 original size:94 final size:94
Alignment explanation
Indices: 60023615--60023988 Score: 595
Period size: 94 Copynumber: 4.0 Consensus size: 94
60023605 TTAGGATTTT
*** * * * * * *
60023615 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCTATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGGGGTGAATATGAACA
60023680 TGCATATATGTGATAAGGCCGAATGGCCA
66 TGCATATATGTGATAAGGCCGAATGGCCA
*
60023709 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCAATGGGGTGAATATGAACA
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGGGGTGAATATGAACA
*
60023774 TGTATATATGTGATAAGGCCGAATGGCCA
66 TGCATATATGTGATAAGGCCGAATGGCCA
*
60023803 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATAGCCAATGGGGTGAATATGAACA
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGGGGTGAATATGAACA
*
60023868 TGTATATATGTGATAAGGCCGAATGGCCA
66 TGCATATATGTGATAAGGCCGAATGGCCA
* *
60023897 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCAAATGGCCAATGTGGTGAATATGAACA
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGGGGTGAATATGAACA
* *
60023962 TGCATATATGTGGTAAAGCCGAATGGC
66 TGCATATATGTGATAAGGCCGAATGGC
60023989 TAGTGTGAAA
Statistics
Matches: 261, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 261 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (94 bp):
ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGGGGTGAATATGAACA
TGCATATATGTGATAAGGCCGAATGGCCA
Found at i:60024203 original size:37 final size:37
Alignment explanation
Indices: 60024153--60024302 Score: 237
Period size: 37 Copynumber: 4.1 Consensus size: 37
60024143 AAATATATTT
* * *
60024153 CGGGTGAGACCCGATGACTACGTGTGGAGAGTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
60024190 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
*
60024227 TGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
* * *
60024264 CGGGTAAGACCCGATAACTTCGTGTGGAGATTTCGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
60024301 CG
1 CG
60024303 AGCTAAAGGT
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.26
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
Found at i:60025336 original size:27 final size:27
Alignment explanation
Indices: 60025279--60025382 Score: 111
Period size: 27 Copynumber: 3.9 Consensus size: 27
60025269 ATTCTCTTCG
* * * * **
60025279 TAGATTGCCATAAAGGCTTCATTTTTG
1 TAGATCGCCACAAAGGCTTCCTTATCA
*
60025306 TAGATCGCCACAAAAGCTTCCTTATCA
1 TAGATCGCCACAAAGGCTTCCTTATCA
**
60025333 TAGATTTCCACAAAGGCTTCCTTATCA
1 TAGATCGCCACAAAGGCTTCCTTATCA
60025360 TAGA-CTGCCACAAAGGCTTCCTT
1 TAGATC-GCCACAAAGGCTTCCTT
60025383 TTTCTAGCGT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (27 bp):
TAGATCGCCACAAAGGCTTCCTTATCA
Found at i:60027883 original size:28 final size:27
Alignment explanation
Indices: 60027838--60027892 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
60027828 GAACAGCTTG
*
60027838 CTAAGGAGATAGGAGCCCTAACCATCCA
1 CTAAGGAGATAGAAGCCC-AACCATCCA
*
60027866 CTAAGGAGA-AGAAGGCCCAACCGTCCA
1 CTAAGGAGATAGAA-GCCCAACCATCCA
60027893 TAAAGGTACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.36, C:0.29, G:0.24, T:0.11
Consensus pattern (27 bp):
CTAAGGAGATAGAAGCCCAACCATCCA
Found at i:60031461 original size:12 final size:12
Alignment explanation
Indices: 60031444--60031471 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
60031434 TTACAAGCAA
60031444 AAATAAATAAAC
1 AAATAAATAAAC
60031456 AAATAAATAAAC
1 AAATAAATAAAC
60031468 AAAT
1 AAAT
60031472 GAATGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (12 bp):
AAATAAATAAAC
Found at i:60037898 original size:22 final size:22
Alignment explanation
Indices: 60037858--60037900 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
60037848 GACTATGCAA
*
60037858 TCTGAGCTCATGAGTTATGTGG
1 TCTGAGCTCAAGAGTTATGTGG
60037880 TCTGAGCTCAAGA-TATATGTG
1 TCTGAGCTCAAGAGT-TATGTG
60037901 ACACATGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (22 bp):
TCTGAGCTCAAGAGTTATGTGG
Found at i:60040845 original size:29 final size:29
Alignment explanation
Indices: 60040813--60040885 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
60040803 CTTCGAGCTC
*
60040813 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
60040842 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
60040871 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
60040886 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:60046386 original size:29 final size:29
Alignment explanation
Indices: 60046296--60046455 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
60046286 ACTCGATTTC
* * **
60046296 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
60046325 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
60046353 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
60046383 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
60046412 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
60046441 GCACATTTAGTGCCA
1 GCACACTTAGTGCCA
60046456 ATCTCGTCAC
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 107 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:60057626 original size:18 final size:18
Alignment explanation
Indices: 60057603--60057638 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
60057593 TAAAGTGAAT
60057603 TAAAATTGC-GAAATTAAA
1 TAAAA-TGCAGAAATTAAA
60057621 TAAAATGCAGAAATTAAA
1 TAAAATGCAGAAATTAAA
60057639 ATGGAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.58, C:0.06, G:0.11, T:0.25
Consensus pattern (18 bp):
TAAAATGCAGAAATTAAA
Found at i:60058383 original size:10 final size:10
Alignment explanation
Indices: 60058356--60058405 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
60058346 GAAATTCTAA
60058356 AAAGATAAAT
1 AAAGATAAAT
*
60058366 ACAA-ATAATT
1 A-AAGATAAAT
60058376 AAAGATAAAT
1 AAAGATAAAT
60058386 AAAGATAAAT
1 AAAGATAAAT
60058396 GAAA-ATAAAT
1 -AAAGATAAAT
60058406 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:60059927 original size:11 final size:10
Alignment explanation
Indices: 60059913--60059956 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
60059903 AAATAGTAGG
60059913 AAAAAAT-AA
1 AAAAAATAAA
*
60059922 ATAAAATAAA
1 AAAAAATAAA
60059932 AATAAAATAAA
1 AA-AAAATAAA
*
60059943 ATAAAATAAA
1 AAAAAATAAA
60059953 AAAA
1 AAAA
60059957 TTGGGTTGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 6 0.21
10 14 0.48
11 9 0.31
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:60059930 original size:5 final size:5
Alignment explanation
Indices: 60059915--60059953 Score: 62
Period size: 5 Copynumber: 7.8 Consensus size: 5
60059905 ATAGTAGGAA
60059915 AAAAT -AAAT AAAAT AAAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAA
60059954 AAATTGGGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.12
5 23 0.72
6 5 0.16
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:60059934 original size:15 final size:15
Alignment explanation
Indices: 60059914--60059957 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
60059904 AATAGTAGGA
60059914 AAAAATAAATAAAAT
1 AAAAATAAATAAAAT
60059929 AAAAATAAAATAAAAT
1 AAAAAT-AAATAAAAT
60059945 -AAAATAAA-AAAAT
1 AAAAATAAATAAAAT
60059958 TGGGTTGCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.18
14 3 0.11
15 11 0.39
16 9 0.32
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAAATAAATAAAAT
Found at i:60059938 original size:21 final size:21
Alignment explanation
Indices: 60059915--60059954 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
60059905 ATAGTAGGAA
60059915 AAAAT-AAATAAAATAAAAAT
1 AAAATAAAATAAAATAAAAAT
60059935 AAAATAAAATAAAATAAAAA
1 AAAATAAAATAAAATAAAAA
60059955 AATTGGGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAATAAAATAAAATAAAAAT
Found at i:60066373 original size:10 final size:10
Alignment explanation
Indices: 60066346--60066405 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
60066336 TGAAATTCTA
60066346 AAAGATAAAT
1 AAAGATAAAT
*
60066356 ACAA-ATAATT
1 A-AAGATAAAT
*
60066366 AAAGATAATT
1 AAAGATAAAT
60066376 AAAGATAAAT
1 AAAGATAAAT
60066386 AAAGATAAAT
1 AAAGATAAAT
60066396 GAAA-ATAAAT
1 -AAAGATAAAT
60066406 CCTAAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:60068347 original size:47 final size:47
Alignment explanation
Indices: 60068276--60068480 Score: 304
Period size: 47 Copynumber: 4.3 Consensus size: 47
60068266 CCCTTCGGGA
* * * * *
60068276 CTTATCACAT-TCATACACTTTCACATCCCTCACGTTGGCCACTCGGC
1 CTTATCACATAT-ATACACTTTCACATTCATCACATTGGCCATTAGGC
*
60068323 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
60068370 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
60068417 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATA--TATACACTTTCACATTCATCACATTGGCCATTAGGC
60068466 CTTATCACATATATA
1 CTTATCACATATATA
60068481 TATACGCTTT
Statistics
Matches: 146, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
47 100 0.68
48 1 0.01
49 45 0.31
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:60068354 original size:25 final size:25
Alignment explanation
Indices: 60068326--60068404 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
60068316 ACTCGGCCCT
60068326 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
*** *** *
60068351 ATCACAT-TGGCCA-TTAGGCCTT-
1 ATCACATATATACACTTTCACATTC
60068373 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
60068398 ATCACAT
1 ATCACAT
60068405 TGGCCATTAG
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:60068379 original size:22 final size:22
Alignment explanation
Indices: 60068351--60068426 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
60068341 TTTCACATTC
60068351 ATCACATTGGCCATTAGGCCTT
1 ATCACATTGGCCATTAGGCCTT
*** *** *
60068373 ATCACATATATACACTTTCACATT
1 ATCACAT-TGGCCA-TTAGGCCTT
60068397 CATCACATTGGCCATTAGGCCTT
1 -ATCACATTGGCCATTAGGCCTT
60068420 ATCACAT
1 ATCACAT
60068427 ATGTATACGC
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTAGGCCTT
Found at i:60077850 original size:40 final size:41
Alignment explanation
Indices: 60077803--60077903 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 41
60077793 TTATACCCTA
60077803 AATTGCACTTACGTGCCCCTATTT-TACTTCAGTACCCATG
1 AATTGCACTTACGTGCCCCTATTTGTACTTCAGTACCCATG
* *
60077843 AATTGCACTTACGTGCCCCTATTTGTACTTCGGTACCCCTG
1 AATTGCACTTACGTGCCCCTATTTGTACTTCAGTACCCATG
60077884 AATTGCACATT-CGTGCCCCT
1 AATTGCAC-TTACGTGCCCCT
60077904 GCTTACACTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
40 24 0.42
41 31 0.54
42 2 0.04
ACGTcount: A:0.20, C:0.32, G:0.15, T:0.34
Consensus pattern (41 bp):
AATTGCACTTACGTGCCCCTATTTGTACTTCAGTACCCATG
Found at i:60077881 original size:20 final size:19
Alignment explanation
Indices: 60077818--60077882 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
60077808 CACTTACGTG
60077818 CCCCTATTT-TACTTCAGTA
1 CCCCTATTTGTACTTC-GTA
* * * *
60077837 CCCATGAATTGCACTTACGTG
1 CCCCT-ATTTGTACTT-CGTA
60077858 CCCCTATTTGTACTTCGGTA
1 CCCCTATTTGTACTTC-GTA
60077878 CCCCT
1 CCCCT
60077883 GAATTGCACA
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
19 5 0.15
20 18 0.53
21 10 0.29
22 1 0.03
ACGTcount: A:0.18, C:0.34, G:0.12, T:0.35
Consensus pattern (19 bp):
CCCCTATTTGTACTTCGTA
Found at i:60077902 original size:21 final size:20
Alignment explanation
Indices: 60077798--60077904 Score: 76
Period size: 21 Copynumber: 5.2 Consensus size: 20
60077788 CTTAATTATA
*
60077798 CCCTAAATTGCACTTACGTGC
1 CCCTGAATTGCACTT-CGTGC
** *
60077819 CCCT--ATTTTACTTCAGTAC
1 CCCTGAATTGCACTTC-GTGC
*
60077838 CCATGAATTGCACTTACGTGC
1 CCCTGAATTGCACTT-CGTGC
* * *
60077859 CCCT-ATTTGTACTTCGGTAC
1 CCCTGAATTGCACTTC-GTGC
60077879 CCCTGAATTGCACATTCGTGC
1 CCCTGAATTGCAC-TTCGTGC
60077900 CCCTG
1 CCCTG
60077905 CTTACACTTC
Statistics
Matches: 65, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
18 1 0.02
19 14 0.22
20 15 0.23
21 31 0.48
22 4 0.06
ACGTcount: A:0.20, C:0.33, G:0.15, T:0.33
Consensus pattern (20 bp):
CCCTGAATTGCACTTCGTGC
Found at i:60077914 original size:41 final size:40
Alignment explanation
Indices: 60077798--60077918 Score: 145
Period size: 41 Copynumber: 3.0 Consensus size: 40
60077788 CTTAATTATA
* * *
60077798 CCCTAAATTGCACTTACGTGCCCCTATTTTACTTCAGTAC
1 CCCTGAATTGCACTTACGTGCCCCTATTATACTTCGGTAC
* *
60077838 CCATGAATTGCACTTACGTGCCCCTATTTGTACTTCGGTAC
1 CCCTGAATTGCACTTACGTGCCCCTA-TTATACTTCGGTAC
* *
60077879 CCCTGAATTGCACATT-CGTGCCCCTGCTTACACTTCGGTA
1 CCCTGAATTGCAC-TTACGTGCCCCT-ATTATACTTCGGTA
60077919 ACTTCAAATC
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
40 24 0.34
41 44 0.63
42 2 0.03
ACGTcount: A:0.20, C:0.32, G:0.15, T:0.33
Consensus pattern (40 bp):
CCCTGAATTGCACTTACGTGCCCCTATTATACTTCGGTAC
Found at i:60078210 original size:19 final size:19
Alignment explanation
Indices: 60078186--60078226 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
60078176 GTTGTTATGC
60078186 AATTTACTAAGGTTTTGAA
1 AATTTACTAAGGTTTTGAA
60078205 AATTTACTAAGGTTTTGAA
1 AATTTACTAAGGTTTTGAA
60078224 AAT
1 AAT
60078227 ATACACTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (19 bp):
AATTTACTAAGGTTTTGAA
Found at i:60092846 original size:33 final size:33
Alignment explanation
Indices: 60092809--60092875 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
60092799 GTTGTAAGAG
60092809 TTGACAGACAGGGGTTTTACTCAACCCAGTTTT
1 TTGACAGACAGGGGTTTTACTCAACCCAGTTTT
60092842 TTGACAGACAGGGGTTTTACTCAACCCAGTTTT
1 TTGACAGACAGGGGTTTTACTCAACCCAGTTTT
60092875 T
1 T
60092876 CTCATTGGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (33 bp):
TTGACAGACAGGGGTTTTACTCAACCCAGTTTT
Found at i:60096501 original size:27 final size:28
Alignment explanation
Indices: 60096444--60096513 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
60096434 AAACTTGTAC
*
60096444 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
60096472 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
60096499 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
60096514 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:60096524 original size:27 final size:27
Alignment explanation
Indices: 60096444--60096525 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
60096434 AAACTTGTAC
* * *
60096444 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
60096472 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
60096499 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
60096526 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:60104427 original size:27 final size:28
Alignment explanation
Indices: 60104370--60104439 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
60104360 AAACTTGTAC
*
60104370 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
60104398 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
60104425 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
60104440 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:60104450 original size:27 final size:27
Alignment explanation
Indices: 60104370--60104451 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
60104360 AAACTTGTAC
* * *
60104370 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
60104398 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
60104425 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
60104452 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:60107790 original size:19 final size:19
Alignment explanation
Indices: 60107763--60107864 Score: 57
Period size: 19 Copynumber: 5.2 Consensus size: 19
60107753 TATACATTGA
60107763 ATTGCACTTACGTGCCCCT
1 ATTGCACTTACGTGCCCCT
* *
60107782 ATTGTACTT-CGATACCCCT
1 ATTGCACTTACG-TGCCCCT
**
60107801 AAATTGCACTTAAATGCCCCT
1 --ATTGCACTTACGTGCCCCT
* * *
60107822 GTTGTACTT-CGGTACCCCT
1 ATTGCACTTAC-GTGCCCCT
60107841 AAATTGCACTTATC-TGCCCCT
1 --ATTGCACTTA-CGTGCCCCT
60107862 ATT
1 ATT
60107865 TGTACTTTGA
Statistics
Matches: 60, Mismatches: 14, Indels: 18
0.65 0.15 0.20
Matches are distributed among these distances:
18 2 0.03
19 30 0.50
21 27 0.45
23 1 0.02
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.34
Consensus pattern (19 bp):
ATTGCACTTACGTGCCCCT
Found at i:60107811 original size:21 final size:20
Alignment explanation
Indices: 60107762--60107890 Score: 66
Period size: 21 Copynumber: 6.4 Consensus size: 20
60107752 TTATACATTG
*
60107762 AATTGCACTTACG-TGCCCCT
1 AATTGCACTT-CGATACCCCT
*
60107782 -ATTGTACTTCGATACCCCT
1 AATTGCACTTCGATACCCCT
** *
60107801 AAATTGCACTTAAATGCCCCT
1 -AATTGCACTTCGATACCCCT
* * *
60107822 -GTTGTACTTCGGTACCCCT
1 AATTGCACTTCGATACCCCT
*** *
60107841 AAATTGCACTTATCTGCCCCT
1 -AATTGCACTTCGATACCCCT
* * *
60107862 ATTTGTACTTTGATACCCCT
1 AATTGCACTTCGATACCCCT
60107882 GAATTGCAC
1 -AATTGCAC
60107891 ATAGTGCCCC
Statistics
Matches: 77, Mismatches: 26, Indels: 11
0.68 0.23 0.10
Matches are distributed among these distances:
18 2 0.03
19 27 0.35
20 14 0.18
21 34 0.44
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.34
Consensus pattern (20 bp):
AATTGCACTTCGATACCCCT
Found at i:60107899 original size:40 final size:40
Alignment explanation
Indices: 60107762--60107901 Score: 185
Period size: 40 Copynumber: 3.5 Consensus size: 40
60107752 TTATACATTG
60107762 AATTGCACTTACGTGCCCCTATTGTACTTCGATACCCCTA
1 AATTGCACTTACGTGCCCCTATTGTACTTCGATACCCCTA
** * *
60107802 AATTGCACTTAAATGCCCCTGTTGTACTTCGGTACCCCTA
1 AATTGCACTTACGTGCCCCTATTGTACTTCGATACCCCTA
* *
60107842 AATTGCACTTATC-TGCCCCTATTTGTACTTTGATACCCCTG
1 AATTGCACTTA-CGTGCCCCTA-TTGTACTTCGATACCCCTA
*
60107883 AATTGCACATA-GTGCCCCT
1 AATTGCACTTACGTGCCCCT
60107902 GTTTACACTG
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
40 61 0.70
41 26 0.30
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.34
Consensus pattern (40 bp):
AATTGCACTTACGTGCCCCTATTGTACTTCGATACCCCTA
Found at i:60111213 original size:201 final size:201
Alignment explanation
Indices: 60110868--60111251 Score: 660
Period size: 201 Copynumber: 1.9 Consensus size: 201
60110858 TAAATGATGT
60110868 TTTATTAACATGGATCACTAATAAAGTCAGATTTGCCGACCATATAAACGAAGATCCCATAGCAT
1 TTTATTAACATGGATCACTAATAAAGTCAGATTTGCCGACCATATAAACGAAGATCCCATAGCAT
* * * *
60110933 TTTTTAGAAATTTGACCATATATGCAGCACTGTTAGCTACGCAAGTATTCCACGGAGACTATCAA
66 TTTTCAGAAATTTGACCATATATGCAGCACTGTTAGCTACACAAGGATTCCACAGAGACTATCAA
**
60110998 ATTATTATTGATTCCATTTGCGTTAGAGGGGAAAGAAAATATGTGGTTAGAGAAACTTCTTCCAA
131 ATTATTATTGATTCCATTTAAGTTAGAGGGGAAAGAAAATATGTGGTTAGAGAAACTTCTTCCAA
60111063 ACATCA
196 ACATCA
* * * *
60111069 TTTATTAACATGGATCGCTAATAAAGTTAGATTTGCTGACCATATAAATGAAGATCCCATAGCAT
1 TTTATTAACATGGATCACTAATAAAGTCAGATTTGCCGACCATATAAACGAAGATCCCATAGCAT
*
60111134 TTTTCAGAAATTTGACCATATATGCAGCATTGTTAGCTACACAAGGATTCCACAGAGACTATCAA
66 TTTTCAGAAATTTGACCATATATGCAGCACTGTTAGCTACACAAGGATTCCACAGAGACTATCAA
*
60111199 ATTATTATTGATTCCATTTAAGTTAGAGGGGAAAGTAAATATGTGGTTAGAGA
131 ATTATTATTGATTCCATTTAAGTTAGAGGGGAAAGAAAATATGTGGTTAGAGA
60111252 CATTTCCTCC
Statistics
Matches: 171, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
201 171 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (201 bp):
TTTATTAACATGGATCACTAATAAAGTCAGATTTGCCGACCATATAAACGAAGATCCCATAGCAT
TTTTCAGAAATTTGACCATATATGCAGCACTGTTAGCTACACAAGGATTCCACAGAGACTATCAA
ATTATTATTGATTCCATTTAAGTTAGAGGGGAAAGAAAATATGTGGTTAGAGAAACTTCTTCCAA
ACATCA
Found at i:60137748 original size:14 final size:14
Alignment explanation
Indices: 60137729--60137765 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
60137719 AAATATTTAA
60137729 CAATTTGATTGAAT
1 CAATTTGATTGAAT
60137743 CAATTTGATTGAAT
1 CAATTTGATTGAAT
60137757 CAATTTGAT
1 CAATTTGAT
60137766 ACTTTTAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (14 bp):
CAATTTGATTGAAT
Found at i:60138678 original size:35 final size:34
Alignment explanation
Indices: 60138605--60138733 Score: 190
Period size: 35 Copynumber: 3.8 Consensus size: 34
60138595 TTTTAAAAAA
* * *
60138605 TAAATCAGGTTTTAGGACTTTTTAAAAAATAAAT
1 TAAATTAGGGTTTAGGATTTTTTAAAAAATAAAT
*
60138639 TAAATTAGGATTTAGGATTTTTTAAAAGAATAAAT
1 TAAATTAGGGTTTAGGATTTTTTAAAA-AATAAAT
*
60138674 TAAATTAGGGTTTAGAATTTTTT-AAAAATAAAT
1 TAAATTAGGGTTTAGGATTTTTTAAAAAATAAAT
60138707 TAAATTAGGGTTTAGG-TTTTTTAAAAA
1 TAAATTAGGGTTTAGGATTTTTTAAAAA
60138734 TAATTTTATG
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
32 6 0.07
33 26 0.30
34 27 0.31
35 28 0.32
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (34 bp):
TAAATTAGGGTTTAGGATTTTTTAAAAAATAAAT
Found at i:60138695 original size:68 final size:68
Alignment explanation
Indices: 60138605--60138732 Score: 195
Period size: 68 Copynumber: 1.9 Consensus size: 68
60138595 TTTTAAAAAA
* *
60138605 TAAATCAGGTTTTAGGACTTTTTAAAAAATAAATTAAATTAGGATTTAGGATTTTTTAAAAGAAT
1 TAAATCAGGGTTTAGGAATTTTTAAAAAATAAATTAAATTAGGATTTAGG-TTTTTTAAAAGAAT
60138670 AAAT
65 AAAT
* * *
60138674 TAAATTAGGGTTTA-GAATTTTTTAAAAATAAATTAAATTAGGGTTTAGGTTTTTTAAAA
1 TAAATCAGGGTTTAGGAATTTTTAAAAAATAAATTAAATTAGGATTTAGGTTTTTTAAAA
60138733 ATAATTTTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 10 0.19
68 32 0.59
69 12 0.22
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (68 bp):
TAAATCAGGGTTTAGGAATTTTTAAAAAATAAATTAAATTAGGATTTAGGTTTTTTAAAAGAATA
AAT
Found at i:60138709 original size:33 final size:33
Alignment explanation
Indices: 60138605--60138736 Score: 167
Period size: 33 Copynumber: 3.9 Consensus size: 33
60138595 TTTTAAAAAA
* * * *
60138605 TAAATCAGGTTTTAGGACTTTTTAAAAAATAAAT
1 TAAATTAGGGTTTA-GAATTTTTTAAAAATAAAT
* *
60138639 TAAATTAGGATTTAGGATTTTTTAAAAGAATAAAT
1 TAAATTAGGGTTTAGAATTTTTT-AAA-AATAAAT
60138674 TAAATTAGGGTTTAGAATTTTTTAAAAATAAAT
1 TAAATTAGGGTTTAGAATTTTTTAAAAATAAAT
*
60138707 TAAATTAGGGTTTAG-GTTTTTTAAAAATAA
1 TAAATTAGGGTTTAGAATTTTTTAAAAATAA
60138737 TTTTATGTTT
Statistics
Matches: 88, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
32 14 0.16
33 28 0.32
34 18 0.20
35 28 0.32
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.41
Consensus pattern (33 bp):
TAAATTAGGGTTTAGAATTTTTTAAAAATAAAT
Found at i:60138763 original size:68 final size:69
Alignment explanation
Indices: 60138612--60138763 Score: 186
Period size: 68 Copynumber: 2.2 Consensus size: 69
60138602 AAATAAATCA
60138612 GGTTTTAGGACTTTTTAAAAAATAAATTAAATTAGGATTTAGGATTTTTTAAAAGAATAAATTAA
1 GGTTTTAGG-CTTTTTAAAAAATAAATTAAATTAGGATTTAGGATTTTTTAAAAGAATAAATTAA
60138677 ATTAG
65 ATTAG
** * * *
60138682 GG-TTTAGAATTTTTTAAAAATAAATTAAATTAGGGTTTAGG-TTTTTT-AAA-AATAATTTTAT
1 GGTTTTAGGCTTTTTAAAAAATAAATTAAATTAGGATTTAGGATTTTTTAAAAGAATAA-ATTA-
**
60138743 GTTTAG
64 AATTAG
60138749 GGTTTTAGGCTTTTT
1 GGTTTTAGGCTTTTT
60138764 GTAATAGTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
65 5 0.07
66 6 0.09
67 12 0.17
68 40 0.57
69 5 0.07
70 2 0.03
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.45
Consensus pattern (69 bp):
GGTTTTAGGCTTTTTAAAAAATAAATTAAATTAGGATTTAGGATTTTTTAAAAGAATAAATTAAA
TTAG
Found at i:60139057 original size:126 final size:125
Alignment explanation
Indices: 60138831--60139457 Score: 755
Period size: 125 Copynumber: 5.0 Consensus size: 125
60138821 TTTTTTTATC
* * * *
60138831 CAGTAGTTTCTGAAAAAATAATTTTGAAAAGA-TGTTTCTAAAAAAATAGTGTAAAAAATGCTTC
1 CAGTAGTTTCTGAAAAAATAATTTTG-AGAGACAG-TTCTGAAAAAATAGTGTCAAAAATGCTTC
* * * **
60138895 AAACA-AGATGCACTGTCAGCAAAAGTATTTAAAAAAGCTCCCATATGGATGCTCTTTTTCTA
64 AAACAGA-ATGCACTATCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGATGCTCTTTTTCTA
* **
60138957 CAGTAGTTTCTGAAAAAATAATTTTGAGAGACAGTTCTGAAAAAATAATGTCAAAAGCGCTTCAA
1 CAGTAGTTTCTGAAAAAATAATTTTGAGAGACAGTTCTGAAAAAATAGTGTCAAAAATGCTTCAA
**
60139022 GGAGAATGCACTATCAGCAAAAGTACTGAAAAAAAGCTCCCACGTGGATGCTCTTTTTCTA
66 ACAGAATGCACTATCAGCAAAAGTACT-AAAAAAAGCTCCCACGTGGATGCTCTTTTTCTA
* * *
60139083 CAGTAGTTTCTGAAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGTCAAAAACGCTTC
1 CAGTAGTTTCTG-AAAAAATAATTTTGAG-AGACAGTTCTGAAAAAATAGTGTCAAAAATGCTTC
* * * *
60139148 AAACAGGATGCACTACCAGCAAAAGTACTAAAAAAAGCTCCCGCATGGATGCTCTTTTTCTA
64 AAACAGAATGCACTATCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGATGCTCTTTTTCTA
* ** * * * *
60139210 CAATAGTTTCTG-AAAAATAATTTTGAGAAGATGGTTCCGAAAAAATGGTGCCAAAATTGCTTCA
1 CAGTAGTTTCTGAAAAAATAATTTTGAG-AGACAGTTCTGAAAAAATAGTGTCAAAAATGCTTCA
* * * * * *
60139274 AGCAGGATGTACTATCAGCAAAAGTATTGAAAAAAGCTCCCACGTTGATGCTCTTTTTCTA
65 AACAGAATGCACTATCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGATGCTCTTTTTCTA
* * *
60139335 CAGTAGTTTTTG-AAAAATAATTTTGAGA-AAACGATTCTGAAAAAATA--GTAAAAAATGCTTC
1 CAGTAGTTTCTGAAAAAATAATTTTGAGAGACA-G-TTCTGAAAAAATAGTGTCAAAAATGCTTC
* * * *
60139396 AATCAGAATGCACTATCAGCAAAAGTACTAAAAAAAGCTTCCACGTGGACGCTCTTTCTCTA
64 AAACAGAATGCACTATCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGATGCTCTTTTTCTA
60139458 AAATAGTTCC
Statistics
Matches: 436, Mismatches: 58, Indels: 17
0.85 0.11 0.03
Matches are distributed among these distances:
123 65 0.15
124 2 0.00
125 185 0.42
126 70 0.16
127 58 0.13
128 56 0.13
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (125 bp):
CAGTAGTTTCTGAAAAAATAATTTTGAGAGACAGTTCTGAAAAAATAGTGTCAAAAATGCTTCAA
ACAGAATGCACTATCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGATGCTCTTTTTCTA
Found at i:60139290 original size:253 final size:251
Alignment explanation
Indices: 60138831--60139465 Score: 866
Period size: 253 Copynumber: 2.5 Consensus size: 251
60138821 TTTTTTTATC
* * *
60138831 CAGTAGTTTCTGAAAAAATAATTTTGAAAAGA-TGTTTCTAAAAAAATAGTGTAAAAAATGCTTC
1 CAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTT-TGAAAAAATAGTGTAAAAAATGCTTC
* * * * * *
60138895 AAACAAGATGCACTGTCAGCAAAAGTATTTAAAAAAGCTCCCATATGGATGCTCTTTTTCTACAG
65 AAACAGGATGCACTATCAGCAAAAGTACTAAAAAAAGCTCCCACATGGATGCTCTTTTTCTACAA
* * *
60138960 TAGTTTCTGAAAAAATAATTTTGAGAGACAGTTCTGAAAAAATAATGTCAAAAGCGCTTCAAGGA
130 TAGTTTCTGAAAAAATAATTTTGAGAGACAGTTCCGAAAAAATAATGCCAAAAGCGCTTCAAGCA
60139025 GAATGCACTATCAGCAAAAGTACTGAAAAAAAGCTCCCACGTGGATGCTCTTTTTCTA
195 GAATGCACTATCAGCAAAAGTACTG-AAAAAAGCTCCCACGTGGATGCTCTTTTTCTA
* *
60139083 CAGTAGTTTCTGAAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGTCAAAAACGCTTC
1 CAGTAGTTTCTG-AAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGTAAAAAATGCTTC
* *
60139148 AAACAGGATGCACTACCAGCAAAAGTACTAAAAAAAGCTCCCGCATGGATGCTCTTTTTCTACAA
65 AAACAGGATGCACTATCAGCAAAAGTACTAAAAAAAGCTCCCACATGGATGCTCTTTTTCTACAA
** ** **
60139213 TAGTTTCTG-AAAAATAATTTTGAGAAGATGGTTCCGAAAAAATGGTGCCAAAATTGCTTCAAGC
130 TAGTTTCTGAAAAAATAATTTTGAG-AGACAGTTCCGAAAAAATAATGCCAAAAGCGCTTCAAGC
* * * *
60139277 AGGATGTACTATCAGCAAAAGTATTGAAAAAAGCTCCCACGTTGATGCTCTTTTTCTA
194 AGAATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGATGCTCTTTTTCTA
* * * *
60139335 CAGTAGTTTTTG-AAAAATAATTTTGAGAAAACGATTCTGAAAAAATA--GTAAAAAATGCTTCA
1 CAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGTAAAAAATGCTTCA
* * * * * * *
60139397 ATCAGAATGCACTATCAGCAAAAGTACTAAAAAAAGCTTCCACGTGGACGCTCTTTCTCTAAAAT
66 AACAGGATGCACTATCAGCAAAAGTACTAAAAAAAGCTCCCACATGGATGCTCTTTTTCTACAAT
60139462 AGTT
131 AGTT
60139466 CCTGCTTGGC
Statistics
Matches: 339, Mismatches: 41, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
248 73 0.22
250 32 0.09
252 69 0.20
253 161 0.47
254 4 0.01
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (251 bp):
CAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGTAAAAAATGCTTCA
AACAGGATGCACTATCAGCAAAAGTACTAAAAAAAGCTCCCACATGGATGCTCTTTTTCTACAAT
AGTTTCTGAAAAAATAATTTTGAGAGACAGTTCCGAAAAAATAATGCCAAAAGCGCTTCAAGCAG
AATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGATGCTCTTTTTCTA
Found at i:60142970 original size:18 final size:18
Alignment explanation
Indices: 60142944--60142986 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
60142934 GACTGGGAAA
* *
60142944 AGGAAACATATAGGGGTT
1 AGGATACATATACGGGTT
60142962 AGGATACATATACGGGTT
1 AGGATACATATACGGGTT
60142980 AGGATAC
1 AGGATAC
60142987 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.09, G:0.30, T:0.23
Consensus pattern (18 bp):
AGGATACATATACGGGTT
Found at i:60143583 original size:7 final size:7
Alignment explanation
Indices: 60143573--60143608 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
60143563 TTATATACAT
60143573 AATACTA
1 AATACTA
60143580 AATACTA
1 AATACTA
60143587 AATACTA
1 AATACTA
*
60143594 AATACGA
1 AATACTA
60143601 AATGACTA
1 AAT-ACTA
60143609 TGTTATGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 23 0.88
8 3 0.12
ACGTcount: A:0.56, C:0.14, G:0.06, T:0.25
Consensus pattern (7 bp):
AATACTA
Found at i:60146032 original size:30 final size:30
Alignment explanation
Indices: 60145996--60146096 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
60145986 GACAAGATTG
* * *
60145996 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
60146026 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
60146054 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
60146083 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
60146097 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:60146108 original size:29 final size:28
Alignment explanation
Indices: 60146025--60146100 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
60146015 AAAATTGTAC
* *
60146025 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
60146053 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
60146082 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
60146101 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:60153918 original size:30 final size:30
Alignment explanation
Indices: 60153882--60153982 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
60153872 GACAAGATTG
* * *
60153882 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
60153912 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
60153940 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
60153969 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
60153983 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:60153994 original size:29 final size:28
Alignment explanation
Indices: 60153911--60153986 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
60153901 AAAATTGTAC
* *
60153911 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
60153939 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
60153968 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
60153987 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:60179791 original size:40 final size:40
Alignment explanation
Indices: 60179728--60179917 Score: 335
Period size: 40 Copynumber: 4.8 Consensus size: 40
60179718 ACTAAGATCT
* * *
60179728 GAAGGCATTTGTGCTAGTGACTATATCCGGGTTAAGTCTC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCC
*
60179768 GAAGGCATTTGTACGAGTTACTATATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCC
60179808 GAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCC
*
60179848 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCC
60179888 GAAGGCATTTGTGCGAGTTACTATATCCGG
1 GAAGGCATTTGTGCGAGTTACTATATCCGG
60179918 CTAAATCCCA
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 144 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.30
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCC
Found at i:60181907 original size:39 final size:40
Alignment explanation
Indices: 60181693--60181907 Score: 264
Period size: 40 Copynumber: 5.5 Consensus size: 40
60181683 AAACCAAGTA
* * * *
60181693 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
60181732 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
60181772 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
60181812 CCTTCAGGACTTAGCCCGAAT-TAGTAACTCGCA-ACAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA-AATG
* *
60181851 CCTTCGGGAC-TAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
60181890 CCTTC-GGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
60181908 TTATCATCCG
Statistics
Matches: 155, Mismatches: 14, Indels: 14
0.85 0.08 0.08
Matches are distributed among these distances:
38 13 0.08
39 65 0.42
40 77 0.50
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:60185148 original size:80 final size:80
Alignment explanation
Indices: 60185036--60185228 Score: 210
Period size: 80 Copynumber: 2.4 Consensus size: 80
60185026 GGATATAGCG
* * * * * *
60185036 ACTCGCTCGATTGTCTTCGGGACATT-GCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAAT
1 ACTCGCACGAATGCCTTCGGGAC-TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAAT
* *
60185100 T-AGCCCGGATTTAGTT
65 TGA-CCCGGATTTAATC
* * * *
60185116 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCAGAAATGCCTTCGGGAATT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
60185181 GACCCGGATTTAATC
66 GACCCGGATTTAATC
* * *
60185196 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCCGG
60185229 ACACCATTCG
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 2 0.02
80 65 0.69
81 27 0.29
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.27
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
GACCCGGATTTAATC
Found at i:60185217 original size:41 final size:39
Alignment explanation
Indices: 60185050--60185229 Score: 155
Period size: 40 Copynumber: 4.5 Consensus size: 39
60185040 GCTCGATTGT
* * * *
60185050 CTTCGGGACATTGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGA-ATTACCCGGATT-TAGTAACTCGCACAAATGC
* *
60185090 CTTCGGGAATTAGCCCGGATTTAGTTACTCGCACGAATGC
1 CTTCGGGAATTA-CCCGGATTTAGTAACTCGCACAAATGC
* * * *
60185130 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCAGAAATGC
1 CTTCGGGAATT-ACCCGGATTTAGTAACTCGCACAAATGC
* * * *
60185170 CTTCGGGAATTGACCCGGATTTAATCACTTAGCACAAAAGC
1 CTTCGGGAATT-ACCCGGATTTAGTAAC-TCGCACAAATGC
*
60185211 CTTCGGGACTTAGCCCGGA
1 CTTCGGGAATTA-CCCGGA
60185230 CACCATTCGA
Statistics
Matches: 114, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
39 3 0.03
40 83 0.73
41 28 0.25
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (39 bp):
CTTCGGGAATTACCCGGATTTAGTAACTCGCACAAATGC
Found at i:60187539 original size:30 final size:30
Alignment explanation
Indices: 60187484--60187643 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
60187474 ATAGTGAATC
60187484 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
60187513 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
60187543 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
60187572 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
60187600 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
60187630 CACACACTTAGTGC
1 CGCACACTTAGTGC
60187644 CAATCTTGTC
Statistics
Matches: 119, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 46 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:60187576 original size:59 final size:57
Alignment explanation
Indices: 60187484--60187614 Score: 219
Period size: 59 Copynumber: 2.3 Consensus size: 57
60187474 ATAGTGAATC
*
60187484 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
60187543 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
60187600 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
60187615 GTACAATTTT
Statistics
Matches: 70, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
56 2 0.03
57 18 0.26
59 50 0.71
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:60196687 original size:40 final size:40
Alignment explanation
Indices: 60196624--60196773 Score: 246
Period size: 40 Copynumber: 3.8 Consensus size: 40
60196614 ACTAAGATCG
* *
60196624 GAAGGCATTTGTGCTAGTGACTATATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCC
60196664 GAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCC
*
60196704 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCC
* **
60196744 GAAGGCATTTGTGTGAGTTGTTATATCCGG
1 GAAGGCATTTGTGCGAGTTACTATATCCGG
60196774 CTAAATCTCG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCC
Found at i:60199756 original size:76 final size:76
Alignment explanation
Indices: 60199653--60199864 Score: 221
Period size: 76 Copynumber: 2.8 Consensus size: 76
60199643 ATAATAGGTG
* ** ** * *
60199653 TGCCCTACACTAGTTGGATAAAACAACAATGAGTTGTTCATAGCACTATTCAGGTAAACCGACGA
1 TGCCCAACACTAGTTGGATGTAACAACAATGAGTTGCGCACAGCACTAGTCAGGTAAACCGACGA
*
60199718 TATCAAATATG
66 TATCAAATATC
* * * * * *
60199729 TGTCGAACACTAGTTGGATGTATCAACAATGAGTTGCGCCCAGCACTAGTCGGGTAAATCGACGA
1 TGCCCAACACTAGTTGGATGTAACAACAATGAGTTGCGCACAGCACTAGTCAGGTAAACCGACGA
*
60199794 TATCAAATGTC
66 TATCAAATATC
* * * *
60199805 TGCCCAACACTAGTTGGATGTACCGAA-AATGCA-TTGCGCCCAGCACTAGTCTGATAAACC
1 TGCCCAACACTAGTTGGATGTAAC-AACAATG-AGTTGCGCACAGCACTAGTCAGGTAAACC
60199865 AAAAAGTACA
Statistics
Matches: 113, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
76 110 0.97
77 3 0.03
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (76 bp):
TGCCCAACACTAGTTGGATGTAACAACAATGAGTTGCGCACAGCACTAGTCAGGTAAACCGACGA
TATCAAATATC
Found at i:60201699 original size:43 final size:43
Alignment explanation
Indices: 60201593--60201762 Score: 141
Period size: 43 Copynumber: 4.0 Consensus size: 43
60201583 ATAAAACTCG
* * * **
60201593 TACAGTGCC-ATATCCCAGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATATCCCAGACATGGTCTTACACGAAATCACAA
* * * * *
60201634 TATCGATGCCATTTTCCTAGACA-GAGTCTTACACGAAATC-GAA
1 TA-CAATGCCAATATCCCAGACATG-GTCTTACACGAAATCACAA
* * *
60201677 TAACGATGCCAATATCTCAGACATGGTCTTACACGTAATCACAA
1 T-ACAATGCCAATATCCCAGACATGGTCTTACACGAAATCACAA
* * *
60201721 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 TACAATGCCAATATCCCAGACATGGTCTTACACGAAATCACA
60201763 TCTTCGTACC
Statistics
Matches: 102, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
41 2 0.02
42 6 0.06
43 89 0.87
44 5 0.05
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
TACAATGCCAATATCCCAGACATGGTCTTACACGAAATCACAA
Found at i:60206841 original size:28 final size:29
Alignment explanation
Indices: 60206774--60206874 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
60206764 ATAGTGAATC
*
60206774 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
60206803 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
60206831 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
60206861 CGCACACTTAGTGC
1 CGCACACTTAGTGC
60206875 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:60221257 original size:40 final size:39
Alignment explanation
Indices: 60221207--60221428 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
60221197 GCTACTCGTT
* * * *
60221207 CAAACGCCTTCGGGGCATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTT-TAGTAACTCGCA
* *
60221247 TAAATACCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCA
* * *
60221287 TAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCG-GTTTAGTAACTCGCA
* * *
60221327 CAAATGCCTTCGAG-CTTAGCCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
** * * *
60221365 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGTTTA-GTAAC-TCGCA
*
60221405 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGG
60221429 ACATCATTCG
Statistics
Matches: 154, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
37 1 0.01
38 25 0.16
39 36 0.23
40 90 0.58
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
Found at i:60221375 original size:78 final size:80
Alignment explanation
Indices: 60221233--60221429 Score: 242
Period size: 78 Copynumber: 2.5 Consensus size: 80
60221223 ATAGCCCGGT
* * * * *
60221233 TATAGTAACTCGCATAAATACCTTCGGGACTTAACCCGGATTTAGTAACTCGCATAAATGCCTTC
1 TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTC
60221298 GGGA-CTTAACCCGAA
66 -GGATCTTAACCCGAA
* *
60221313 TTTAGTAACTAGCACAAATGCCTTCGAG-CTTAGCCCGGA-TTAGTAACTCGCACAAATGCCTTC
1 TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTC
** *
60221376 GGATCTTAGTCCGGA
66 GGATCTTAACCCGAA
*
60221391 TAT-GTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGA
60221430 CATCATTCGA
Statistics
Matches: 101, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
77 15 0.15
78 53 0.52
79 10 0.10
80 23 0.23
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (80 bp):
TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTC
GGATCTTAACCCGAA
Found at i:60234297 original size:21 final size:20
Alignment explanation
Indices: 60234261--60234303 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
60234251 CAAAACCTCG
*
60234261 TTTTTAAAAATTACTTG-AC
1 TTTTTAAAAATCACTTGCAC
60234280 TTTTTAAACAAATCACTTGCAC
1 TTTTT-AA-AAATCACTTGCAC
60234302 TT
1 TT
60234304 AAACTTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
20 2 0.10
21 9 0.45
22 4 0.20
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.44
Consensus pattern (20 bp):
TTTTTAAAAATCACTTGCAC
Found at i:60236009 original size:24 final size:24
Alignment explanation
Indices: 60235958--60236225 Score: 385
Period size: 24 Copynumber: 11.0 Consensus size: 24
60235948 GCTTTATCAT
*
60235958 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
60235983 ATAACTGGGGTAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
60236007 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
60236031 ATAACTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
60236056 ATAATTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
* *
60236081 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
60236105 ATAACTGAGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
60236129 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
60236153 ATAACTGAGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
60236177 ATAACTGGGGCGTAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
60236202 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
60236226 CACTTCCTCC
Statistics
Matches: 221, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
24 141 0.64
25 80 0.36
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:60236299 original size:20 final size:20
Alignment explanation
Indices: 60236274--60236340 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
60236264 TTATGAATAC
60236274 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
60236294 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
60236314 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
60236334 ACCATGT
1 ATCATGT
60236341 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:60236305 original size:11 final size:11
Alignment explanation
Indices: 60236274--60236329 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
60236264 TTATGAATAC
60236274 ATCATGTGCAT
1 ATCATGTGCAT
*
60236285 ATCA--TACAT
1 ATCATGTGCAT
60236294 ATCATGTGCAT
1 ATCATGTGCAT
*
60236305 ATCA--TACAT
1 ATCATGTGCAT
*
60236314 GTCATGTGCAT
1 ATCATGTGCAT
60236325 ATCAT
1 ATCAT
60236330 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:60237678 original size:27 final size:27
Alignment explanation
Indices: 60237587--60237670 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
60237577 GGGCATATTC
* *
60237587 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
60237614 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
*
60237641 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
60237668 GTC
1 GTC
60237671 TTTTTACCTA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:60237684 original size:27 final size:27
Alignment explanation
Indices: 60237587--60237687 Score: 116
Period size: 27 Copynumber: 3.7 Consensus size: 27
60237577 GGGCATATTC
* * *
60237587 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTATAGGGGCT-TTACG
*
60237614 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTATAGGGGCTTTACG
60237641 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCACTTTACCCTATAGGGGCTTTACG
**
60237668 GTCTTTTTA-CCTAATAGGGG
1 GTCACTTTACCCT-ATAGGGG
60237688 TATTTTAGTC
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
26 3 0.04
27 63 0.94
28 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (27 bp):
GTCACTTTACCCTATAGGGGCTTTACG
Found at i:60237920 original size:81 final size:81
Alignment explanation
Indices: 60237820--60238014 Score: 259
Period size: 81 Copynumber: 2.4 Consensus size: 81
60237810 TTTGTAAATC
* * *
60237820 AGGGATATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CTAGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAAG-GGTATTT
* *
60237884 TGGTAATTTTACAAACT
65 TAGCAATTTTACAAACT
* *
60237901 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTATAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAAGGGTATTTT
*
60237966 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
* ** *
60237982 A-GGGTATTTTAGTAATTTTTTAAATCGAGGGTA
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
60238015 AAACAATAAT
Statistics
Matches: 101, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
80 28 0.28
81 70 0.69
82 3 0.03
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:60238001 original size:27 final size:26
Alignment explanation
Indices: 60237820--60238000 Score: 202
Period size: 27 Copynumber: 6.7 Consensus size: 26
60237810 TTTGTAAATC
*
60237820 AGGGATATTTTGGTAATTTTACAAATT
1 AGGG-TATTTTGGTAATTTTACAAACT
* *
60237847 GAGGGTATTTCGGTAATTTCACAAACT
1 -AGGGTATTTTGGTAATTTTACAAACT
60237874 AGTGGTATTTTGGTAATTTTACAAACT
1 AG-GGTATTTTGGTAATTTTACAAACT
*
60237901 AGGGGTATTTTGGTAATTTTACAAATT
1 A-GGGTATTTTGGTAATTTTACAAACT
* *
60237928 GAGGGTATTTCT-ATAATTTTACAAACCA
1 -AGGGTATTT-TGGTAATTTTACAAA-CT
* * *
60237956 AGGGTATTTTAGCAATTTTACAGACT
1 AGGGTATTTTGGTAATTTTACAAACT
*
60237982 AGGGTATTTTAGTAATTTT
1 AGGGTATTTTGGTAATTTT
60238001 TTAAATCGAG
Statistics
Matches: 133, Mismatches: 14, Indels: 14
0.83 0.09 0.09
Matches are distributed among these distances:
26 22 0.17
27 104 0.78
28 7 0.05
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.41
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAACT
Found at i:60238012 original size:27 final size:27
Alignment explanation
Indices: 60237709--60238014 Score: 185
Period size: 27 Copynumber: 11.3 Consensus size: 27
60237699 TTTCATCCTA
* * * * *
60237709 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
* * ** *
60237736 CAAAGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
* *
60237763 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTACAAA-T
* **
60237792 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTACAAAT
*
60237819 C-AGGGATATTTTGGTAATTTTACAAAT
1 CAAGGG-TATTTTAGTAATTTTACAAAT
** ** *
60237846 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTAGTAATTTTACAAAT
* *
60237872 CTAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTAGTAATTTTACAAAT
* *
60237899 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTTAGTAATTTTACAAAT
** *
60237927 TGAGGGTATTTCTA-TAATTTTACAAAC
1 CAAGGGTATTT-TAGTAATTTTACAAAT
* *
60237954 CAAGGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTAGTAATTTTACAAAT
* **
60237980 CTAGGGTATTTTAGTAATTTTTTAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
*
60238007 CGAGGGTA
1 CAAGGGTA
60238015 AAACAATAAT
Statistics
Matches: 222, Mismatches: 44, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
26 30 0.14
27 157 0.71
28 20 0.09
29 15 0.07
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAT
Found at i:60238024 original size:27 final size:27
Alignment explanation
Indices: 60237992--60238203 Score: 255
Period size: 27 Copynumber: 7.9 Consensus size: 27
60237982 AGGGTATTTT
* *
60237992 AGTAATTTTTTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
60238019 AATAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
60238046 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
60238073 AATAATTCAGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
60238100 GGTAATTCTGTAAGTCGATGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
60238127 -GATAATTATGTAAATCGGGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
*
60238154 AGTAATTATGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
60238181 GGTAATTCTGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
60238204 CTTTGGTAAT
Statistics
Matches: 160, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 158 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:60238027 original size:80 final size:80
Alignment explanation
Indices: 60237820--60238041 Score: 203
Period size: 81 Copynumber: 2.8 Consensus size: 80
60237810 TTTGTAAATC
* * * *** ** * *
60237820 AGGGATATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAGTGGTATTTT
1 AGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACAATAATTTTACAAACAAG-GGTATTTT
* *
60237885 GGTAATTTTACAAACT
65 AGCAATTTTACAAACT
* * *** *
60237901 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTATAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACAATAATTTTACAAA-CAAGGGTATTTT
*
60237966 AGCAATTTTACAGACT
65 AGCAATTTTACAAACT
** **
60237982 A-GGGTATTTTAGTAATTTTTTAAATCGAGGGTAAAACAATAATTTTGTAAATCAAGGGTA
1 AGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACAATAATTTTACAAA-CAAGGGTA
60238042 AAACAGTAAT
Statistics
Matches: 121, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
80 48 0.40
81 70 0.58
82 3 0.02
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.39
Consensus pattern (80 bp):
AGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACAATAATTTTACAAACAAGGGTATTTTA
GCAATTTTACAAACT
Found at i:60238230 original size:27 final size:27
Alignment explanation
Indices: 60238209--60238298 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
60238199 GGGTACTTTG
*
60238209 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
60238236 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
60238263 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
60238290 GTAATTTTA
1 GTAATTTTA
60238299 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:60238250 original size:54 final size:54
Alignment explanation
Indices: 60238192--60238298 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
60238182 GTAATTCTGT
* * *
60238192 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
60238246 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
60238299 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:60238312 original size:27 final size:27
Alignment explanation
Indices: 60238209--60238314 Score: 92
Period size: 27 Copynumber: 3.9 Consensus size: 27
60238199 GGGTACTTTG
* *
60238209 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
60238236 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
60238263 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
60238290 GTAATTTTAGTAAACTAA-AGTATTT
1 GTAATTTTA-CAAACTAAGAGTATTT
60238315 TAAACAGGGC
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 56 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:60242034 original size:46 final size:47
Alignment explanation
Indices: 60241872--60242098 Score: 234
Period size: 46 Copynumber: 4.9 Consensus size: 47
60241862 AGAAATATTA
* * * *
60241872 TACATATCGATGCCGATGCTATATACCAGATATGGTCTTACACTAGCTC
1 TACATCTCGATGCCGATGC-ATGTCCCAGACAT-GTCTTACACTAGCTC
* *
60241921 TCATATATCTG-TGCCGATGCATGTCCCAGACATGTCTTACACTAG--C
1 T-ACATCTC-GATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
* *
60241967 -ACATCTCG-TAGCCGATGCATGTCCTATACATGTCTTACACTAGCT-
1 TACATCTCGAT-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
* * *
60242012 TATATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAACTC
1 TACATCTCGATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
* * *
60242059 T-CGTCTCAATGCCGATGCATGTCCCAGACATGTTTTACAC
1 TACATCTCGATGCCGATGCATGTCCCAGACATGTCTTACAC
60242099 CGGCTCACAT
Statistics
Matches: 152, Mismatches: 18, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
43 2 0.01
44 36 0.24
46 74 0.49
47 1 0.01
48 12 0.08
49 11 0.07
50 15 0.10
51 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (47 bp):
TACATCTCGATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
Found at i:60245013 original size:40 final size:40
Alignment explanation
Indices: 60244935--60245158 Score: 301
Period size: 40 Copynumber: 5.5 Consensus size: 40
60244925 ACCCAAGTAT
* *
60244935 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
60244974 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
60245014 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
60245054 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCACACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
60245097 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
60245137 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
60245159 CATCCGAATA
Statistics
Matches: 164, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
39 12 0.07
40 116 0.71
41 1 0.01
43 35 0.21
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:60245131 original size:83 final size:80
Alignment explanation
Indices: 60244935--60245158 Score: 308
Period size: 83 Copynumber: 2.8 Consensus size: 80
60244925 ACCCAAGTAT
* * * *
60244935 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
* **
60244999 CACTAGCATGAATGC
66 CACTAACACAAATGC
* *
60245014 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
60245078 CAACTACTCACACAAATGC
66 C-ACTA---ACACAAATGC
*
60245097 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
60245159 CATCCGAATA
Statistics
Matches: 128, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.38
83 66 0.52
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAACACAAATGC
Found at i:60253250 original size:40 final size:40
Alignment explanation
Indices: 60253172--60253394 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 40
60253162 ACCCAAGTAT
* *
60253172 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
60253211 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
60253251 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
60253291 CTTCGGGACTTAGCCCGG-TATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
60253333 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
60253373 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
60253395 CATCCGAATA
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
38 1 0.01
39 20 0.12
40 108 0.65
41 1 0.01
42 28 0.17
43 8 0.05
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:60253354 original size:82 final size:80
Alignment explanation
Indices: 60253172--60253394 Score: 310
Period size: 82 Copynumber: 2.8 Consensus size: 80
60253162 ACCCAAGTAT
* * *
60253172 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
**
60253235 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
60253251 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG-TATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
60253314 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* *
60253333 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
60253395 CATCCGAATA
Statistics
Matches: 130, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
78 1 0.01
79 21 0.16
80 40 0.31
81 1 0.01
82 64 0.49
83 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:60253386 original size:122 final size:119
Alignment explanation
Indices: 60253172--60253394 Score: 349
Period size: 122 Copynumber: 1.8 Consensus size: 119
60253162 ACCCAAGTAT
* * *
60253172 CTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC
1 CTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
**
60253237 ACTAGCATGAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
66 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
60253291 CTTCGGGACTTAGCCCGG-TATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAG-CCGGATATAGC-A--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
*
60253355 AGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
62 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
60253395 CATCCGAATA
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
119 18 0.19
120 5 0.05
122 71 0.76
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (119 bp):
CTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:60255985 original size:47 final size:48
Alignment explanation
Indices: 60255914--60256142 Score: 190
Period size: 47 Copynumber: 4.9 Consensus size: 48
60255904 TGGGTAAAGT
60255914 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCA-CATCTCA-A
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCT-ATCATCTCATA
* * *
60255961 GTCGATGCCATGTCCCATAA-ATGGTCTTACACTGACTATTATCTCATA
1 GCCGATGCCATGTCCCA-AACATGGTCTTACACTGGCTATCATCTCATA
* * *
60256009 GCCGGTG-CATGTCCCAAACAT-GTCTTACACTGGCT-T-ATGTCTTGA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATCTCAT-A
* * * * **
60256054 GGCCGAT-ACATGTCCCAGACAT-GTCTTACACTAGCTCTTGTCTCAATA
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATCTC-ATA
* * * * *
60256102 -CTGATGCCATATCCCAGACACGGTCTTACACTGGCTCTCAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCAT
60256143 AATGTGGCCG
Statistics
Matches: 149, Mismatches: 21, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
44 5 0.03
45 2 0.01
46 51 0.34
47 62 0.42
48 28 0.19
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATCTCATA
Found at i:60256096 original size:46 final size:46
Alignment explanation
Indices: 60256016--60256184 Score: 133
Period size: 46 Copynumber: 3.6 Consensus size: 46
60256006 ATAGCCGGTG
* *
60256016 CATGTCCCAAACATGTCTTACACTGGCT-TATGTCTTGAGGCCGATA
1 CATGTCCCAGACATGTCTTACACTAGCTCT-TGTCTTGAGGCCGATA
** ** * *
60256062 CATGTCCCAGACATGTCTTACACTAGCTCTTGTCTCAATACTGATGC
1 CATGTCCCAGACATGTCTTACACTAGCTCTTGTCTTGAGGCCGAT-A
* * * ** ** * *
60256109 CATATCCCAGACACGGTCTTACACTGGCTCTCATAATGTGGCCGATG
1 CATGTCCCAGACA-TGTCTTACACTAGCTCTTGTCTTGAGGCCGATA
* *
60256156 CAAGTCCCAGACATGTTTTACACTAGCTC
1 CATGTCCCAGACATGTCTTACACTAGCTC
60256185 ACACACAAAT
Statistics
Matches: 93, Mismatches: 27, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
46 49 0.53
47 24 0.26
48 20 0.22
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTTGTCTTGAGGCCGATA
Found at i:60261476 original size:30 final size:30
Alignment explanation
Indices: 60261442--60261499 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
60261432 TTACGAGCCT
*
60261442 AGGGGCCAAAGTGAAAATATGTAAAAGTTC
1 AGGGGCCAAAATGAAAATATGTAAAAGTTC
* * * *
60261472 AGGGGTCAAAATGTAAATTTTTAAAAGT
1 AGGGGCCAAAATGAAAATATGTAAAAGT
60261500 ATGATTTTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (30 bp):
AGGGGCCAAAATGAAAATATGTAAAAGTTC
Found at i:60261758 original size:18 final size:20
Alignment explanation
Indices: 60261722--60261768 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
60261712 TTGTAAGTAT
60261722 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
60261742 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
60261761 ATGATATA
1 AT-ATATA
60261769 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:60262223 original size:50 final size:50
Alignment explanation
Indices: 60262095--60262377 Score: 323
Period size: 50 Copynumber: 5.6 Consensus size: 50
60262085 GGGAACTTTG
* * * ** **
60262095 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGTTAACTTTG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTTAA
* *
60262146 GTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAA
* * *** *
60262196 GTCACGTGTGTAGTACTAAATGCAGGCTACTATGTGTACCAGATTAATAT
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAA
* * * *
60262246 GTCGCATGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAA
* * * * *
60262296 GTCACGTATGTAGTACTAAGTTCAGGCTACTACATGTACCAGATTGATAA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAA
* *
60262346 GTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTA
60262378 TGCGTATCAG
Statistics
Matches: 192, Mismatches: 40, Indels: 1
0.82 0.17 0.00
Matches are distributed among these distances:
50 153 0.80
51 39 0.20
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAA
Found at i:60262293 original size:100 final size:100
Alignment explanation
Indices: 60262095--60262388 Score: 428
Period size: 100 Copynumber: 2.9 Consensus size: 100
60262085 GGGAACTTTG
* * * *
60262095 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCG-TTAACTTTGGTCACGTGTGTAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTAA-TAT-GTCGCATGTGTAG
*
60262159 TACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAA
64 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAA
*
60262196 GTCACGTGTGTAGTACTAAATGCAGGCTACTATGTGTACCAGATTAATATGTCGCATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTAATATGTCGCATGTGTAGTA
*
60262261 CTAAGTGCAAGCTACTACGTGTATCAGATGGTTAA
66 CTAAGTGCAGGCTACTACGTGTATCAGATGGTTAA
* * ** * *
60262296 GTCACGTATGTAGTACTAAGTTCAGGCTACTACATGTACCAGATTGATAAGTCGCATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTAATATGTCGCATGTGTAGTA
* *
60262361 CTAAGTGCAGGCTACTATGCGTATCAGA
66 CTAAGTGCAGGCTACTACGTGTATCAGA
60262389 GAGCTTCGGT
Statistics
Matches: 175, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
100 129 0.74
101 42 0.24
102 4 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (100 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTAATATGTCGCATGTGTAGTA
CTAAGTGCAGGCTACTACGTGTATCAGATGGTTAA
Found at i:60262373 original size:150 final size:151
Alignment explanation
Indices: 60262101--60262388 Score: 382
Period size: 150 Copynumber: 1.9 Consensus size: 151
60262091 TTTGGTCACG
* * * * ** *
60262101 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGTTAACTTTGGTCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAACTTAAGTCACGTATGTAGTACTAAG
* * * * *
60262166 TGTAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTACTAAATGCAGGCTACTATGT
66 TGTAGGCTACTACATGTACCAGATGGATAAGTCACATGTGTAGTACTAAATGCAGGCTACTATGC
60262231 GTACCAGATTAATATGTCGCA
131 GTACCAGATTAATATGTCGCA
* **
60262252 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGAT-GGTTAAGTCACGTATGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAACTTAAGTCACGTATGTAGTACTAAG
* * *
60262316 T-TCAGGCTACTACATGTACCAGATTGATAAGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
66 TGT-AGGCTACTACATGTACCAGATGGATAAGTCACATGTGTAGTACTAAATGCAGGCTACTATG
*
60262380 CGTATCAGA
130 CGTACCAGA
60262389 GAGCTTCGGT
Statistics
Matches: 117, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
149 1 0.01
150 83 0.71
151 33 0.28
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAACTTAAGTCACGTATGTAGTACTAAG
TGTAGGCTACTACATGTACCAGATGGATAAGTCACATGTGTAGTACTAAATGCAGGCTACTATGC
GTACCAGATTAATATGTCGCA
Found at i:60262609 original size:16 final size:16
Alignment explanation
Indices: 60262588--60262619 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
60262578 AGAATGGAGT
60262588 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
60262604 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
60262620 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:60266403 original size:28 final size:28
Alignment explanation
Indices: 60266342--60266439 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
60266332 TCACAAATTG
** * *
60266342 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
60266371 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
60266399 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
60266427 GCACTAAGTGTGC
1 GCACTAAGTGTGC
60266440 GGGCTTATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:60274071 original size:28 final size:28
Alignment explanation
Indices: 60274010--60274107 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
60274000 TCACAAATTG
** * *
60274010 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
60274039 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
60274067 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
60274095 GCACTAAGTGTGC
1 GCACTAAGTGTGC
60274108 GGGCTTATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:60278862 original size:40 final size:41
Alignment explanation
Indices: 60278818--60279036 Score: 227
Period size: 40 Copynumber: 5.5 Consensus size: 41
60278808 GCTCGATTAT
* * * *
60278818 CTTCGGGACATT-GCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATTAGCCCGGTTTTAGTAACTCGCACAAATGC
* *
60278858 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACATTAGCCCGGTTTTAGTAACTCGCACAAATGC
* *
60278898 CTTCGGGAC-TTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATTAGCCCGGTTTTAGTAACTCGCACAAATGC
* * *
60278938 CTTCGGGAC-TTAACCCGGTTTTGGTAACTAGCACAAATGC
1 CTTCGGGACATTAGCCCGGTTTTAGTAACTCGCACAAATGC
* * * *
60278978 CTTCGGGA-ATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATTAG-CCCGGTTTTAGTAAC-TCGCACAAATGC
*
60279019 CTTCAGGAC-TTAGCCCGG
1 CTTCGGGACATTAGCCCGG
60279037 ACACCATTTG
Statistics
Matches: 155, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 3 0.02
40 126 0.81
41 25 0.16
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (41 bp):
CTTCGGGACATTAGCCCGGTTTTAGTAACTCGCACAAATGC
Found at i:60282586 original size:12 final size:12
Alignment explanation
Indices: 60282569--60282595 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
60282559 ATTTGTAAGT
60282569 TTCCTGAACTTA
1 TTCCTGAACTTA
60282581 TTCCTGAACTTA
1 TTCCTGAACTTA
60282593 TTC
1 TTC
60282596 AAGTAGCTTA
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:0.22, C:0.26, G:0.07, T:0.44
Consensus pattern (12 bp):
TTCCTGAACTTA
Found at i:60289471 original size:133 final size:133
Alignment explanation
Indices: 60289266--60289526 Score: 391
Period size: 133 Copynumber: 2.0 Consensus size: 133
60289256 TCAAACTCTA
* * *
60289266 ATAACCCTCATGCAGAGTATTATACTTACAACTTACTGTTCATATACCACATATAAACTCATTCT
1 ATAACCCTCATGCAAAATATTATACTTACAACTTACTATTCATATACCACATATAAACTCATTCT
*
60289331 TTTAAAACATCTAACATGCAGAACTATAATACTTACCCAGAGATGGAATGATCACTAATTAAAAC
66 TTTAAAACATCTAACATGCAGAACTATAATACTTACCCAAAGATGGAATGATCACTAATTAAAAC
60289396 TTG
131 TTG
* * *
60289399 ATAACCCTCATGCAAAATCA-TATATTTACAACTTACTATTCATGTACCACATATAGACTCATT-
1 ATAACCCTCATGCAAAAT-ATTATACTTACAACTTACTATTCATATACCACATATAAACTCATTC
* * * *
60289462 TTTTCAAAACATCTAACATGTAGAGCTGTAATACTTACCTAAAGATGGAATGATCACTAATTAAA
65 TTTT-AAAACATCTAACATGCAGAACTATAATACTTACCCAAAGATGGAATGATCACTAATTAAA
60289527 CCAATAATCC
Statistics
Matches: 115, Mismatches: 11, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
132 4 0.03
133 110 0.96
134 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (133 bp):
ATAACCCTCATGCAAAATATTATACTTACAACTTACTATTCATATACCACATATAAACTCATTCT
TTTAAAACATCTAACATGCAGAACTATAATACTTACCCAAAGATGGAATGATCACTAATTAAAAC
TTG
Found at i:60291618 original size:29 final size:29
Alignment explanation
Indices: 60291578--60291652 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
60291568 AATGTGACTG
* *
60291578 GGCCTAACGGGCCATATAAATGTGATTTA
1 GGCCTAATGGGCCATATAAAGGTGATTTA
* *
60291607 GGCCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAATGGGCCATATAAAGGTGATTTA
60291636 GGCCTAATGGGCCATAT
1 GGCCTAATGGGCCATAT
60291653 GAATATGAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAAGGTGATTTA
Found at i:60292771 original size:17 final size:18
Alignment explanation
Indices: 60292738--60292772 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
60292728 TTTTAAGAAG
60292738 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
60292756 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
60292773 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Done.