Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold194
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: 3945165
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1023 characters in sequence are not A, C, G, or T
File 3 of 24
Found at i:353950 original size:32 final size:32
Alignment explanation
Indices: 353909--354006 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
353899 AGTAGCTTAT
*
353909 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
353941 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
353973 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
354006 A
1 A
354007 AATCATTGAA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 49 0.77
33 15 0.23
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:356758 original size:13 final size:13
Alignment explanation
Indices: 356740--356764 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
356730 ACATTATGCT
356740 TTGTATCGATACG
1 TTGTATCGATACG
356753 TTGTATCGATAC
1 TTGTATCGATAC
356765 ATAGACAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACG
Found at i:357797 original size:13 final size:13
Alignment explanation
Indices: 357779--357804 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
357769 TACACAAAGT
357779 ATGTATCGATACA
1 ATGTATCGATACA
357792 ATGTATCGATACA
1 ATGTATCGATACA
357805 TTGGCTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:361881 original size:15 final size:15
Alignment explanation
Indices: 361861--361891 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
361851 TAAAAATGTC
*
361861 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
361876 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
361891 C
1 C
361892 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:366551 original size:13 final size:13
Alignment explanation
Indices: 366533--366558 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
366523 TACACAAAGT
366533 ATGTATCGATACA
1 ATGTATCGATACA
366546 ATGTATCGATACA
1 ATGTATCGATACA
366559 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:366556 original size:32 final size:33
Alignment explanation
Indices: 366515--366578 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
366505 TAGCCAAACT
**
366515 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
366547 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
366579 TTAGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:372258 original size:13 final size:13
Alignment explanation
Indices: 372240--372264 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
372230 AAAACCTAGA
372240 TGTATCGATACAC
1 TGTATCGATACAC
372253 TGTATCGATACA
1 TGTATCGATACA
372265 TTGGGTACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:374693 original size:20 final size:20
Alignment explanation
Indices: 374651--374698 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
374641 ATACTTCAAA
**
374651 GTATCGATACATAGGTATTT
1 GTATCGATACATAGGTAAAT
374671 GTATCGATACAT-GGTACAAT
1 GTATCGATACATAGGTA-AAT
374691 GTATCGAT
1 GTATCGAT
374699 GCATTGTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
GTATCGATACATAGGTAAAT
Found at i:374724 original size:20 final size:20
Alignment explanation
Indices: 374696--374735 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
374686 ACAATGTATC
*
374696 GATGCATTGTATCGATACAT
1 GATGAATTGTATCGATACAT
374716 GATGAATTGTATCGATACAT
1 GATGAATTGTATCGATACAT
374736 AGCTTGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (20 bp):
GATGAATTGTATCGATACAT
Found at i:374727 original size:33 final size:33
Alignment explanation
Indices: 374669--374731 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
374659 ACATAGGTAT
*
374669 TTGTATCGATACATGGTACAATGTATCGATGCA
1 TTGTATCGATACATGATACAATGTATCGATGCA
*
374702 TTGTATCGATACATGATGA-ATTGTATCGAT
1 TTGTATCGATACATGAT-ACAATGTATCGAT
374732 ACATAGCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.37
Consensus pattern (33 bp):
TTGTATCGATACATGATACAATGTATCGATGCA
Found at i:378076 original size:13 final size:13
Alignment explanation
Indices: 378060--378086 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
378050 ACAATTCATC
378060 ATGTATCGATACA
1 ATGTATCGATACA
378073 ATGTATCGATACA
1 ATGTATCGATACA
378086 A
1 A
378087 GGTCCTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:378078 original size:33 final size:33
Alignment explanation
Indices: 378038--378106 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
378028 CCGTTACAAG
*
378038 CAATGTATCAATACAA-TTCATCATGTATCGATA
1 CAATGTATCAATACAAGGTCAT-ATGTATCGATA
* *
378071 CAATGTATCGATACAAGGTCCTATGTATCGATA
1 CAATGTATCAATACAAGGTCATATGTATCGATA
378104 CAA
1 CAA
378107 ACAGTGGCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 29 0.91
34 3 0.09
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (33 bp):
CAATGTATCAATACAAGGTCATATGTATCGATA
Found at i:380278 original size:118 final size:118
Alignment explanation
Indices: 380135--380370 Score: 472
Period size: 118 Copynumber: 2.0 Consensus size: 118
380125 ATGTTTATAC
380135 ATGCTCTTGTAATGTTTTTGGATTATTAGTATTTGAATAATTAGATATAGGAATGATAGGTTGAG
1 ATGCTCTTGTAATGTTTTTGGATTATTAGTATTTGAATAATTAGATATAGGAATGATAGGTTGAG
380200 TTTTTAACTTAGATACAAGTTCTGGAATTTCCCAAAATGTATCAATACATTAT
66 TTTTTAACTTAGATACAAGTTCTGGAATTTCCCAAAATGTATCAATACATTAT
380253 ATGCTCTTGTAATGTTTTTGGATTATTAGTATTTGAATAATTAGATATAGGAATGATAGGTTGAG
1 ATGCTCTTGTAATGTTTTTGGATTATTAGTATTTGAATAATTAGATATAGGAATGATAGGTTGAG
380318 TTTTTAACTTAGATACAAGTTCTGGAATTTCCCAAAATGTATCAATACATTAT
66 TTTTTAACTTAGATACAAGTTCTGGAATTTCCCAAAATGTATCAATACATTAT
380371 GCAATGTATC
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 118 1.00
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (118 bp):
ATGCTCTTGTAATGTTTTTGGATTATTAGTATTTGAATAATTAGATATAGGAATGATAGGTTGAG
TTTTTAACTTAGATACAAGTTCTGGAATTTCCCAAAATGTATCAATACATTAT
Found at i:380429 original size:19 final size:19
Alignment explanation
Indices: 380405--380452 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
380395 ACTCAGATGG
380405 ATCGATACA-AAGAAATTGT
1 ATCGATACATAA-AAATTGT
*
380424 ATCGATACATTAAAATTGT
1 ATCGATACATAAAAATTGT
380443 ATCGATACAT
1 ATCGATACAT
380453 TTCTACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 26 0.96
20 1 0.04
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (19 bp):
ATCGATACATAAAAATTGT
Found at i:380453 original size:19 final size:19
Alignment explanation
Indices: 380417--380453 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
380407 CGATACAAAG
380417 AAATTGTATCGATACATTA
1 AAATTGTATCGATACATTA
380436 AAATTGTATCGATACATT
1 AAATTGTATCGATACATT
380454 TCTACTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (19 bp):
AAATTGTATCGATACATTA
Found at i:380587 original size:21 final size:21
Alignment explanation
Indices: 380563--380614 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
380553 CCAATCCTTT
380563 TCAAATTTCATCT-TTTTCGCA
1 TCAAATTTCATCTGTTTT-GCA
* *
380584 TCAAATCTCAT-TGTTTTTCA
1 TCAAATTTCATCTGTTTTGCA
380604 TCAAA-TTCATC
1 TCAAATTTCATC
380615 AACAAAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 4 0.15
20 8 0.31
21 14 0.54
ACGTcount: A:0.27, C:0.23, G:0.04, T:0.46
Consensus pattern (21 bp):
TCAAATTTCATCTGTTTTGCA
Found at i:387035 original size:9 final size:9
Alignment explanation
Indices: 387023--387083 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
387013 CTCTCTCTAT
387023 TATCTCTCC
1 TATCTCTCC
387032 TATCTCTCC
1 TATCTCTCC
* *
387041 T-CCTAT-C
1 TATCTCTCC
*
387048 -ATCCCTCC
1 TATCTCTCC
*
387056 TATCTCTAC
1 TATCTCTCC
387065 TATCTCTCC
1 TATCTCTCC
*
387074 TGTCTCTCC
1 TATCTCTCC
387083 T
1 T
387084 CCTATCATCC
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
7 3 0.08
8 4 0.10
9 33 0.82
ACGTcount: A:0.11, C:0.44, G:0.02, T:0.43
Consensus pattern (9 bp):
TATCTCTCC
Found at i:387043 original size:12 final size:12
Alignment explanation
Indices: 387028--387062 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
387018 TCTATTATCT
387028 CTCCTATCTCTC
1 CTCCTATCTCTC
387040 CTCCTATCATC-C
1 CTCCTATC-TCTC
387052 CTCCTATCTCT
1 CTCCTATCTCT
387063 ACTATCTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.10
12 17 0.81
13 2 0.10
ACGTcount: A:0.11, C:0.49, G:0.00, T:0.40
Consensus pattern (12 bp):
CTCCTATCTCTC
Found at i:387054 original size:42 final size:42
Alignment explanation
Indices: 386999--387113 Score: 167
Period size: 42 Copynumber: 2.7 Consensus size: 42
386989 TCTCTCCTCT
* *
386999 TCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTATCTCTCC
1 TCCTATCATCCCTCCTCTCTCTACTATCTCTCCTATCTCTCC
* *
387041 TCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCTCTCC
1 TCCTATCATCCCTCCTCTCTCTACTATCTCTCCTATCTCTCC
* * *
387083 TCCTATCATCCCTTCTCTCTCTTCTTTCTCT
1 TCCTATCATCCCTCCTCTCTCTACTATCTCT
387114 TTGAGGGTTA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.10, C:0.44, G:0.02, T:0.44
Consensus pattern (42 bp):
TCCTATCATCCCTCCTCTCTCTACTATCTCTCCTATCTCTCC
Found at i:389529 original size:23 final size:25
Alignment explanation
Indices: 389501--389550 Score: 77
Period size: 23 Copynumber: 2.1 Consensus size: 25
389491 GATAAGTATT
389501 AATGTTTTTCAAG-AA-ATAAATCA
1 AATGTTTTTCAAGTAAGATAAATCA
*
389524 AATGTTTTTCAAGTAAGATAATTCA
1 AATGTTTTTCAAGTAAGATAAATCA
389549 AA
1 AA
389551 GTATCGATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 13 0.54
24 2 0.08
25 9 0.38
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (25 bp):
AATGTTTTTCAAGTAAGATAAATCA
Found at i:389683 original size:33 final size:32
Alignment explanation
Indices: 389641--389704 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
389631 CATACCCAAA
* *
389641 TGTATTGATATATATTGCTTAGTATCAATACAT
1 TGTATTGATACATATTCCTT-GTATCAATACAT
*
389674 TGTATTGATACATATTCCTTGTATCGATACA
1 TGTATTGATACATATTCCTTGTATCAATACA
389705 CCATAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 10 0.36
33 18 0.64
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (32 bp):
TGTATTGATACATATTCCTTGTATCAATACAT
Found at i:389849 original size:52 final size:52
Alignment explanation
Indices: 389751--389859 Score: 128
Period size: 52 Copynumber: 2.1 Consensus size: 52
389741 TACCCTAAAT
* * *
389751 GAATTGTATCGATACATGGTAAATTGTGTCAATATATTAAGCCCAACGGCTA
1 GAATTGTATCAATACATGGTAAATTGTATCAATACATTAAGCCCAACGGCTA
* ** * * * *
389803 TAATTGTATCAATACATTTTGAATTGTATCGATACATTGAGTCCAACGGCTA
1 GAATTGTATCAATACATGGTAAATTGTATCAATACATTAAGCCCAACGGCTA
389855 GAATT
1 GAATT
389860 TCAAATGCAC
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (52 bp):
GAATTGTATCAATACATGGTAAATTGTATCAATACATTAAGCCCAACGGCTA
Found at i:392201 original size:157 final size:159
Alignment explanation
Indices: 391900--392214 Score: 503
Period size: 157 Copynumber: 2.0 Consensus size: 159
391890 TAGTTGATTT
*
391900 CCAACTTTGTTGGTTTCTAATTACTCATTAGTTGATATTATCCATCTAATTATGACAAAATGATG
1 CCAACTTTGTTGGTTTCTAATTACTCATTAGTTGATATTACCCATCTAATTATGACAAAATGATG
* *
391965 GAAATGACTTCCAATTCATATCAATTTAATGCATGAGATCTTTTTATGCTTAATAATAATAAAAG
66 GAAATGACTTCCAATTCATATCAATTTAATGCATCACATCTTTTTATGCTTAATAATAATAAAAG
392030 AAAAATAGAAAAAAAAAA-GA-AAAATTG
131 AAAAATAGAAAAAAAAAAGGAGAAAATTG
* * *
392057 CCAACTTTGTTGGTTTCTAATTACTCATTAGTTGATATTACCCATGTAATTGTGACAAAATGTTG
1 CCAACTTTGTTGGTTTCTAATTACTCATTAGTTGATATTACCCATCTAATTATGACAAAATGATG
* *
392122 GAAATGACTTCCAATTGCATATCAATTTAATGCATTCTCATCTTTTTATGGTTAATAATAATAAA
66 GAAATGACTTCCAATT-CATATCAATTTAATGCA-TCACATCTTTTTATGCTTAATAATAATAAA
*
392187 AGAAAAA-A-AGAAAAAAAAGGAGAAAATT
129 AGAAAAATAGAAAAAAAAAAGGAGAAAATT
392215 AAAATGAATT
Statistics
Matches: 145, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
157 86 0.59
158 20 0.14
159 39 0.27
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (159 bp):
CCAACTTTGTTGGTTTCTAATTACTCATTAGTTGATATTACCCATCTAATTATGACAAAATGATG
GAAATGACTTCCAATTCATATCAATTTAATGCATCACATCTTTTTATGCTTAATAATAATAAAAG
AAAAATAGAAAAAAAAAAGGAGAAAATTG
Found at i:393690 original size:153 final size:152
Alignment explanation
Indices: 393440--394064 Score: 473
Period size: 154 Copynumber: 4.1 Consensus size: 152
393430 CATTTTTATA
* * ** * *
393440 TCTTTTAGGGTTA-TCAGGATAC-TTACACGTCAAAAGTATA-TTCTAAAGGTATTTTGGTAATT
1 TCTTTTAGGGTTACT-AAGATACATT-CACGTCAAAAGTATACCT-TAGGGGCATTTTGATAA-T
* * *
393502 TTTCCTAAAATCAAAC-CTTAGGTAGTCATCAGGTCACTTTTATGCCAAAGGTGTGCATTTAAGA
62 TCT-CTAAACTC-AACTCTTAGGTAGTCA-CAGGTCACTTTTATGCCAAAGGTGTGCATTTAGGA
* *
393566 TAGGTTTATCCTTTTATGATGTTTTCATG
124 TAGGTTAATCCTTTTATGATCTTTTCATG
** * * *
393595 TCTTTTAGGGTTACT-AGATATTTTTATGTCAAAAGTATATCTTAGGGGCATTTTGATAATCTCT
1 TCTTTTAGGGTTACTAAGATACATTCACGTCAAAAGTATACCTTAGGGGCATTTTGATAAT-TCT
* * *
393659 CTAGAACT-GAGTCTTAGGTAGTCACCAGGTCATTTTTATGCCAAAGGTGTGCATTTAGGATAGG
65 CTA-AACTCAACTCTTAGGTAGTCA-CAGGTCACTTTTATGCCAAAGGTGTGCATTTAGGATAGG
* * **
393723 TTAATCATTTTGTGATTCTTTTTGTG
128 TTAATCCTTTTATGA-TCTTTTCATG
* * *
393749 TCTTTTAGGGTTACTAAGATACATTCACGTCAAAGGTATACCTTAGGGGCATTTTGATAATTTTT
1 TCTTTTAGGGTTACTAAGATACATTCACGTCAAAAGTATACCTTAGGGGCATTTTGATAATTCTC
* ** * * * * *
393814 TAAAGTCAACTCTTAGGTAGTCA-ATGAGTTGCTTTTATGCTAAAAGTGTGAATTTAGGTTAGAT
66 TAAACTCAACTCTTAGGTAGTCACA-G-GTCACTTTTATGCCAAAGGTGTGCATTTAGGATAGGT
* *
393878 TCATCCTTTTATAATCTTTTCATG
129 TAATCCTTTTATGATCTTTTCATG
* * * * * * **
393902 TCTTTTAAGGTTGCTAAGATACTTTCACATCAAAGGTATACCCTAGACGCATTTT-AGTAATTTT
1 TCTTTTAGGGTTACTAAGATACATTCACGTCAAAAGTATACCTTAGGGGCATTTTGA-TAA--TT
* * * ** ** * *
393966 TTCTAGAAC-CAAGTCTTAAGTAGTGTCTAGGTTGCTTTTATGCCAAA-GTGTTCTTTTA-GATA
63 CTCTA-AACTCAACTCTTAGGTAGTCAC-AGGTCACTTTTATGCCAAAGGTGTGCATTTAGGATA
** * *
394028 GGTTTGTCCCTTTAAT-ATCATTTTCAAG
126 GGTTAAT-CCTTTTATGATC-TTTTCATG
394056 TCTTTTAGG
1 TCTTTTAGG
394065 ATTATTGGGA
Statistics
Matches: 380, Mismatches: 71, Indels: 39
0.78 0.14 0.08
Matches are distributed among these distances:
152 3 0.01
153 138 0.36
154 144 0.38
155 90 0.24
156 4 0.01
157 1 0.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (152 bp):
TCTTTTAGGGTTACTAAGATACATTCACGTCAAAAGTATACCTTAGGGGCATTTTGATAATTCTC
TAAACTCAACTCTTAGGTAGTCACAGGTCACTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTA
ATCCTTTTATGATCTTTTCATG
Found at i:393850 original size:154 final size:153
Alignment explanation
Indices: 393440--393967 Score: 489
Period size: 153 Copynumber: 3.4 Consensus size: 153
393430 CATTTTTATA
* * * * ** * *
393440 TCTTTTAGGGTTA-TCAGGATACTTACACGTCAAAAGTATA-TTCTAAAGGTATTTTGGTAATTT
1 TCTTTTAGGGTTACT-AAGATACTTTCACGTCAAAGGTATACCT-TAGGGGCATTTTGATAATTT
* *
393503 TTCCTAAAATCAAAC-CTTAGGTAGTC-ATCAGGTCACTTTTATGCCAAAGGTGTGCATTTAAGA
64 TT--TAAAATC-AACTCTTAGGTAGTCAATGA-GTCACTTTTATGCCAAAGGTGTGCATTTAGGA
* *
393566 TAGGTTTATCCTTTTATGATGTTTTCATG
125 TAGGTTAATCCTTTTATGATCTTTTCATG
* * * * * *
393595 TCTTTTAGGGTTACT-AGATATTTTTATGTCAAAAGTATATCTTAGGGGCATTTTGATAATCTCT
1 TCTTTTAGGGTTACTAAGATACTTTCACGTCAAAGGTATACCTTAGGGGCATTTTGATAAT-TTT
* * * * *
393659 CTAGAA-CTGAGTCTTAGGTAGTCACCA-G-GTCATTTTTATGCCAAAGGTGTGCATTTAGGATA
65 TTAAAATC-AACTCTTAGGTAGTCA--ATGAGTCACTTTTATGCCAAAGGTGTGCATTTAGGATA
* * **
393721 GGTTAATCATTTTGTGATTCTTTTTGTG
127 GGTTAATCCTTTTATGA-TCTTTTCATG
*
393749 TCTTTTAGGGTTACTAAGATACATTCACGTCAAAGGTATACCTTAGGGGCATTTTGATAATTTTT
1 TCTTTTAGGGTTACTAAGATACTTTCACGTCAAAGGTATACCTTAGGGGCATTTTGATAATTTTT
* ** * * * * *
393814 TAAAGTCAACTCTTAGGTAGTCAATGAGTTGCTTTTATGCTAAAAGTGTGAATTTAGGTTAGATT
66 TAAAATCAACTCTTAGGTAGTCAATGAGTCACTTTTATGCCAAAGGTGTGCATTTAGGATAGGTT
* *
393879 CATCCTTTTATAATCTTTTCATG
131 AATCCTTTTATGATCTTTTCATG
* * * * **
393902 TCTTTTAAGGTTGCTAAGATACTTTCACATCAAAGGTATACCCTAGACGCATTTT-AGTAATTTT
1 TCTTTTAGGGTTACTAAGATACTTTCACGTCAAAGGTATACCTTAGGGGCATTTTGA-TAATTTT
393966 TT
65 TT
393968 CTAGAACCAA
Statistics
Matches: 302, Mismatches: 58, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
152 4 0.01
153 127 0.42
154 113 0.37
155 56 0.19
156 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (153 bp):
TCTTTTAGGGTTACTAAGATACTTTCACGTCAAAGGTATACCTTAGGGGCATTTTGATAATTTTT
TAAAATCAACTCTTAGGTAGTCAATGAGTCACTTTTATGCCAAAGGTGTGCATTTAGGATAGGTT
AATCCTTTTATGATCTTTTCATG
Found at i:394265 original size:17 final size:17
Alignment explanation
Indices: 394231--394263 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
394221 TTATTAATAT
*
394231 TTTTAATAAAATCTAAA
1 TTTTAAAAAAATCTAAA
394248 TTTTAAAAAAAT-TAAA
1 TTTTAAAAAAATCTAAA
394264 ATAATGTCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
TTTTAAAAAAATCTAAA
Found at i:398901 original size:22 final size:22
Alignment explanation
Indices: 398871--398914 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
398861 AAAATATTTT
*
398871 ATATTTAAATA-TAATTATAAAA
1 ATATATAAATATTAA-TATAAAA
398893 ATATATAAATATTAATATAAAA
1 ATATATAAATATTAATATAAAA
398915 TTAATACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATATAAATATTAATATAAAA
Found at i:398907 original size:29 final size:28
Alignment explanation
Indices: 398856--398912 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
398846 ATTATTCAAC
**
398856 TTATAAAAATATTTTATATTTAAATATAA
1 TTATAAAAATATTAAATATTT-AATATAA
398885 TTATAAAAATATATAAATA-TTAATATAA
1 TTATAAAAATAT-TAAATATTTAATATAA
398913 AATTAATACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.28
29 14 0.56
30 4 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
TTATAAAAATATTAAATATTTAATATAA
Found at i:400090 original size:30 final size:28
Alignment explanation
Indices: 400056--400111 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 28
400046 TCGATGATTA
400056 GAAAATAAATCGAGATTGGAGTATCCCCTC
1 GAAAAT-AAT-GAGATTGGAGTATCCCCTC
*
400086 GAAAATAATGGGATTGGAGTATCCCC
1 GAAAATAATGAGATTGGAGTATCCCC
400112 GATGATTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 16 0.64
29 3 0.12
30 6 0.24
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (28 bp):
GAAAATAATGAGATTGGAGTATCCCCTC
Found at i:400190 original size:53 final size:51
Alignment explanation
Indices: 400125--400461 Score: 195
Period size: 53 Copynumber: 6.4 Consensus size: 51
400115 GATTAACGGG
400125 GTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAA-TTGGTG-TTTTTGGAAATAAAATCGGA
* * * *
400178 GTTGGAGTATCCCCGATTAAAGGGAAAATTGGTG-TTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT---GTGAAAATTGGTGTTTTTGGAAATAAAATCGGA
* *** * * * * *
400231 GTTGGAGTATCCCCGATTATGAAGAATCAAT-ATTTTGGAGATAAAGTTGGG
1 GTTGGAGTATCCCCGATTGTGAA-AATTGGTGTTTTTGGAAATAAAATCGGA
* * **** * * *
400282 GTTGGAGTATCCCC--TCG-GAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTG-AA-AA-----TTGGTGT-TTTTGGA-AATAAAATCGGA
*
400337 GTTGGTGTATCCCCGATTGTGAAAATTTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAA-TTGGTG-TTTTTGGAAATAAAATCGGA
* * * **
400390 GTTGGAGTATCCCCGATTATAGAAAATTAGTG-TCTTAAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAATTGGTGTTTTTGGAAATAAAATCGGA
*
400441 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
400462 GAGAATTGAG
Statistics
Matches: 215, Mismatches: 48, Indels: 45
0.70 0.16 0.15
Matches are distributed among these distances:
48 1 0.00
49 5 0.02
50 4 0.02
51 68 0.32
52 10 0.05
53 79 0.37
54 6 0.03
55 22 0.10
56 12 0.06
57 7 0.03
58 1 0.00
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAATTGGTGTTTTTGGAAATAAAATCGGA
Found at i:400341 original size:27 final size:28
Alignment explanation
Indices: 400279--400353 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 28
400269 AGATAAAGTT
***
400279 GGGGTTGGAGTATCCCCTCGGAAATAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
*
400307 GGGGTTGGAGTATCCCCGATG-ATTAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
*
400334 GGGGTTGGTGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
400354 TGTGAAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.20, C:0.20, G:0.35, T:0.25
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:402843 original size:13 final size:13
Alignment explanation
Indices: 402825--402850 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
402815 ACATTGATCC
402825 ATGTATCGATACA
1 ATGTATCGATACA
402838 ATGTATCGATACA
1 ATGTATCGATACA
402851 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:402914 original size:19 final size:18
Alignment explanation
Indices: 402890--402957 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
402880 CAGTGGCTAA
402890 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
402909 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
402924 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
402941 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
402958 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:402930 original size:13 final size:13
Alignment explanation
Indices: 402912--402936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
402902 ACAATACTTA
402912 TGTATCGATACAT
1 TGTATCGATACAT
402925 TGTATCGATACA
1 TGTATCGATACA
402937 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:402934 original size:32 final size:32
Alignment explanation
Indices: 402893--402955 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
402883 TGGCTAATTA
*
402893 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
402925 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
402956 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:404907 original size:97 final size:98
Alignment explanation
Indices: 404636--404921 Score: 253
Period size: 97 Copynumber: 2.9 Consensus size: 98
404626 CCCCAACAAT
* * *
404636 GACAATTTAGGCGAAAATAAGATTTAAATCTTAACATGTTTAAAAATAGGGTTGGAGTATCCCCT
1 GACAATTTAGG-GAAAATAAGATTTAAATCTTGACAAGTTTAAAAACAGGGTTGGAGTAT-CCCT
* *
404701 T---AGAATATGGGTTGGAGTATCCCGTGGATGATA
64 TCGAAGAATA-GGGTTGAAGTATCCCATGGATGATA
* * * * * * *
404734 GATAATTTTGGCAAAAGAAGAATTCAAATCTTGACGAA-TTTCGAAAAGCAGGATTGGAGTATCC
1 GACAATTTAGGGAAAATAAG-ATTTAAATCTTGAC-AAGTTT--AAAAACAGGGTTGGAGTATCC
* * *
404798 ATTCAGAGGAATAGGGTTGAAGTGT-CCAT-GATGAT-
62 CTTC-GAAGAATAGGGTTGAAGTATCCCATGGATGATA
* * * *
404833 TACAATTTGGGTGAAAATAAGATTTAAATCTTGATAAGTTTAAAAACAGGGTTGGACTATCCCTT
1 GACAATTTAGG-GAAAATAAGATTTAAATCTTGACAAGTTTAAAAACAGGGTTGGAGTATCCCTT
*
404898 CGGAAGAATAGGGTTGGAGTATCC
65 C-GAAGAATAGGGTTGAAGTATCC
404922 TTGATAAATA
Statistics
Matches: 147, Mismatches: 30, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
97 45 0.31
98 27 0.18
99 28 0.19
100 29 0.20
101 3 0.02
102 10 0.07
103 5 0.03
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (98 bp):
GACAATTTAGGGAAAATAAGATTTAAATCTTGACAAGTTTAAAAACAGGGTTGGAGTATCCCTTC
GAAGAATAGGGTTGAAGTATCCCATGGATGATA
Found at i:405880 original size:13 final size:13
Alignment explanation
Indices: 405862--405887 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
405852 TACACCAAGT
405862 ATGTATCGATACA
1 ATGTATCGATACA
405875 ATGTATCGATACA
1 ATGTATCGATACA
405888 CAAATAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:405885 original size:32 final size:33
Alignment explanation
Indices: 405844--405907 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
405834 TAGCCAAACT
*
405844 TGTATCGATACACCAAGT-A-TGTATCGATACAA
1 TGTATCGATACA-CAAATAATTGTATCGATACAA
405876 TGTATCGATACACAAATAATTGTATCGATACA
1 TGTATCGATACACAAATAATTGTATCGATACA
405908 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 4 0.14
32 13 0.45
33 12 0.41
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAATAATTGTATCGATACAA
Found at i:408135 original size:21 final size:21
Alignment explanation
Indices: 408102--408146 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
408092 TTGCAAGTTG
*
408102 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
408124 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
408144 AAA
1 AAA
408147 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:409922 original size:15 final size:15
Alignment explanation
Indices: 409902--409940 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
409892 TAAAAATGTC
*
409902 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
409917 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
409932 CCAAATGAA
1 CAAAATGAA
409941 ATTGATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:412025 original size:19 final size:19
Alignment explanation
Indices: 411958--412033 Score: 71
Period size: 25 Copynumber: 3.6 Consensus size: 19
411948 GTCCAAAATA
*
411958 TATCGATACATGTTTCTGTG
1 TATCGATACATTTTTCT-TG
*
411978 TATCGATACATTTGGAAATTCAATG
1 TATCGATACATTT-----TTC-TTG
412003 TATCGATACATTTTTCTTG
1 TATCGATACATTTTTCTTG
412022 TATCGATACATT
1 TATCGATACATT
412034 GTATCGATAC
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
19 14 0.30
20 15 0.32
25 18 0.38
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.43
Consensus pattern (19 bp):
TATCGATACATTTTTCTTG
Found at i:412037 original size:13 final size:13
Alignment explanation
Indices: 412019--412044 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
412009 TACATTTTTC
412019 TTGTATCGATACA
1 TTGTATCGATACA
412032 TTGTATCGATACA
1 TTGTATCGATACA
412045 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:412208 original size:20 final size:20
Alignment explanation
Indices: 412165--412210 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
412155 AAATCTTTTG
412165 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
412186 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
412206 CAAAA
1 CAAAA
412211 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:414487 original size:20 final size:20
Alignment explanation
Indices: 414462--414515 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
414452 AAAACCCTTA
414462 AAAGTATCGATACACAATT-C
1 AAAGTATCGATACAC-ATTGC
*
414482 AAAGTATCGATACACGTTGC
1 AAAGTATCGATACACATTGC
*
414502 AATGTATCGATACA
1 AAAGTATCGATACA
414516 TGAAAAAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAGTATCGATACACATTGC
Found at i:414594 original size:13 final size:13
Alignment explanation
Indices: 414576--414601 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
414566 TACACCAAGT
414576 ATGTATCGATACA
1 ATGTATCGATACA
414589 ATGTATCGATACA
1 ATGTATCGATACA
414602 CAAATAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:414601 original size:32 final size:33
Alignment explanation
Indices: 414560--414621 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
414550 GCCAAACTTT
*
414560 TATCGATACACCAAGT-A-TGTATCGATACAATG
1 TATCGATACA-CAAATAATTGTATCGATACAATG
414592 TATCGATACACAAATAATTGTATCGATACA
1 TATCGATACACAAATAATTGTATCGATACA
414622 TTGGCTTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 4 0.15
32 11 0.41
33 12 0.44
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (33 bp):
TATCGATACACAAATAATTGTATCGATACAATG
Found at i:425397 original size:13 final size:13
Alignment explanation
Indices: 425379--425403 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
425369 ATTTCACTTA
425379 GTATTGATACATT
1 GTATTGATACATT
425392 GTATTGATACAT
1 GTATTGATACAT
425404 AAAATTGGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
GTATTGATACATT
Found at i:425511 original size:42 final size:42
Alignment explanation
Indices: 425444--425524 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
425434 CTATTCTCAT
* * *
425444 TGTTCATGTATCGATGCATTGTGAATAGTATCGATACATCAC
1 TGTTCATGTATCAATACATTATGAATAGTATCGATACATCAC
425486 TGTTCATGTATCAATACATTATGAATAGTATCGATACAT
1 TGTTCATGTATCAATACATTATGAATAGTATCGATACAT
425525 TGAGTCCAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (42 bp):
TGTTCATGTATCAATACATTATGAATAGTATCGATACATCAC
Found at i:425522 original size:20 final size:20
Alignment explanation
Indices: 425451--425525 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
425441 CATTGTTCAT
* *
425451 GTATCGATGCATTGTGAATA
1 GTATCGATACATTATGAATA
* *
425471 GTATCGATACATCACTG-TTCA
1 GTATCGATACATTA-TGAAT-A
*
425492 TGTATCAATACATTATGAATA
1 -GTATCGATACATTATGAATA
425513 GTATCGATACATT
1 GTATCGATACATT
425526 GAGTCCAACG
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
20 24 0.56
21 6 0.14
22 13 0.30
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (20 bp):
GTATCGATACATTATGAATA
Found at i:427609 original size:21 final size:21
Alignment explanation
Indices: 427584--427642 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
427574 TTATATTCTT
* *
427584 GAAAAGAAATTAAGTGAATTA
1 GAAAAGAAAATAAATGAATTA
*
427605 GAAAATAAAATAAATGAATTA
1 GAAAAGAAAATAAATGAATTA
** *
427626 GAGGAGAAAAGAAATGA
1 GAAAAGAAAATAAATGA
427643 GTTGCAAGTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.61, C:0.00, G:0.20, T:0.19
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAATTA
Found at i:428563 original size:23 final size:24
Alignment explanation
Indices: 428537--428584 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
428527 ATTATTGAAA
*
428537 TTTTGT-TTTCAATTG-ATTTGTGT
1 TTTTGTGTTT-AATTGAATTTATGT
428560 TTTTGTGTTTAATTGAATTTATGT
1 TTTTGTGTTTAATTGAATTTATGT
428584 T
1 T
428585 CAATGCTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.17, C:0.02, G:0.17, T:0.65
Consensus pattern (24 bp):
TTTTGTGTTTAATTGAATTTATGT
Found at i:430474 original size:22 final size:23
Alignment explanation
Indices: 430441--430507 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 23
430431 ATGTTTGTGT
430441 ATAGTATCGATACATCACTGTTC
1 ATAGTATCGATACATCACTGTTC
* **
430464 AT-GTATTGATACAT---TGTGA
1 ATAGTATCGATACATCACTGTTC
430483 ATAGTATCGATACATCACTGTTC
1 ATAGTATCGATACATCACTGTTC
430506 AT
1 AT
430508 CACTGTTCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
19 5 0.15
20 11 0.32
22 11 0.32
23 7 0.21
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (23 bp):
ATAGTATCGATACATCACTGTTC
Found at i:431834 original size:19 final size:20
Alignment explanation
Indices: 431785--431835 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
431775 CATTTAGGGA
431785 TGTATCGATACATTGTGTAT
1 TGTATCGATACATTGTGTAT
*
431805 TGTATTGATACATT-T-TCAT
1 TGTATCGATACATTGTGT-AT
*
431824 TGTATCAATACA
1 TGTATCGATACA
431836 AATGAAGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 1 0.04
19 13 0.48
20 13 0.48
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATTGTGTAT
Found at i:432295 original size:20 final size:20
Alignment explanation
Indices: 432258--432311 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
432248 TTTAATAATT
432258 TGTATCGATACAATAAGTGAA
1 TGTATCGATAC-ATAAGTGAA
432279 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
*
432299 TGTATGGATACAT
1 TGTATCGATACAT
432312 GTCTGAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 21 0.66
21 11 0.34
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:432318 original size:20 final size:20
Alignment explanation
Indices: 432258--432335 Score: 75
Period size: 21 Copynumber: 3.8 Consensus size: 20
432248 TTTAATAATT
*
432258 TGTATCGATACAATAAGTGAA
1 TGTATCGATAC-ATAACTGAA
*
432279 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAACTGAA
* **
432299 TGTATGGATACATGTCTGAAA
1 TGTATCGATACATAACTG-AA
* *
432320 TGTATTGATACTTAAC
1 TGTATCGATACATAAC
432336 CATCGGGCAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
20 23 0.48
21 25 0.52
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAACTGAA
Found at i:436056 original size:24 final size:22
Alignment explanation
Indices: 436013--436072 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
436003 CCTTTTCTTG
*
436013 TTTGTTTTTTATTTTTTTTTGTTT
1 TTTGTTTTTT-TTTTGTTTT-TTT
436037 TTTGTTTTTTTGTTTGTTTTTTT
1 TTTGTTTTTTT-TTTGTTTTTTT
**
436060 TTAATTTTTTTTT
1 TTTGTTTTTTTTT
436073 GTGCAGAGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 2 0.06
23 13 0.41
24 17 0.53
ACGTcount: A:0.05, C:0.00, G:0.08, T:0.87
Consensus pattern (22 bp):
TTTGTTTTTTTTTTGTTTTTTT
Found at i:436068 original size:36 final size:35
Alignment explanation
Indices: 436005--436072 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
435995 TTCTTCCCCC
*
436005 TTTTCTTGTTTGTTTTTTATTTTTTTTTGTTTTTTG
1 TTTTCTTGTTTGTTTTTTATTTATTTTT-TTTTTTG
* *
436041 TTTTTTTGTTTGTTTTTT-TTTAATTTTTTTTT
1 TTTTCTTGTTTGTTTTTTATTTATTTTTTTTTT
436073 GTGCAGAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 5 0.17
35 7 0.24
36 17 0.59
ACGTcount: A:0.04, C:0.01, G:0.09, T:0.85
Consensus pattern (35 bp):
TTTTCTTGTTTGTTTTTTATTTATTTTTTTTTTTG
Found at i:436071 original size:15 final size:14
Alignment explanation
Indices: 436019--436072 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 14
436009 CTTGTTTGTT
436019 TTTTATTTTTTTTTG
1 TTTT-TTTTTTTTTG
436034 TTTTTTGTTTTTTTG
1 TTTTTT-TTTTTTTG
**
436049 TTTGTTTTTTTTTAA
1 TTT-TTTTTTTTTTG
436064 TTTTTTTTT
1 TTTTTTTTT
436073 GTGCAGAGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
14 8 0.23
15 24 0.69
16 3 0.09
ACGTcount: A:0.06, C:0.00, G:0.07, T:0.87
Consensus pattern (14 bp):
TTTTTTTTTTTTTG
Found at i:437199 original size:51 final size:51
Alignment explanation
Indices: 437144--437254 Score: 168
Period size: 51 Copynumber: 2.2 Consensus size: 51
437134 ACGGGGCTGG
*
437144 AGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGACGAGGTTGA
1 AGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGACGAGGTTGA
* * * * *
437195 AGTATCCCCGATTGTGAGAGATCAATATTTTGGAAATAAAGCCGGGGTTGG
1 AGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGACGAGGTTGA
437246 AGTATCCCC
1 AGTATCCCC
437255 TCGAAAATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (51 bp):
AGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGACGAGGTTGA
Found at i:437271 original size:28 final size:28
Alignment explanation
Indices: 437237--437310 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 28
437227 GAAATAAAGC
437237 CGGGGTTGGAGTATCCCCTCGA-AAATAA
1 CGGGGTTGGAGTATCCCCT-GAGAAATAA
437265 CGGGGTTGGAGTAT-CCCTGATGAAATAA
1 CGGGGTTGGAGTATCCCCTGA-GAAATAA
**
437293 CGGGGTTAAAGTATCCCC
1 CGGGGTTGGAGTATCCCC
437311 GATTGTAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
26 2 0.05
27 4 0.10
28 32 0.78
29 3 0.07
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTGAGAAATAA
Found at i:439732 original size:20 final size:19
Alignment explanation
Indices: 439652--439758 Score: 82
Period size: 20 Copynumber: 5.7 Consensus size: 19
439642 AAAAGGCCTG
* *
439652 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AC
*
439672 AATGTATCAATACAATGAGC
1 AATGTATCGATACAATGA-C
439692 AATG--T--AT-CAAT-AC
1 AATGTATCGATACAATGAC
*
439705 AGTGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-C
* *
439725 AATGTATCGATATAATGCAA
1 AATGTATCGATACAATG-AC
439745 AATGTATCGATACA
1 AATGTATCGATACA
439759 TCTGGGTAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
13 4 0.06
14 1 0.01
15 5 0.07
16 2 0.03
17 2 0.03
18 5 0.07
19 2 0.03
20 48 0.69
21 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (19 bp):
AATGTATCGATACAATGAC
Found at i:439821 original size:13 final size:13
Alignment explanation
Indices: 439774--439803 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
439764 GTAAACCTAG
439774 AATGTATCGATAC
1 AATGTATCGATAC
439787 AATGTATCGATAC
1 AATGTATCGATAC
439800 AATG
1 AATG
439804 AACAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:440479 original size:41 final size:41
Alignment explanation
Indices: 440393--440494 Score: 136
Period size: 41 Copynumber: 2.5 Consensus size: 41
440383 GTCCCACTTT
* *
440393 TTGAGGACAAAGGAAAAA-AGAATGAAATATGTCTTGCTCC
1 TTGAGGACAAAGGAAAAAGAAAAGGAAATATGTCTTGCTCC
* *
440433 TTGAGGACAAAGGAAGAAAGAAAAGGAAA-GTGTCTTGCTTC
1 TTGAGGACAAAGGAA-AAAGAAAAGGAAATATGTCTTGCTCC
440474 TTGAGGACAAAGTGAAAAAGA
1 TTGAGGACAAAG-GAAAAAGA
440495 GTACGTCCTA
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
40 15 0.27
41 30 0.55
42 10 0.18
ACGTcount: A:0.44, C:0.10, G:0.26, T:0.20
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAAGAAAAGGAAATATGTCTTGCTCC
Found at i:440573 original size:42 final size:42
Alignment explanation
Indices: 440512--440663 Score: 114
Period size: 42 Copynumber: 3.5 Consensus size: 42
440502 CTACTTTTCG
*
440512 AGGACAAAGGAAAAAAGGAAAATAAA-ATGCATCCTGCTCCTTA
1 AGGACAAAAGAAAAAAGGAAAATAAAGATG--TCCTGCTCCTTA
* * *
440555 AGGACAAAAG-AAAGAGGAAAATAAAGTATGTCCTGCTCTTTG
1 AGGACAAAAGAAAAAAGGAAAATAAAG-ATGTCCTGCTCCTTA
* * * *
440597 AGGACAAAAGGGAAAATAAGG-GAATGAAGTGTGTCCTGCTCTTTGA
1 AGGACAAAA--GAAAA-AAGGAAAATAAAG-ATGTCCTGCTCCTT-A
* *
440643 A-GACAAAGGAGAAAAGGAAAA
1 AGGACAAAAGAAAAAAGGAAAA
440664 GGCATCCTAC
Statistics
Matches: 89, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
42 37 0.42
43 15 0.17
44 4 0.04
45 29 0.33
46 4 0.04
ACGTcount: A:0.46, C:0.12, G:0.25, T:0.17
Consensus pattern (42 bp):
AGGACAAAAGAAAAAAGGAAAATAAAGATGTCCTGCTCCTTA
Found at i:440728 original size:61 final size:61
Alignment explanation
Indices: 440653--441058 Score: 512
Period size: 61 Copynumber: 6.6 Consensus size: 61
440643 AGACAAAGGA
* *
440653 GAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
1 GAAAA-GAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * ** *
440715 GAAAAGAAAAGGCATCATACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* *
440776 GAAAAGAAAAAGGTGTCCTACTCTTTGAGGACTAAAA-GTGTCACCAACTCGTGTGGGCTTT
1 GAAAAG-AAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * ** * * * * *
440837 AAAAAGAAAAAGGTGTCTTGTTCTTTAAGGACTAAGAGGTGCCACTAACTTGTGTGGGCATT
1 GAAAAG-AAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * *
440899 AAAAAGGAAAAGGTGTCCTACTCTTTGAGGACT-AAAGGTGCCACTAACTCGTGTGGGCTTT
1 GAAAA-GAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * *
440960 GAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTAGTGTAGGC-TT
1 GAAAAGAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
441020 GAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAAGG
1 GAAAAG-AAAAGGCGTCCTACTCTTTGAGGACTAAAAGG
441059 AAAAGAAGGA
Statistics
Matches: 301, Mismatches: 38, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
60 33 0.11
61 190 0.63
62 77 0.26
63 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (61 bp):
GAAAAGAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
Found at i:440788 original size:123 final size:122
Alignment explanation
Indices: 440653--441429 Score: 601
Period size: 123 Copynumber: 6.3 Consensus size: 122
440643 AGACAAAGGA
* **
440653 GAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA
1 GAAAAGAAAAAGGTGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA
* *
440718 AAGAAAAGGCATCATACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT
66 AAGAAAAGGCATCATGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT
* *
440776 GAAAAGAAAAAGGTGTCCTACTCTTTGAGGACT-AAAAGTGTCACCAACTCGTGTGGGCTTTAAA
1 GAAAAGAAAAAGGTGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA
** * * * * *
440840 AAGAAAAAGGTGTCTTGTTCTTTAAGGACTAAGAGGTGCCACTAACTTGTGTGGGCATT
66 AAG-AAAAGGCATCATGCTCTTTGAGGACTAA-AGGTGCCACCAACTTGTGTGGGCTTT
* * * *
440899 AAAAAGGAAAAGGTGTCCTACTCTTTGAGGACT-AAAGGTGCCACTAACTCGTGTGGGCTTTGAA
1 GAAAAGAAAAAGGTGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA
* * * *
440963 AAGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTAGTGTAGGC-TT
66 AAGAAAAGGCATCATGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTT
* * ** ** * * *
441020 GAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGAAAAGAAGGAAATGAAGTACGTCCTA
1 GAAAAGAAAAAGGTGTCCTACTCTTTGAGGACT---A--AAAAG--TGCCACCAACT-CGT-GTG
** ** * ** * ** * * * * ** * ** *
441085 CTCTTTGAGGACAAAAGG-AGAAAAG----AAGA-GAGTGGAACGTG--TCCTGCTCTATAAGGA
57 GGCTTTGAAAAGAAAAGGCA-TCATGCTCTTTGAGGACT-AAAGGTGCCACCAACT-TGTGTGGG
***
441142 CAAAGGA
119 C---TTT
* * *
441149 GAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTATGGGCTTTGAA
1 GAAAAGAAAAAGGTGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA
* * * * *
441214 AGGAAAAGGCATCTTGCTCTTTGAGGAGTGGAAGGTGCCACCAACTTGTATGGGCTTT
66 AAGAAAAGGCATCATGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
441272 GAAAAGAAAAAAGTGTCCTGCTCCTTGAGGACT-AAAAGTGCCACCAACTCGTGTGGGTTTTGGA
1 GAAAAGAAAAAGGTGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT-GA
** **
441336 AACA-AAAAGGTGTTC-TGCTCTTTGAGGACTAAAGGTGCCACCAACTCATGTGGGCTTT
65 AA-AGAAAAGG-CATCATGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
441394 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAA
1 GAAAAGAAAAAGGTGTCCTACTCTTTGAGGACTAAA
441430 GGGAAAAGAA
Statistics
Matches: 508, Mismatches: 114, Indels: 64
0.74 0.17 0.09
Matches are distributed among these distances:
120 14 0.03
121 37 0.07
122 161 0.32
123 191 0.38
124 13 0.03
125 14 0.03
126 13 0.03
127 12 0.02
129 35 0.07
130 3 0.01
131 15 0.03
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.24
Consensus pattern (122 bp):
GAAAAGAAAAAGGTGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA
AAGAAAAGGCATCATGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:441007 original size:184 final size:183
Alignment explanation
Indices: 440674--441056 Score: 500
Period size: 184 Copynumber: 2.1 Consensus size: 183
440664 GGCATCCTAC
* * *
440674 TCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCATCATACTCTT
1 TCTTTAAGGACTAAAAAGTGCCACCAACTCGTGTGGGCATTAAAAAGAAAAGGCATCATACTCTT
* * *
440739 TGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTACTCTTTGA
66 TGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTTGA
* * *
440804 GGACTAAAAGTGTCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGTGTCTTGT
131 GGACTAAAAGTGCCACCAACTAGTGTAGGC-TTAAAAAGAAAAAGGTGTCTTGT
* * * * ** *
440858 TCTTTAAGGACTAAGAGGTGCCACTAACTTGTGTGGGCATTAAAAAGGAAAAGGTGTCCTACTCT
1 TCTTTAAGGACTAAAAAGTGCCACCAACTCGTGTGGGCATTAAAAA-GAAAAGGCATCATACTCT
* *
440923 TTGAGGACT-AAAGGTGCCACTAACTCGTGTGGGCTTTGAAAAG-AAAAGGCGTCCTGCTCTTTG
65 TTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTTG
* * * * **
440986 AGGACTAAAGGGTGCCACCAACTAGTGTAGGCTTGAAAAGAAAAAGGCGTCCTAC
130 AGGACTAAA-AGTGCCACCAACTAGTGTAGGCTTAAAAAGAAAAAGGTGTCTTGT
*
441041 TCTTTGAGGACTAAAA
1 TCTTTAAGGACTAAAA
441057 GGAAAAGAAG
Statistics
Matches: 171, Mismatches: 26, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
183 59 0.35
184 88 0.51
185 24 0.14
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (183 bp):
TCTTTAAGGACTAAAAAGTGCCACCAACTCGTGTGGGCATTAAAAAGAAAAGGCATCATACTCTT
TGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCTTTGA
GGACTAAAAGTGCCACCAACTAGTGTAGGCTTAAAAAGAAAAAGGTGTCTTGT
Found at i:441129 original size:46 final size:45
Alignment explanation
Indices: 441034--441154 Score: 126
Period size: 45 Copynumber: 2.7 Consensus size: 45
441024 AGAAAAAGGC
441034 GTCCTACTCTTTGAGGACTAAAA-G-GAAAAGAAGGAAATGAAGTA
1 GTCCTACTCTTTGAGGAC-AAAAGGAGAAAAGAAGGAAATGAAGTA
*
441078 CGTCCTACTCTTTGAGGACAAAAGGAGAAAAGAA-GAGAGTGGAACGT-
1 -GTCCTACTCTTTGAGGACAAAAGGAGAAAAGAAGGA-AAT-GAA-GTA
* * *
441125 GTCCTGCTCTATAAGGAC-AAAGGAGAAAAG
1 GTCCTACTCTTTGAGGACAAAAGGAGAAAAG
441155 GAAAAGGTGT
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
44 4 0.06
45 33 0.49
46 25 0.37
47 3 0.04
48 2 0.03
ACGTcount: A:0.40, C:0.14, G:0.27, T:0.18
Consensus pattern (45 bp):
GTCCTACTCTTTGAGGACAAAAGGAGAAAAGAAGGAAATGAAGTA
Found at i:441430 original size:61 final size:61
Alignment explanation
Indices: 441149--441431 Score: 361
Period size: 61 Copynumber: 4.6 Consensus size: 61
441139 GGACAAAGGA
* *
441149 GAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTATGGGCTTT
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTATGGGCTTT
* ** * * * *
441211 G-AAAGGAAAAGGCATCTTGCTCTTTGAGGAGTGGAAGGTGCCACCAACTTGTATGGGCTTT
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTATGGGCTTT
* * * * *
441272 GAAAAGAAAAAAGTGTCCTGCTCCTTGAGGACTAAAAGTGCCACCAACTCGTGTGGGTTTT
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTATGGGCTTT
* * * * *
441333 GGAAACAAAAAGGTGTTCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCATGTGGGCTTT
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTATGGGCTTT
*
441394 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGG
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAGG
441432 GAAAAGAAGG
Statistics
Matches: 188, Mismatches: 32, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
61 163 0.87
62 25 0.13
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (61 bp):
GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTATGGGCTTT
Found at i:441471 original size:374 final size:373
Alignment explanation
Indices: 440776--441533 Score: 1112
Period size: 374 Copynumber: 2.0 Consensus size: 373
440766 TGTGGGCTTT
* * *
440776 GAAAAGAAAAAGGTGTCCTACTCTTTGAGGACTAAAAGTGTCACCAACTCGTGTGGGCTTTAAAA
1 GAAAAGGAAAAGGTGTCCTACTCTTTGAGGACTAAAAGTGCCACCAACTCGTATGGGCTTTAAAA
** * * * *
440841 AGAAAAAGGTGTCTTGTTCTTTAAGGACTAAGAGGTGCCACTAACTTGTGTGGGCATTAAAAAGG
66 AGAAAAAGGCATCTTGCTCTTTAAGGACTAAGAGGTGCCACCAACTTGTATGGGCATTAAAAAGA
* * * *
440906 AAAAGGTGTCCTACTCTTTGAGGACTAAAGGTGCCACTAACTCGTGTGGGCTTTGAAAAGAAAAG
131 AAAAAGTGTCCTACTCCTTGAGGACTAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAG
440971 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTAGTGTAGGCTTGAAAAGAAAAAGGCGT
196 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTAGTGTAGGCTTGAAAAGAAAAAGGCGT
*
441036 CCTACTCTTTGAGGACTAAAAGGAAAAGAAGGAAATGAAGTACGTCCTACTCTTTGAGGACAAAA
261 CCTACTCTTTGAGGACTAAAAGGAAAAGAAGGAAATGAAGTACATCCTACTCTTTGAGGACAAAA
*
441101 GGAGAAAAGAAGAGAGTGGAACGTGTCCTGCTCTATAAGGACAAAGGA
326 GGAGAAAAGAAGAGAATGGAACGTGTCCTGCTCTATAAGGACAAAGGA
* *
441149 GAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTATGGGCTTT-GA
1 GAAAAGGAAAAGGTGTCCTACTCTTTGAGGACT-AAAAGTGCCACCAACTCGTATGGGCTTTAAA
* * * * * *
441213 AAGGAAAAGGCATCTTGCTCTTTGAGGAGT-GGAAGGTGCCACCAACTTGTATGGGCTTTGAAAA
65 AAGAAAAAGGCATCTTGCTCTTTAAGGACTAAG-AGGTGCCACCAACTTGTATGGGCATTAAAAA
* *
441277 GAAAAAAGTGTCCTGCTCCTTGAGGACTAAAAGTGCCACCAACTCGTGTGGGTTTTGGAAACA-A
129 GAAAAAAGTGTCCTACTCCTTGAGGACTAAAAGTGCCACCAACTCGTGTGGGCTTT-GAAA-AGA
* * *
441341 AAAGGTGTTCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTCA-TGTGGGCTTTGAAAAGAAAA
192 AAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACT-AGTGTAGGC-TTGAAAAGAAAA
* * * *
441404 AGGCGTCCTGCTCTTTGAGGACTAAAGGGAAAAGAAGGAAATGAAGTGCATCTTACTCTTTGAGG
255 AGGCGTCCTACTCTTTGAGGACTAAAAGGAAAAGAAGGAAATGAAGTACATCCTACTCTTTGAGG
* * *
441469 ACAAAAGGAGAAAAGAAGGGAATGGAACGTGTCCTGCTCTTTGAGGACAAAGGA
320 ACAAAAGGAGAAAAGAAGAGAATGGAACGTGTCCTGCTCTATAAGGACAAAGGA
441523 GAAAAGGAAAA
1 GAAAAGGAAAA
441534 TAAAGTGTGT
Statistics
Matches: 344, Mismatches: 35, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
372 1 0.00
373 151 0.44
374 191 0.56
375 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (373 bp):
GAAAAGGAAAAGGTGTCCTACTCTTTGAGGACTAAAAGTGCCACCAACTCGTATGGGCTTTAAAA
AGAAAAAGGCATCTTGCTCTTTAAGGACTAAGAGGTGCCACCAACTTGTATGGGCATTAAAAAGA
AAAAAGTGTCCTACTCCTTGAGGACTAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAG
GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTAGTGTAGGCTTGAAAAGAAAAAGGCGT
CCTACTCTTTGAGGACTAAAAGGAAAAGAAGGAAATGAAGTACATCCTACTCTTTGAGGACAAAA
GGAGAAAAGAAGAGAATGGAACGTGTCCTGCTCTATAAGGACAAAGGA
Found at i:441555 original size:43 final size:43
Alignment explanation
Indices: 441402--441690 Score: 264
Period size: 43 Copynumber: 6.6 Consensus size: 43
441392 TTGAAAAGAA
*
441402 AAAG-GCGTCCTGCTCTTTGAGGACTAAAGG-GAAAAGAAGGAAAT
1 AAAGTGCGTCCTGCTCTTTGAGGAC-AAAGGAGAAAAG--GAAAAT
* * * *
441446 GAAGTGCATCTTACTCTTTGAGGACAAAAGGAGAAAA-GAAGGGAAT
1 AAAGTGCGTCCTGCTCTTTGAGGAC-AAAGGAGAAAAGGAA---AAT
*
441492 GGAACGT--GTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAT
1 --AAAGTGCGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAT
* * *
441535 AAAGTGTGTCCTGCTTTTTGAGGACAAATGAGAAAAGGAAAAT
1 AAAGTGCGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAT
* * * *
441578 AAAGTGCATTCTGCTCTTTGAGGACAAAGGGGAAAAGAAGGAAAT
1 AAAGTGCGTCCTGCTCTTTGAGGACAAAGGAGAAAAG--GAAAAT
* * * * * *
441623 GAAGTGCGTCTTGCTCTTTGAGGACAAGGGGGAAGAGTAAAAT
1 AAAGTGCGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAT
*
441666 AAAGTGCGTCCTACTCTTTGAGGAC
1 AAAGTGCGTCCTGCTCTTTGAGGAC
441691 TAGGAGGTGC
Statistics
Matches: 201, Mismatches: 32, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
41 4 0.02
43 96 0.48
44 3 0.01
45 69 0.34
46 26 0.13
48 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (43 bp):
AAAGTGCGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAT
Found at i:441645 original size:131 final size:133
Alignment explanation
Indices: 441402--441692 Score: 362
Period size: 131 Copynumber: 2.2 Consensus size: 133
441392 TTGAAAAGAA
* * *
441402 AAAG-GCGTCCTGCTCTTTGAGGACTAAAGGGAAAAGAAGGAAATGAAGTGCATCTTACTCTTTG
1 AAAGTGCGTCCTGCTCTTTGAGGACTAAAGAGAAAAG-AGAAAATAAAGTGCATCTTACTCTTTG
*
441466 AGGACAAAAGGAGAAAAGAAGGGAATGGAACGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGA
65 AGGACAAAAGGAGAAAAGAAGGAAATGGAACGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGA
441531 AAAT
130 AAAT
* * *
441535 AAAGTGTGTCCTGCTTTTTGAGGAC-AAATGAGAAAAG-GAAAATAAAGTGCAT-TCTGCTCTTT
1 AAAGTGCGTCCTGCTCTTTGAGGACTAAA-GAGAAAAGAGAAAATAAAGTGCATCT-TACTCTTT
* * * * *
441597 GAGGAC-AAAGGGGAAAAGAAGGAAAT-GAA-GTGCGTCTTGCTCTTTGAGGACAAGGGGGAAGA
64 GAGGACAAAAGGAGAAAAGAAGGAAATGGAACGT--GTCCTGCTCTTTGAGGACAAAGGAGAAAA
*
441659 GTAAAAT
127 GGAAAAT
*
441666 AAAGTGCGTCCTACTCTTTGAGGACTA
1 AAAGTGCGTCCTGCTCTTTGAGGACTA
441693 GGAGGTGCCA
Statistics
Matches: 136, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
129 2 0.01
130 3 0.02
131 72 0.53
132 27 0.20
133 7 0.05
134 25 0.18
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.22
Consensus pattern (133 bp):
AAAGTGCGTCCTGCTCTTTGAGGACTAAAGAGAAAAGAGAAAATAAAGTGCATCTTACTCTTTGA
GGACAAAAGGAGAAAAGAAGGAAATGGAACGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAA
AAT
Found at i:441670 original size:88 final size:86
Alignment explanation
Indices: 441409--441690 Score: 302
Period size: 88 Copynumber: 3.2 Consensus size: 86
441399 GAAAAAGGCG
* *
441409 TCCTGCTCTTTGAGGACTAAA-GGGAAAAGAAGGAAATGAAGTGCATCTTACTCTTTGAGGACAA
1 TCCTGCTCTTTGAGGAC-AAAGGGGAAAAGAAGGAAATGAAGTGCGTCTTGCTCTTTGAGGAC-A
*
441473 AAGGAGAAAAGAAGGGAATGGAACGTG-
64 AAGGAGAAAAGAA---AAT--AAAGTGC
* * * * * *
441500 TCCTGCTCTTTGAGGACAAAGGAGAAAAG--GAAAATAAAGTGTGTCCTGCTTTTTGAGGACAAA
1 TCCTGCTCTTTGAGGACAAAGGGGAAAAGAAGGAAATGAAGTGCGTCTTGCTCTTTGAGGACAAA
*
441563 TGAGAAAAGGAAAATAAAGTGC
66 GGAGAAAA-GAAAATAAAGTGC
*
441585 ATTCTGCTCTTTGAGGACAAAGGGGAAAAGAAGGAAATGAAGTGCGTCTTGCTCTTTGAGGACAA
1 -TCCTGCTCTTTGAGGACAAAGGGGAAAAGAAGGAAATGAAGTGCGTCTTGCTCTTTGAGGACAA
* * *
441650 GGGGGAAGAGTAAAATAAAGTGC
65 AGGAGAAAAG-AAAATAAAGTGC
*
441673 GTCCTACTCTTTGAGGAC
1 -TCCTGCTCTTTGAGGAC
441691 TAGGAGGTGC
Statistics
Matches: 160, Mismatches: 24, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
84 5 0.03
86 30 0.19
87 1 0.01
88 70 0.44
89 27 0.17
90 3 0.02
91 24 0.15
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.22
Consensus pattern (86 bp):
TCCTGCTCTTTGAGGACAAAGGGGAAAAGAAGGAAATGAAGTGCGTCTTGCTCTTTGAGGACAAA
GGAGAAAAGAAAATAAAGTGC
Found at i:441814 original size:61 final size:61
Alignment explanation
Indices: 441666--441872 Score: 262
Period size: 61 Copynumber: 3.4 Consensus size: 61
441656 AGAGTAAAAT
* *
441666 AAAGTGCGTCCTACTCTTTGAGGACT-AGGAGGTGCCACCAACTTGTGTGGG-TTTGAAAGAG
1 AAAG-GCGTCCTACTCTTTGAGGACTAAAG-GGTGCCACCAACTTGTGTGGGCTTTAAAAGAG
* *
441727 AAA-GTGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAG-G
1 AAAGGCGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGAG
* * * **
441786 AAAAGGCGTCCTGCTCTTTAAGGACTAAA-GGTGCCACCAACTCGCATGGGCTTTGAAAAGAG
1 -AAAGGCGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAG
441848 AAAGGCGTCCTACTCTTTGAGGACT
1 AAAGGCGTCCTACTCTTTGAGGACT
441873 GGAAGGGCTA
Statistics
Matches: 129, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
59 41 0.32
60 34 0.26
61 53 0.41
62 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (61 bp):
AAAGGCGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGAG
Found at i:448032 original size:51 final size:51
Alignment explanation
Indices: 447977--448087 Score: 159
Period size: 51 Copynumber: 2.2 Consensus size: 51
447967 ACGAGGCTGG
* *
447977 AGTATCCCCGATTATTAAAAATCAATATTTTAGAAATAAAGCCGGGGTTGA
1 AGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAGCCGGGGTTGA
* * * * *
448028 AGTATCCCCAATTGTGAGAGATCAATATTTTGGAAATAAAGCCGGGGTTGG
1 AGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAGCCGGGGTTGA
448079 AGTATCCCC
1 AGTATCCCC
448088 TCAAAAATAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (51 bp):
AGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAGCCGGGGTTGA
Found at i:450517 original size:20 final size:21
Alignment explanation
Indices: 450492--450546 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
450482 AAAATGCCTG
* *
450492 AATGTATCGATACATTTTA-C
1 AATGTATCGATACATATGAGC
450512 AATGTATCGATACA-ATGAGC
1 AATGTATCGATACATATGAGC
450532 AATGTATCGATACAT
1 AATGTATCGATACAT
450547 CTAGGTAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (21 bp):
AATGTATCGATACATATGAGC
Found at i:450608 original size:13 final size:13
Alignment explanation
Indices: 450561--450590 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
450551 GTAAACCCAA
450561 AATGTATCGATAC
1 AATGTATCGATAC
*
450574 AATGTATCGATAT
1 AATGTATCGATAC
450587 AATG
1 AATG
450591 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:465174 original size:20 final size:20
Alignment explanation
Indices: 465149--465187 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
465139 GGATTGGTGA
465149 GAGTATGGTCAGTGTTTTGT
1 GAGTATGGTCAGTGTTTTGT
465169 GAGTATGGTCAGTGTTTTG
1 GAGTATGGTCAGTGTTTTG
465188 AAGAGTGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.05, G:0.36, T:0.44
Consensus pattern (20 bp):
GAGTATGGTCAGTGTTTTGT
Found at i:465351 original size:61 final size:61
Alignment explanation
Indices: 465223--465358 Score: 175
Period size: 61 Copynumber: 2.2 Consensus size: 61
465213 GTTAGCGACG
** * * *
465223 TTGGGCTTAAAGATGCAAAGAATGATAAAGGTGCCAATATGCTGATTCACAGCTAGCAATA
1 TTGGGCTTAAAGATAAAAAGAATGATAAAGGTGCCAATATGCTAATTCACAGCCAACAATA
* * * *
465284 TCGGGCTTGAAGATAAAAAGAATGATAAGGGTGCCAATATGCTAATTCA-AGGCCAACGATA
1 TTGGGCTTAAAGATAAAAAGAATGATAAAGGTGCCAATATGCTAATTCACA-GCCAACAATA
465345 TTGGGCTTAAAGAT
1 TTGGGCTTAAAGAT
465359 GACAAAGGTG
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 1 0.02
61 62 0.98
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (61 bp):
TTGGGCTTAAAGATAAAAAGAATGATAAAGGTGCCAATATGCTAATTCACAGCCAACAATA
Found at i:465384 original size:52 final size:51
Alignment explanation
Indices: 465315--465614 Score: 275
Period size: 52 Copynumber: 5.8 Consensus size: 51
465305 ATGATAAGGG
* * * * * *
465315 TGCCAATATGCTAATTCAAGGCCAACGATATTGGGCTTAAAGATGACAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-AAAGA
* * *
465367 TGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAATAT-ACGAAGAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-AAAG-A
* * * *
465419 TGCCAATGTGCTGATTCAAGGCTAGCGACATTAGACTTGAAGATGAGAAGAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAG-A
* * * *
465471 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGA-TTTAGGAATGTTAAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG-ATG-AAAAGA
* * * * * *
465523 TGCCAATATGATGATTCAAGGCCAGCGATATCGAACTTAAAGAT--AAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAGA
* * * *
465572 TCCCAATGCGTTGATTCAAGGCCAACGACATTGGACTTAAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
465615 AGAGAAGGAT
Statistics
Matches: 207, Mismatches: 36, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
49 39 0.19
51 9 0.04
52 151 0.73
53 8 0.04
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (51 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAGA
Found at i:465561 original size:156 final size:153
Alignment explanation
Indices: 465315--465621 Score: 348
Period size: 156 Copynumber: 2.0 Consensus size: 153
465305 ATGATAAGGG
* * * * *
465315 TGCCAATATGCTAATTCAAGGCCAACGATATTGGGCTTAAAGATGACAAAGGTGCCAATGTGCTG
1 TGCCAATATGCTAATTCAAGGCCAACGACATTGGACTTAAAGATGACAAAGATGCCAATATGATG
* * * * * *
465380 ATTCAAGGCCAGCGACATTAGACTTAAATATACGAAGAATGCCAATGTGCTGATTCAAGGCTAGC
66 ATTCAAGGCCAGCGACATGAGACTTAAAGATA--AAG-ATCCCAATGCGCTGATTCAAGGCCAAC
* *
465445 GACATTAGACTTGAAGATGAGAAGAA
128 GACATTAGACTTAAAGAAGAGAAGAA
* * * * **
465471 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGA-TTTAGGAATGTTAAAGATGCCAATATGAT
1 TGCCAATATGCTAATTCAAGGCCAACGACATTGGACTTAAAG-ATGACAAAGATGCCAATATGAT
* * *
465535 GATTCAAGGCCAGCGATATCGA-ACTTAAAGATAAAGGTCCCAATGCGTTGATTCAAGGCCAACG
65 GATTCAAGGCCAGCGACAT-GAGACTTAAAGATAAAGATCCCAATGCGCTGATTCAAGGCCAACG
*
465599 ACATTGGACTTAAAGAAGAGAAG
129 ACATTAGACTTAAAGAAGAGAAG
465622 GATGATAAAG
Statistics
Matches: 126, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
153 42 0.33
154 3 0.02
155 4 0.03
156 76 0.60
157 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (153 bp):
TGCCAATATGCTAATTCAAGGCCAACGACATTGGACTTAAAGATGACAAAGATGCCAATATGATG
ATTCAAGGCCAGCGACATGAGACTTAAAGATAAAGATCCCAATGCGCTGATTCAAGGCCAACGAC
ATTAGACTTAAAGAAGAGAAGAA
Found at i:465709 original size:43 final size:43
Alignment explanation
Indices: 465627--465709 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
465617 AGAAGGATGA
* * * * *
465627 TAAAGGTGCCAATATGCTAATTCAAGGCTAGCGATATTGGACT
1 TAAAGGTACCAATATGCTAATTCAAGGCCAACAACATTGGACT
* *
465670 TAAAGGTACCAATGTGCTGATTCAAGGCCAACAACATTGG
1 TAAAGGTACCAATATGCTAATTCAAGGCCAACAACATTGG
465710 GCTTGGAAGG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (43 bp):
TAAAGGTACCAATATGCTAATTCAAGGCCAACAACATTGGACT
Found at i:465763 original size:32 final size:32
Alignment explanation
Indices: 465723--465905 Score: 219
Period size: 32 Copynumber: 5.7 Consensus size: 32
465713 TGGAAGGAGA
465723 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
*
465755 TGCCACCAACTTGTGTGGGC-TTTGAAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAA-AGGGT
* * *
465787 TGTCACCAGCTTGTGTGGGCTTTGGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
* *
465819 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
* * *
465851 CGCCACCAACTTGTGTAGGC-TTTGATGAA-GTT
1 TGCCACCAACTTGTGTGGGCTTTTGA--AAGGGT
* *
465883 TGCCACTAGCTTGTGTGGGCTTT
1 TGCCACCAACTTGTGTGGGCTTT
465906 AGAGAAGGTT
Statistics
Matches: 128, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
31 10 0.08
32 109 0.85
33 9 0.07
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
Found at i:465894 original size:96 final size:96
Alignment explanation
Indices: 465707--465905 Score: 294
Period size: 96 Copynumber: 2.1 Consensus size: 96
465697 CCAACAACAT
* *
465707 TGGGC-TTGGAAGGAGATGCCACCAACTTGTGTGGGCTTTTGAAAGGGTTGCCACCAACTTGTGT
1 TGGGCTTTGGAAGGAGATGCCACCAACTTGTGTGGGCTTTAGAAAGGGTCGCCACCAACTTGTGT
* *
465771 GGGCTTTGAAGAAGGTTGTCACCAGCTTGTG
66 AGGCTTTGAAGAAGGTTGCCACCAGCTTGTG
* *
465802 TGGGCTTTGGAAAGG-GTTGCCACCGACTTGTGTGGGCTTTAGAAAGGGTCGCCACCAACTTGTG
1 TGGGCTTTGG-AAGGAGATGCCACCAACTTGTGTGGGCTTTAGAAAGGGTCGCCACCAACTTGTG
* * *
465866 TAGGCTTTGATGAAGTTTGCCACTAGCTTGTG
65 TAGGCTTTGAAGAAGGTTGCCACCAGCTTGTG
465898 TGGGCTTT
1 TGGGCTTT
465906 AGAGAAGGTT
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
95 5 0.05
96 84 0.90
97 4 0.04
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (96 bp):
TGGGCTTTGGAAGGAGATGCCACCAACTTGTGTGGGCTTTAGAAAGGGTCGCCACCAACTTGTGT
AGGCTTTGAAGAAGGTTGCCACCAGCTTGTG
Found at i:467067 original size:24 final size:26
Alignment explanation
Indices: 467035--467085 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
467025 TCAAAATTTT
*
467035 ATTCATC-G-GGGATACTCCAACCCC
1 ATTCATCGGAGGGACACTCCAACCCC
*
467059 ATTCTTCGGAAGGGACACTCCAACCCC
1 ATTCATCGG-AGGGACACTCCAACCCC
467086 GCTTTTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 6 0.27
25 1 0.05
27 15 0.68
ACGTcount: A:0.25, C:0.37, G:0.18, T:0.20
Consensus pattern (26 bp):
ATTCATCGGAGGGACACTCCAACCCC
Found at i:473538 original size:11 final size:11
Alignment explanation
Indices: 473517--473548 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
473507 AAGGAAAACA
473517 ATGAG-ATTTG
1 ATGAGAATTTG
473527 ATGAGAATTTG
1 ATGAGAATTTG
473538 ATGA-AATTTG
1 ATGAGAATTTG
473548 A
1 A
473549 AAAGGATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.38
Consensus pattern (11 bp):
ATGAGAATTTG
Found at i:479652 original size:20 final size:20
Alignment explanation
Indices: 479606--479654 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
479596 GTAAAAAAAC
**
479606 AAAATGTATCGATACATTCG
1 AAAATGTATCGATACATTAA
* *
479626 TACATGTATCGATACATTAA
1 AAAATGTATCGATACATTAA
479646 AAAATGTAT
1 AAAATGTAT
479655 ACTTTTCCAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (20 bp):
AAAATGTATCGATACATTAA
Found at i:480243 original size:34 final size:36
Alignment explanation
Indices: 480205--480281 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
480195 ACAGACCAAT
480205 ATAGAACATGTT-T-CCTATC-TTTTCACAA-GCTAAG
1 ATAGAACAT-TTCTCCCTATCTTTTTCA-AAGGCTAAG
*
480239 ATAGAACCTTTCTCCCTATCTTTTTCAAAGGCTAAG
1 ATAGAACATTTCTCCCTATCTTTTTCAAAGGCTAAG
480275 ATAGAAC
1 ATAGAAC
480282 CTCTCAATCA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
33 2 0.05
34 9 0.24
35 8 0.21
36 19 0.50
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (36 bp):
ATAGAACATTTCTCCCTATCTTTTTCAAAGGCTAAG
Found at i:480788 original size:52 final size:52
Alignment explanation
Indices: 480705--480812 Score: 144
Period size: 52 Copynumber: 2.1 Consensus size: 52
480695 ATACATTTGA
* * *
480705 AATTCTAGCCATTGGGCTCAATGTATTGATACAATTCATAATGTATCGATAC
1 AATTATAGCCATTGGGCTCAATGTATCGATACAATTCACAATGTATCGATAC
* * * * *
480757 AATTATAGCCCTTGGGCTTAGTGTATCGATACAATTTACCATGTATCGATAC
1 AATTATAGCCATTGGGCTCAATGTATCGATACAATTCACAATGTATCGATAC
480809 AATT
1 AATT
480813 CACTTAGGGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (52 bp):
AATTATAGCCATTGGGCTCAATGTATCGATACAATTCACAATGTATCGATAC
Found at i:480900 original size:32 final size:33
Alignment explanation
Indices: 480859--480921 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
480849 ACATTTTATG
480859 GTGTATCGATACAAAG-AACATGTATCGATATA
1 GTGTATCGATACAAAGCAACATGTATCGATATA
* *
480891 GTGTATCGATACTAAGCAATATGTATCGATA
1 GTGTATCGATACAAAGCAACATGTATCGATA
480922 CATCTGGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (33 bp):
GTGTATCGATACAAAGCAACATGTATCGATATA
Found at i:483924 original size:448 final size:448
Alignment explanation
Indices: 483089--483987 Score: 1708
Period size: 448 Copynumber: 2.0 Consensus size: 448
483079 AGAGAATTCT
483089 TAACATAAGGATTCATTAGTAGCACCAAAAATAATGTCATCTACATAAACTTGTGCAATCAAAAT
1 TAACATAAGGATTCATTAGTAGCACCAAAAATAATGTCATCTACATAAACTTGTGCAATCAAAAT
*
483154 GTCTTTTCATTTTGATTTAACGAAAAGAGTTTTATCCATATTACCTCTATTAAAACCTTTTTCGA
66 GTCTTTTCATTTTGATTTAACGAAAAGAGTTTTATCCACATTACCTCTATTAAAACCTTTTTCGA
483219 TCAAAAATTTTGAAAGCCTTTCATACCAAGCTCGAGGAGCTTGCTTTAAACCATATAAAGCTTTT
131 TCAAAAATTTTGAAAGCCTTTCATACCAAGCTCGAGGAGCTTGCTTTAAACCATATAAAGCTTTT
*
483284 GAGAGCTTAAAAACATGATTTGGAAATAATAGATTTTCAAAACCTGGAGGTTGTTCGACATAAAC
196 GAGAGCTTAAAAACATGATTTGGAAATAATAGATTTTCAAAACCTAGAGGTTGTTCGACATAAAC
483349 CTCTTCGTTATTAAAACCATTTAAAAACGCACTTTTGACATCCATTTGATATAACTTAAAATCAT
261 CTCTTCGTTATTAAAACCATTTAAAAACGCACTTTTGACATCCATTTGATATAACTTAAAATCAT
* *
483414 AAAAACATACAAAGGCTAGCAAAATTCTAATGGCTTCTAACCTAGCAATGGGTGCATAGGTTTCG
326 AAAAACATACAAAGGCTAGCAAAATTCTAATGGCTTCTAACCTAGCAACGAGTGCATAGGTTTCG
*
483479 TCATAGTCAATTCCTTCTTCTTGACTATAACCCTTTGCAACTAGCCTAGCTTTATTTC
391 TCATAGTCAATTCCTTCTTCTTGACTATAACCCATTGCAACTAGCCTAGCTTTATTTC
483537 TAACATAAGGATTCATTAGTAGCACCAAAAATAATGTCATCTACATAAACTTGTGCAATCAAAAT
1 TAACATAAGGATTCATTAGTAGCACCAAAAATAATGTCATCTACATAAACTTGTGCAATCAAAAT
* *
483602 GTCTTTTCATTTTGATTTAATGAAAAGAGTTTTATCCACATTTCCTCTATTAAAACCTTTTTCGA
66 GTCTTTTCATTTTGATTTAACGAAAAGAGTTTTATCCACATTACCTCTATTAAAACCTTTTTCGA
*
483667 TCAAAAATTTTGAAAGCTTTTCATACCAAGCTCGAGGAGCTTGCTTTAAACCATATAAAGCTTTT
131 TCAAAAATTTTGAAAGCCTTTCATACCAAGCTCGAGGAGCTTGCTTTAAACCATATAAAGCTTTT
*
483732 GAGAGCTTAAAAACATGATTTGGAAATAATAGATTTTCAAAACCTAGAGGTTGTTTGACATAAAC
196 GAGAGCTTAAAAACATGATTTGGAAATAATAGATTTTCAAAACCTAGAGGTTGTTCGACATAAAC
483797 CTCTTCGTTATTAAAACCATTTAAAAACGCACTTTTGACATCCATTTGATATAACTTAAAATCAT
261 CTCTTCGTTATTAAAACCATTTAAAAACGCACTTTTGACATCCATTTGATATAACTTAAAATCAT
*
483862 AAAAACATGCAAAGGCTAGCAAAATTCTAATGGCTTCTAACCTAGCAACGAGTGCATAGGTTTCG
326 AAAAACATACAAAGGCTAGCAAAATTCTAATGGCTTCTAACCTAGCAACGAGTGCATAGGTTTCG
483927 TCATAGTCAATTCCTTCTTCTTGACTATAACCCATTGCAACTAGCCTAGCTTTATTTC
391 TCATAGTCAATTCCTTCTTCTTGACTATAACCCATTGCAACTAGCCTAGCTTTATTTC
483985 TAA
1 TAA
483988 ATATTATTCC
Statistics
Matches: 441, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
448 441 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.34
Consensus pattern (448 bp):
TAACATAAGGATTCATTAGTAGCACCAAAAATAATGTCATCTACATAAACTTGTGCAATCAAAAT
GTCTTTTCATTTTGATTTAACGAAAAGAGTTTTATCCACATTACCTCTATTAAAACCTTTTTCGA
TCAAAAATTTTGAAAGCCTTTCATACCAAGCTCGAGGAGCTTGCTTTAAACCATATAAAGCTTTT
GAGAGCTTAAAAACATGATTTGGAAATAATAGATTTTCAAAACCTAGAGGTTGTTCGACATAAAC
CTCTTCGTTATTAAAACCATTTAAAAACGCACTTTTGACATCCATTTGATATAACTTAAAATCAT
AAAAACATACAAAGGCTAGCAAAATTCTAATGGCTTCTAACCTAGCAACGAGTGCATAGGTTTCG
TCATAGTCAATTCCTTCTTCTTGACTATAACCCATTGCAACTAGCCTAGCTTTATTTC
Found at i:485749 original size:32 final size:33
Alignment explanation
Indices: 485686--485757 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 33
485676 AATTTCAACA
485686 ATTTGTATCGATACATAAAATATTGTATCGATAC
1 ATTT-TATCGATACATAAAATATTGTATCGATAC
* *
485720 ATTTTATCGATACA-GAAATTTTGTATCGATAC
1 ATTTTATCGATACATAAAATATTGTATCGATAC
*
485752 AATTTA
1 ATTTTA
485758 AGCTACTGCC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
32 21 0.60
33 10 0.29
34 4 0.11
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (33 bp):
ATTTTATCGATACATAAAATATTGTATCGATAC
Found at i:485813 original size:13 final size:13
Alignment explanation
Indices: 485795--485819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
485785 ATTACTCAAA
485795 TGTATCGATACAT
1 TGTATCGATACAT
485808 TGTATCGATACA
1 TGTATCGATACA
485820 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:487025 original size:13 final size:13
Alignment explanation
Indices: 487007--487033 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
486997 TACATAAAAT
487007 ATTGTATCGATAC
1 ATTGTATCGATAC
487020 ATTGTATCGATAC
1 ATTGTATCGATAC
487033 A
1 A
487034 GAAATTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:487025 original size:33 final size:32
Alignment explanation
Indices: 486988--487052 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
486978 TTTCAACGAT
486988 TTGTATCGATACATAAAATATTGTATCGATACA
1 TTGTATCGATACA-AAAATATTGTATCGATACA
* * *
487021 TTGTATCGATACAGAAATTTTGTATCTATACA
1 TTGTATCGATACAAAAATATTGTATCGATACA
487053 ATTTAAGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACAAAAATATTGTATCGATACA
Found at i:487186 original size:52 final size:52
Alignment explanation
Indices: 487128--487256 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
487118 TACTGATCTT
*
487128 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGAT-CAATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATAC-ACTATAAAA
*
487180 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
487232 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
487257 TCATATTTCG
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
52 73 0.99
53 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:489409 original size:27 final size:27
Alignment explanation
Indices: 489379--489447 Score: 138
Period size: 27 Copynumber: 2.6 Consensus size: 27
489369 TTTATTCATC
489379 GGGGACACTCCAACCCCATTCCTCCGA
1 GGGGACACTCCAACCCCATTCCTCCGA
489406 GGGGACACTCCAACCCCATTCCTCCGA
1 GGGGACACTCCAACCCCATTCCTCCGA
489433 GGGGACACTCCAACC
1 GGGGACACTCCAACC
489448 TCGTTTTCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.23, C:0.43, G:0.20, T:0.13
Consensus pattern (27 bp):
GGGGACACTCCAACCCCATTCCTCCGA
Found at i:502656 original size:29 final size:29
Alignment explanation
Indices: 502609--502931 Score: 199
Period size: 28 Copynumber: 10.8 Consensus size: 29
502599 TTCCTCACCC
502609 TTCAGAAGCCCACAAGTCAGTGGCATCTTT
1 TTCA-AAGCCCACAAGTCAGTGGCATCTTT
502639 TTCAAAGCCCACAAGTCAGTGGCATC-TT
1 TTCAAAGCCCACAAGTCAGTGGCATCTTT
* * *
502667 TTCAAAGTCCACAAGTCAGTGGCAAC--C
1 TTCAAAGCCCACAAGTCAGTGGCATCTTT
* * *
502694 TTCAAAGCTCACAAATCAGTGGCACCCTTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCTTT
* * *
502724 TCCGAAGCCCACAAGTCGGTGGCATCTTT
1 TTCAAAGCCCACAAGTCAGTGGCATCTTT
* * * *
502753 TCCAAAGTCCACAACTCCGTGGCACTCTTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCTTT
* * * * *
502783 TTCTTTTGTAAGCTCACAACTCCGTAGCACTCTTT
1 TTC-----AAAGCCCACAAGTCAGTGGCA-TCTTT
* * * *
502818 TTCCTTTTAAGCCCACAAGTTAGTGGCACCCTT
1 TT-C---AAAGCCCACAAGTCAGTGGCATCTTT
* * *
502851 TTCAAAAGCCCACAAGTCAATGGCAAC-CT
1 TTC-AAAGCCCACAAGTCAGTGGCATCTTT
* * *
502880 TTAAAAGCCCACAAGTTAGTAGCAATC--T
1 TTCAAAGCCCACAAGTCAGTGGC-ATCTTT
* *
502908 TTAAAAGCCCACAAGTTAGTGGCA
1 TTCAAAGCCCACAAGTCAGTGGCA
502932 ACCTTCAAAA
Statistics
Matches: 239, Mismatches: 43, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.09
28 67 0.28
29 51 0.21
30 49 0.21
32 1 0.00
33 5 0.02
34 18 0.08
35 25 0.10
36 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCAGTGGCATCTTT
Found at i:502687 original size:57 final size:58
Alignment explanation
Indices: 502609--502931 Score: 206
Period size: 57 Copynumber: 5.4 Consensus size: 58
502599 TTCCTCACCC
*
502609 TTCAGAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCA-TCTT
1 TTCA-AAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAATCAGTGGCACTCTT
* * * * *
502667 TTCAAAGTCCACAAGTCAGTGGCAAC--CTTCAAAGCTCACAAATCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAATCAGTGGCACTCTT
* * * * * *
502723 TTCCGAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTT
1 TT-CAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAATCAGTGGCACTC-TT
* * * * * * * * *
502783 TTCTTTTGTAAGCTCACAACTCCGTAGCACTCTTTTTCCTTTTAAGCCCACAAGTTAGTGGCACC
1 TTC-----AAAGCCCACAAGTCAGTGGCA-TCTTTTT-C---AAAGCCCACAAATCAGTGGCACT
502848 CTT
56 CTT
* * * * * * * *
502851 TTCAAAAGCCCACAAGTCAATGGCAAC-CTTTAAAAGCCCACAAGTTAGTAGCAATC-T
1 TTC-AAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAATCAGTGGCACTCTT
* *
502908 TTAAAAGCCCACAAGTTAGTGGCA
1 TTCAAAGCCCACAAGTCAGTGGCA
502932 ACCTTCAAAA
Statistics
Matches: 204, Mismatches: 46, Indels: 32
0.72 0.16 0.11
Matches are distributed among these distances:
55 22 0.11
56 24 0.12
57 43 0.21
58 24 0.12
59 22 0.11
60 4 0.02
62 3 0.01
63 1 0.00
64 31 0.15
65 6 0.03
66 1 0.00
68 5 0.02
69 18 0.09
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (58 bp):
TTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAATCAGTGGCACTCTT
Found at i:502706 original size:27 final size:27
Alignment explanation
Indices: 502607--502776 Score: 142
Period size: 29 Copynumber: 6.0 Consensus size: 27
502597 CATTCCTCAC
502607 CCTTCAGAAGCCCACAAGTCAGTGGCAT
1 CCTTCA-AAGCCCACAAGTCAGTGGCAT
*
502635 CTTTTTCAAAGCCCACAAGTCAGTGGCAT
1 C--CTTCAAAGCCCACAAGTCAGTGGCAT
* * *
502664 CTTTTCAAAGTCCACAAGTCAGTGGCAA
1 C-CTTCAAAGCCCACAAGTCAGTGGCAT
* * *
502692 CCTTCAAAGCTCACAAATCAGTGGCAC
1 CCTTCAAAGCCCACAAGTCAGTGGCAT
* *
502719 CCTTTTCCGAAGCCCACAAGTCGGTGGCAT
1 CC--TT-CAAAGCCCACAAGTCAGTGGCAT
* * * *
502749 CTTTTCCAAAGTCCACAACTCCGTGGCA
1 C-CTT-CAAAGCCCACAAGTCAGTGGCA
502777 CTCTTTTTCT
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
27 23 0.19
28 27 0.23
29 45 0.38
30 23 0.19
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (27 bp):
CCTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:502835 original size:34 final size:35
Alignment explanation
Indices: 502761--502835 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
502751 TTTCCAAAGT
* *
502761 CCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCCGTAGCACTCTTTTTCCTTTGTAAGC
*
502796 TCACAACTCCGTAGCACTCTTTTTCCTTT-TAAGC
1 CCACAACTCCGTAGCACTCTTTTTCCTTTGTAAGC
502830 CCACAA
1 CCACAA
502836 GTTAGTGGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 10 0.28
35 26 0.72
ACGTcount: A:0.21, C:0.33, G:0.11, T:0.35
Consensus pattern (35 bp):
CCACAACTCCGTAGCACTCTTTTTCCTTTGTAAGC
Found at i:502852 original size:34 final size:35
Alignment explanation
Indices: 502761--502852 Score: 105
Period size: 35 Copynumber: 2.7 Consensus size: 35
502751 TTTCCAAAGT
* *
502761 CCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCAGTGGCACTCTTTTTCCTTTGTAAGC
* * *
502796 TCACAACTCCGTAGCACTCTTTTTCCTTT-TAAGC
1 CCACAACTCAGTGGCACTCTTTTTCCTTTGTAAGC
* * *
502830 CCACAAGTTAGTGGCACCCTTTT
1 CCACAACTCAGTGGCACTCTTTT
502853 CAAAAGCCCA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
34 22 0.46
35 26 0.54
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.36
Consensus pattern (35 bp):
CCACAACTCAGTGGCACTCTTTTTCCTTTGTAAGC
Found at i:502894 original size:28 final size:28
Alignment explanation
Indices: 502826--502977 Score: 182
Period size: 28 Copynumber: 5.3 Consensus size: 28
502816 TTTTCCTTTT
*
502826 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTTAGTGGCAACC-TTT-AA
* *
502856 AAGCCCACAAGTCAATGGCAACCTTTAA
1 AAGCCCACAAGTTAGTGGCAACCTTTAA
* *
502884 AAGCCCACAAGTTAGTAGCAATCTTTAA
1 AAGCCCACAAGTTAGTGGCAACCTTTAA
*
502912 AAGCCCACAAGTTAGTGGCAACCTTCAA
1 AAGCCCACAAGTTAGTGGCAACCTTTAA
*
502940 AAGCACACAAGTT-GAT-GCAAACCTTTCAA
1 AAGCCCACAAGTTAG-TGGC-AACCTTT-AA
502969 AAGCCCACA
1 AAGCCCACA
502978 CAAGTTGGTG
Statistics
Matches: 106, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
27 3 0.03
28 70 0.66
29 13 0.12
30 20 0.19
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.20
Consensus pattern (28 bp):
AAGCCCACAAGTTAGTGGCAACCTTTAA
Found at i:503065 original size:48 final size:49
Alignment explanation
Indices: 502997--503336 Score: 420
Period size: 48 Copynumber: 7.0 Consensus size: 49
502987 GGCGTCTTCT
* * *
502997 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-GTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
503045 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
503093 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTCGCACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT--CATC
* *
503145 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCCCCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * * *
503194 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGTACC-TCACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
503242 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
503290 TTTAAGACCAATGTCG-TCGGCCTTGAATCAGCACATTGTCACCTTCA
1 TTTAAGTCCAATATCGCT-GGCCTTGAATCAGCATATTGGCACCTTCA
503337 AGTCTAACTG
Statistics
Matches: 253, Mismatches: 31, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
47 4 0.02
48 159 0.63
49 42 0.17
50 2 0.01
51 2 0.01
52 44 0.17
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (49 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
Found at i:503266 original size:149 final size:148
Alignment explanation
Indices: 502997--503286 Score: 481
Period size: 149 Copynumber: 2.0 Consensus size: 148
502987 GGCGTCTTCT
*
502997 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGTCCAATGTAGC
1 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGTCCAATGTAGC
* * *
503062 TGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
66 TGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCAT
*
503127 ATTGGCGCCTTTCGCACC
131 ATTGGCACCTTTCGCACC
* * * *
503145 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCCCCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGTCCAATGTAG
*
503210 CTGGCCTTGAATCAGCACATTGGTACCTCACCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCA
65 CTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCA
503275 TATTGGCACCTT
130 TATTGGCACCTT
503287 GTCTTTAAGA
Statistics
Matches: 131, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
148 41 0.31
149 90 0.69
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (148 bp):
TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGTCCAATGTAGC
TGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCAT
ATTGGCACCTTTCGCACC
Found at i:504084 original size:13 final size:13
Alignment explanation
Indices: 504066--504092 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
504056 TACATAAAAT
504066 ATTGTATCGATAC
1 ATTGTATCGATAC
504079 ATTGTATCGATAC
1 ATTGTATCGATAC
504092 A
1 A
504093 GAAATTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:504084 original size:33 final size:32
Alignment explanation
Indices: 504047--504111 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
504037 TTTCAACGAT
504047 TTGTATCGATACATAAAATATTGTATCGATACA
1 TTGTATCGATACA-AAAATATTGTATCGATACA
* * *
504080 TTGTATCGATACAGAAATTTTGTATCTATACA
1 TTGTATCGATACAAAAATATTGTATCGATACA
504112 ATTTAAGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACAAAAATATTGTATCGATACA
Found at i:504245 original size:52 final size:52
Alignment explanation
Indices: 504187--504315 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
504177 TACTGATCTT
*
504187 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGAT-CAATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATAC-ACTATAAAA
*
504239 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
504291 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
504316 TCATATTTCG
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
52 73 0.99
53 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:508801 original size:3 final size:3
Alignment explanation
Indices: 508793--508847 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
508783 TCCGAGTCAC
*
508793 CAT CAT CAT CAT CAT CAT CAT CAT TAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
508841 CAT CAT C
1 CAT CAT C
508848 TTCCTCTTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:510547 original size:22 final size:20
Alignment explanation
Indices: 510491--510534 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
510481 CTGCCAGTTT
*
510491 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATGGTC
*
510511 CATGTATTGATACAATGGT-
1 CATGTATCGATACAATGGTC
510530 CATGT
1 CATGT
510535 TGTATCGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (20 bp):
CATGTATCGATACAATGGTC
Found at i:513416 original size:3 final size:3
Alignment explanation
Indices: 513410--513447 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
513400 TAATTACATA
513410 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
513448 AAAACAACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:514909 original size:24 final size:24
Alignment explanation
Indices: 514879--514924 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
514869 AATAAAAATT
*
514879 AGCCACCAATTTTAATAAACAACA
1 AGCCACCAATTTTAACAAACAACA
* *
514903 AGCCACCATTTTTTACAAACAA
1 AGCCACCAATTTTAACAAACAA
514925 AAATAACCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.26, G:0.04, T:0.24
Consensus pattern (24 bp):
AGCCACCAATTTTAACAAACAACA
Found at i:514952 original size:28 final size:28
Alignment explanation
Indices: 514905--514981 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
514895 AAACAACAAG
* *
514905 CCACCATTTTTTAC-AA-ACAAA-AATAA
1 CCACCATATTTGACAAATACAAAGAA-AA
* *
514931 CCATCATATTTGACAAATACAAAGGAAA
1 CCACCATATTTGACAAATACAAAGAAAA
*
514959 CTACCATATTTGACAAATACAAA
1 CCACCATATTTGACAAATACAAA
514982 TGTGGTATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
26 11 0.26
27 2 0.05
28 28 0.67
29 1 0.02
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.25
Consensus pattern (28 bp):
CCACCATATTTGACAAATACAAAGAAAA
Found at i:516915 original size:21 final size:22
Alignment explanation
Indices: 516886--516931 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
516876 AACTATTGAA
* *
516886 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGTGGAGTACT
*
516907 ACTCTACCTGCTGTGGAGTACT
1 ACTCCACCTGCTGTGGAGTACT
516929 ACT
1 ACT
516932 TGTCTAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.35
Consensus pattern (22 bp):
ACTCCACCTGCTGTGGAGTACT
Found at i:519483 original size:24 final size:24
Alignment explanation
Indices: 519455--519500 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
519445 AATAAAAATT
519455 AGCCACCAATTTTGACAAACAACA
1 AGCCACCAATTTTGACAAACAACA
* *
519479 AGCCACCATTTTTTACAAACAA
1 AGCCACCAATTTTGACAAACAA
519501 AAATAACCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.28, G:0.07, T:0.22
Consensus pattern (24 bp):
AGCCACCAATTTTGACAAACAACA
Found at i:521936 original size:21 final size:21
Alignment explanation
Indices: 521912--521955 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
521902 ATCTCCGAAC
521912 CATTCCCTCTTCAATCCTCTT
1 CATTCCCTCTTCAATCCTCTT
521933 CATTCCCTCTTCAATCCTCTT
1 CATTCCCTCTTCAATCCTCTT
521954 CA
1 CA
521956 GTGATGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.43, G:0.00, T:0.41
Consensus pattern (21 bp):
CATTCCCTCTTCAATCCTCTT
Found at i:521943 original size:11 final size:10
Alignment explanation
Indices: 521917--521955 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
521907 CGAACCATTC
521917 CCTCTTCAAT
1 CCTCTTCAAT
*
521927 CCTCTTCATT
1 CCTCTTCAAT
521937 CCCTCTTCAAT
1 -CCTCTTCAAT
521948 CCTCTTCA
1 CCTCTTCA
521956 GTGATGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.15, C:0.44, G:0.00, T:0.41
Consensus pattern (10 bp):
CCTCTTCAAT
Found at i:525901 original size:22 final size:20
Alignment explanation
Indices: 525861--525906 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
525851 GAATTTATCA
525861 AAATTTAAATTAGAAAATTC
1 AAATTTAAATTAGAAAATTC
*
525881 AAATTATAAACTTAGAGAATTC
1 AAATT-TAAA-TTAGAAAATTC
525903 AAAT
1 AAAT
525907 CTTTTTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.22
21 4 0.17
22 14 0.61
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.33
Consensus pattern (20 bp):
AAATTTAAATTAGAAAATTC
Found at i:526253 original size:3 final size:3
Alignment explanation
Indices: 526245--526284 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
526235 ATCTCAAGAA
526245 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
526285 GTCCATGCGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:528638 original size:18 final size:16
Alignment explanation
Indices: 528615--528650 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
528605 TTCTAGCAGC
528615 TTTTCTATTTTTCTTTTT
1 TTTTCT-TTTTT-TTTTT
528633 TTTTCTTTTTTTTTTT
1 TTTTCTTTTTTTTTTT
528649 TT
1 TT
528651 CAGAATTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 5 0.28
18 6 0.33
ACGTcount: A:0.03, C:0.08, G:0.00, T:0.89
Consensus pattern (16 bp):
TTTTCTTTTTTTTTTT
Done.