Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 247 of 444
Found at i:70180324 original size:116 final size:116
Alignment explanation
Indices: 70180094--70180312 Score: 348
Period size: 116 Copynumber: 1.9 Consensus size: 116
70180084 TAGAATTATC
* * * *
70180094 GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCT
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTCTAGGGTAGAATTACCGAAATACCCCT
* * *
70180159 GTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAATACAGAAATACA
66 GTAGGGTAGAATTACCAAAATACCCCTATAAGGTAGAAATACAGAAATACA
* *
70180210 GAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTCTAGGGTAGAATTACCGAAATACCCCT
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTCTAGGGTAGAATTACCGAAATACCCCT
*
70180275 GTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
66 GTAGGGTAGAATTACCAAAATACCCCTATAAGGTAGAA
70180313 TTACTAAAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
116 93 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (116 bp):
GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTCTAGGGTAGAATTACCGAAATACCCCT
GTAGGGTAGAATTACCAAAATACCCCTATAAGGTAGAAATACAGAAATACA
Found at i:70180848 original size:22 final size:22
Alignment explanation
Indices: 70180797--70180860 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
70180787 TAAAGCCTTT
* *
70180797 TGATTATGGCTTTGTGTCAACC
1 TGATTATGGCTCTGTGCCAACC
*
70180819 T-ACATATGGCTCTGTGCCAACC
1 TGA-TTATGGCTCTGTGCCAACC
*
70180841 TGATTATGGCTGTGTGCCAA
1 TGATTATGGCTCTGTGCCAA
70180861 AAGTATTTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.34
Consensus pattern (22 bp):
TGATTATGGCTCTGTGCCAACC
Found at i:70181048 original size:27 final size:26
Alignment explanation
Indices: 70181018--70181119 Score: 78
Period size: 27 Copynumber: 3.8 Consensus size: 26
70181008 ATTCTGTTAA
* *
70181018 GTGGCTTTGCTACATTATATGTTTCTG
1 GTGGCTATGCCACA-TATATGTTTCTG
* *
70181045 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTATGCCACATATATGT-TTCTG
* * *
70181072 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCAC-ATATATGTTTCTG
* * *
70181099 GTGACTCTGTCACAATATATG
1 GTGGCTATGCCAC-ATATATG
70181120 ATAACTGAGC
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
26 5 0.08
27 51 0.84
28 5 0.08
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (26 bp):
GTGGCTATGCCACATATATGTTTCTG
Found at i:70181088 original size:26 final size:26
Alignment explanation
Indices: 70181040--70181116 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 26
70181030 CATTATATGT
*
70181040 TTCTGGTGGCTATGCCACAAATATCTG
1 TTCTGGTGGCTCTGCCAC-AATATCTG
70181067 TTCTGGTGGCTCTGCCACAATATCTG
1 TTCTGGTGGCTCTGCCACAATATCTG
* *
70181093 TATCTGGTGACTCTGTCACAATAT
1 T-TCTGGTGGCTCTGCCACAATAT
70181117 ATGATAACTG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 9 0.20
27 37 0.80
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATCTG
Found at i:70181285 original size:6 final size:6
Alignment explanation
Indices: 70181276--70181437 Score: 165
Period size: 6 Copynumber: 26.8 Consensus size: 6
70181266 CTGTCACGTA
* *
70181276 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * *
70181324 ATTCTG -TTACTA ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
*
70181373 ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG
1 ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
70181421 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
70181438 CATTTTGGTT
Statistics
Matches: 131, Mismatches: 12, Indels: 26
0.78 0.07 0.15
Matches are distributed among these distances:
5 10 0.08
6 111 0.85
7 8 0.06
8 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:70181399 original size:85 final size:85
Alignment explanation
Indices: 70181251--70181437 Score: 338
Period size: 85 Copynumber: 2.2 Consensus size: 85
70181241 TTGCATTCAC
* *
70181251 ATTCTGGTTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
70181316 TGATTCTGATTCTGTTACTA
66 TGATTCTGATTCTGTTACTA
*
70181336 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
*
70181401 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTA
70181421 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
70181438 CATTTTGGTT
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 98 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTA
Found at i:70181458 original size:30 final size:30
Alignment explanation
Indices: 70181251--70181437 Score: 262
Period size: 30 Copynumber: 6.4 Consensus size: 30
70181241 TTGCATTCAC
* *
70181251 ATTCTGGTTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
*
70181282 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
70181312 ATTCTGATTCTGATTCTGTTACTAATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
70181342 ATTCTGATTCTG--TC----ACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
70181367 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
70181397 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
70181427 ATTCTGATTCT
1 ATTCTGATTCT
70181438 CATTTTGGTT
Statistics
Matches: 142, Mismatches: 5, Indels: 19
0.86 0.03 0.11
Matches are distributed among these distances:
24 1 0.01
25 21 0.15
27 2 0.01
28 2 0.01
29 1 0.01
30 93 0.65
31 22 0.15
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:70182543 original size:45 final size:45
Alignment explanation
Indices: 70182479--70182578 Score: 173
Period size: 45 Copynumber: 2.2 Consensus size: 45
70182469 AAAGATTATT
* *
70182479 AACATGTCCCATAAGTGTAGCATAAATCTAAGCACTCTCTACACC
1 AACATGTCCAATAAGTGTAGCATAAATCTAAGCACTCTCCACACC
70182524 AACATGTCCAATAAGTGTAGCATAAATCTAAGCACTCTCCACACC
1 AACATGTCCAATAAGTGTAGCATAAATCTAAGCACTCTCCACACC
*
70182569 AACATATCCA
1 AACATGTCCA
70182579 TTGAATGGAG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (45 bp):
AACATGTCCAATAAGTGTAGCATAAATCTAAGCACTCTCCACACC
Found at i:70183585 original size:16 final size:16
Alignment explanation
Indices: 70183566--70183596 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
70183556 ACAAATTTCA
70183566 ATGGGTCAAAATATCC
1 ATGGGTCAAAATATCC
70183582 ATGGGTCAAAATATC
1 ATGGGTCAAAATATC
70183597 GAAGTAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (16 bp):
ATGGGTCAAAATATCC
Found at i:70216688 original size:27 final size:27
Alignment explanation
Indices: 70216658--70216718 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
70216648 CCCAAAATAT
*
70216658 GTAAAATGATCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
70216685 GTAAAATGACCGTAATACCCCTGTATG
1 GTAAAATGACCGTAATACCCCTGTAGG
70216712 GTAAAAT
1 GTAAAAT
70216719 AACGATTATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTGTAGG
Found at i:70229183 original size:29 final size:29
Alignment explanation
Indices: 70229050--70229182 Score: 203
Period size: 29 Copynumber: 4.6 Consensus size: 29
70229040 GTGACAAGAT
70229050 TGGCACTAAGTGTGCGAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
*
70229079 TGGCACTAAGTGTGCGAACTTAAATTTTA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
*
70229108 TGGCACTAAGTGTGCAAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
* * ***
70229137 TGGCACTATGTGTGCGAGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
70229166 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
70229183 GATCGTTTAT
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAACTTAAATTATA
Found at i:70230055 original size:48 final size:48
Alignment explanation
Indices: 70230003--70230678 Score: 1090
Period size: 48 Copynumber: 14.0 Consensus size: 48
70229993 CAAGATAAAT
* *
70230003 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
70230051 ATATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 --ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
70230101 ACATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATTATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA-TATGTATGAG
*
70230150 ACATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
70230198 ACATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATTATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA-TATGTATGAG
*
70230247 ATATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 --ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
70230297 ATATCTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
70230345 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
70230393 ATA--TATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
70230439 ATA--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
70230485 ATATGTATATGTGGTAAAGCCGAATGGCTAATATTAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
70230533 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
70230581 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * * *
70230629 AGATGTATATTTGGTAAAGCCGAATGGCTAATGAGCAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
70230677 AT
1 AT
70230679 GTGTGTATAT
Statistics
Matches: 595, Mismatches: 25, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
46 91 0.15
48 355 0.60
49 57 0.10
50 56 0.09
51 36 0.06
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:70230496 original size:188 final size:190
Alignment explanation
Indices: 70230005--70230678 Score: 1100
Period size: 188 Copynumber: 3.5 Consensus size: 190
70229995 AGATAAATAT
*
70230005 ATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATGTATATGTGGTAA
1 ATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA-ATA--TATATGTGGTAA
*
70230070 AGCCGAATGGCTAATGTGAAATATGTATGAGACATGTATATGTGGTAAAGCCGAATGGCTAATAT
63 AGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATAT
* *
70230135 GAAATTATGTATGAGACATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
128 GAAA-TATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGA
*
70230199 CATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATTATGTATGAGATATATATATATGTGGT
1 -ATATATATGTGGTAAAGCCGAATGGCTAATGTGAAA-TATGTATGAG--A-ATATATATGTGGT
*
70230264 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATCTATATGTGGTAAAGCCGAATGGCTAAT
61 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
*
70230329 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG-
126 ATGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGA
*
70230393 ATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG-ATATATATGTGGTAAAGC
1 ATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAATATATATGTGGTAAAGC
*
70230457 CGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATTAA
66 CGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAA
70230522 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGA
131 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGA
* * *
70230582 TATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAGAGATGTATATTTGGTAAA
1 -ATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA-ATATATATGTGGTAAA
* * *
70230647 GCCGAATGGCTAATGAGCAATATGTAGGAGAT
64 GCCGAATGGCTAATGTGAAATATGTATGAGAT
70230679 GTGTGTATAT
Statistics
Matches: 453, Mismatches: 19, Indels: 17
0.93 0.04 0.03
Matches are distributed among these distances:
188 139 0.31
190 44 0.10
192 53 0.12
193 34 0.08
195 90 0.20
196 88 0.19
198 5 0.01
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (190 bp):
ATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAATATATATGTGGTAAAGC
CGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAA
ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGA
Found at i:70232200 original size:80 final size:80
Alignment explanation
Indices: 70232067--70232261 Score: 338
Period size: 80 Copynumber: 2.5 Consensus size: 80
70232057 ATTGAGAGTT
*
70232067 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGA
1 ATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGA
70232132 GCATTCGTGCTAGTG
66 GCATTCGTGCTAGTG
70232147 ATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGA
1 ATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGA
*
70232212 GCATTCGTGCTGGTG
66 GCATTCGTGCTAGTG
** *
70232227 ATATATCCGGGCTAAACCTCGAAG-GCATTTGTGCT
1 ATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
70232262 GGAATTACAA
Statistics
Matches: 110, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
79 10 0.09
80 100 0.91
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGA
GCATTCGTGCTAGTG
Found at i:70232250 original size:40 final size:40
Alignment explanation
Indices: 70232067--70232241 Score: 332
Period size: 40 Copynumber: 4.4 Consensus size: 40
70232057 ATTGAGAGTT
70232067 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
70232107 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
70232147 ATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
70232187 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
70232227 ATATATCCGGGCTAA
1 ATATATCCGGGCTAA
70232242 ACCTCGAAGG
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 132 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:70234664 original size:2 final size:2
Alignment explanation
Indices: 70234659--70234687 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
70234649 CATATATAGG
70234659 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
70234688 GCCTTATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:70235902 original size:48 final size:48
Alignment explanation
Indices: 70235850--70236331 Score: 738
Period size: 48 Copynumber: 10.0 Consensus size: 48
70235840 CAATATAAAT
*
70235850 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
70235898 ATATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATA--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
70235948 ATATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATA--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
70235998 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
70236046 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATTAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
70236094 --ATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
70236140 ATATGTATATGTGGTAAAGCCGAATGGCTAATATTAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
70236188 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
70236236 --ATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * * * *
70236282 AGATGTATATTTGGTAAAGCCGAATGGCTAATGAGCAATATGTAGGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
70236330 AT
1 AT
70236332 GTGTGTATAC
Statistics
Matches: 405, Mismatches: 23, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
46 85 0.21
48 224 0.55
50 96 0.24
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:70236147 original size:94 final size:95
Alignment explanation
Indices: 70235850--70236331 Score: 745
Period size: 94 Copynumber: 5.0 Consensus size: 95
70235840 CAATATAAAT
* *
70235850 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATGTATATGTGGT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG--ATA-GTATATGTGGT
70235915 AAAGCCGAATGGCTAATGTGAAATATGTATGAG
63 AAAGCCGAATGGCTAATGTGAAATATGTATGAG
70235948 ATATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 --ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATA-GTATATGTGGT
70236013 AAAGCCGAATGGCTAATGTGAAATATGTATGAG
63 AAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
70236046 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATTAGATA-TATATGTGGTAAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAGTATATGTGGTAAA
*
70236110 GCCAAATGGCTAATGTGAAATATGTATGAG
66 GCCGAATGGCTAATGTGAAATATGTATGAG
* *
70236140 ATATGTATATGTGGTAAAGCCGAATGGCTAATATTAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATA-GTATATGTGGTAA
*
70236205 AGCCGAATGGCTAATATGAAATATGTATGAG
65 AGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
70236236 ATA--TATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAGAGATGTATATTTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATA-GTATATGTGGTAA
* * *
70236299 AGCCGAATGGCTAATGAGCAATATGTAGGAG
65 AGCCGAATGGCTAATGTGAAATATGTATGAG
70236330 AT
1 AT
70236332 GTGTGTATAC
Statistics
Matches: 362, Mismatches: 18, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
94 175 0.48
96 93 0.26
98 48 0.13
100 46 0.13
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (95 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAGTATATGTGGTAAA
GCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:70236149 original size:142 final size:142
Alignment explanation
Indices: 70235850--70236331 Score: 793
Period size: 142 Copynumber: 3.4 Consensus size: 142
70235840 CAATATAAAT
* *
70235850 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATGTATATGTGGT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG--ATATGTATATGTGGT
*
70235915 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATGTATATGTGGTAAAGCCGAATGGCTA
64 AAAGCCGAATGGCTAATATGAAATATGTATGAG--ATA--TATATGTGGTAAAGCCGAATGGCTA
70235980 ATGTGAAATATGTATGAG
125 ATGTGAAATATGTATGAG
70235998 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
* *
70236063 AGCCGAATGGCTAATATGAAATATGTATTAGATATATATGTGGTAAAGCCAAATGGCTAATGTGA
66 AGCCGAATGGCTAATATGAAATATGTATGAGATATATATGTGGTAAAGCCGAATGGCTAATGTGA
70236128 AATATGTATGAG
131 AATATGTATGAG
* *
70236140 ATATGTATATGTGGTAAAGCCGAATGGCTAATATTAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
*
70236205 AGCCGAATGGCTAATATGAAATATGTATGAGATATATATGTGGTAAATCCGAATGGCTAATGTGA
66 AGCCGAATGGCTAATATGAAATATGTATGAGATATATATGTGGTAAAGCCGAATGGCTAATGTGA
70236270 AATATGTATGAG
131 AATATGTATGAG
* * * * *
70236282 AGATGTATATTTGGTAAAGCCGAATGGCTAATGAGCAATATGTAGGAGAT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
70236332 GTGTGTATAC
Statistics
Matches: 317, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
142 222 0.70
144 3 0.01
146 46 0.15
148 46 0.15
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (142 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAATATGAAATATGTATGAGATATATATGTGGTAAAGCCGAATGGCTAATGTGA
AATATGTATGAG
Found at i:70242025 original size:29 final size:29
Alignment explanation
Indices: 70241986--70242064 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
70241976 CTTAATAATC
*
70241986 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
70242016 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
70242045 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
70242065 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:70249299 original size:29 final size:29
Alignment explanation
Indices: 70249260--70249338 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
70249250 CTTAATAATC
*
70249260 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
70249290 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
70249319 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
70249339 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:70250534 original size:26 final size:27
Alignment explanation
Indices: 70250504--70250556 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
70250494 CACACAAGTG
*
70250504 AGTCATTT-ACGCACGAGGGGCAAAAT
1 AGTCATTTAACACACGAGGGGCAAAAT
* *
70250530 AGTCATTTAACACCCTAGGGGCAAAAT
1 AGTCATTTAACACACGAGGGGCAAAAT
70250557 GGAAATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (27 bp):
AGTCATTTAACACACGAGGGGCAAAAT
Found at i:70250753 original size:27 final size:27
Alignment explanation
Indices: 70250560--70250756 Score: 232
Period size: 27 Copynumber: 7.3 Consensus size: 27
70250550 GCAAAATGGA
* * * * *
70250560 AATTTTACCCCACAAGGGTATCTCGTT
1 AATTCTACCCTACAGGGGTATTTCGGT
*
70250587 AATTCTACCCTACAAGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* * *
70250614 ATTTTTACCCTACAAGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* **
70250641 AATTCTATCCTACAGGGGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* **
70250668 AATTCTACCCTCCAGGGGTATTTCAAT
1 AATTCTACCCTACAGGGGTATTTCGGT
70250695 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* * *
70250722 AATTCTACCTTATAGGGGTATTTTGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
70250749 AATTCTAC
1 AATTCTAC
70250757 AACTTATCCA
Statistics
Matches: 148, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCGGT
Found at i:70253088 original size:24 final size:24
Alignment explanation
Indices: 70253011--70253147 Score: 73
Period size: 24 Copynumber: 5.6 Consensus size: 24
70253001 AAGAAATTTC
* ***
70253011 AGCACTATGTGTGCGAGGTTATGC
1 AGCACTATGTGTGCGAGATTACAT
* * * *
70253035 GGCACTATGTGTGCAAAAACTACAT
1 AGCACTATGTGTGC-GAGATTACAT
*
70253060 GGCACTATGTGTGCGAGATTACAT
1 AGCACTATGTGTGCGAGATTACAT
* * * *
70253084 AGCACTATATGTGTGAGGA-AACGT
1 AGCACTATGTGTGCGA-GATTACAT
* *
70253108 -GCCACTATGTGTGCGAATGAGTA-AG
1 AG-CACTATGTGTGCG-A-GATTACAT
70253133 AGCACTATGTGTGCG
1 AGCACTATGTGTGCG
70253148 GACCTTTAAA
Statistics
Matches: 85, Mismatches: 22, Indels: 11
0.72 0.19 0.09
Matches are distributed among these distances:
23 1 0.01
24 47 0.55
25 35 0.41
26 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (24 bp):
AGCACTATGTGTGCGAGATTACAT
Found at i:70260680 original size:24 final size:24
Alignment explanation
Indices: 70260598--70260683 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
70260588 AAGAAATTTC
* * *
70260598 AGCACTATGTGTGCGAGGTTATGC
1 AGCACTATGTGTGCGAGATTACGT
* * * *
70260622 GGCACTATGTGTGCAAAAACTACGT
1 AGCACTATGTGTGC-GAGATTACGT
* *
70260647 GGCACTATGTGTGCGAGATTACAT
1 AGCACTATGTGTGCGAGATTACGT
70260671 AGCACTATGTGTG
1 AGCACTATGTGTG
70260684 TGAGGAAATG
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
24 31 0.63
25 18 0.37
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (24 bp):
AGCACTATGTGTGCGAGATTACGT
Found at i:70268021 original size:57 final size:57
Alignment explanation
Indices: 70267882--70268024 Score: 153
Period size: 57 Copynumber: 2.5 Consensus size: 57
70267872 CTCATTATAG
* * * *
70267882 AAAGGATTTAGCCTAGACAGGTAATCCTGATATAATCCCTCTCGAGCATATGTTACA
1 AAAGGATTTAGCCTAGACTGGTAATCCTAATATAAGCCCTCTCGAGCATACGTTACA
* * * * * * *
70267939 ATTAGGATTTAACCTAGACTAGTAATCCTAAT-TGAGCTCTTTTGAGCATACGTTACA
1 A-AAGGATTTAGCCTAGACTGGTAATCCTAATATAAGCCCTCTCGAGCATACGTTACA
*
70267996 TAAAGGATTTAGCCTGGACTGGTAATCCT
1 -AAAGGATTTAGCCTAGACTGGTAATCCT
70268025 GTAGTACGAT
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
57 43 0.62
58 26 0.38
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (57 bp):
AAAGGATTTAGCCTAGACTGGTAATCCTAATATAAGCCCTCTCGAGCATACGTTACA
Found at i:70270048 original size:39 final size:39
Alignment explanation
Indices: 70270004--70270121 Score: 191
Period size: 39 Copynumber: 3.0 Consensus size: 39
70269994 AATTATATTA
* *
70270004 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
**
70270043 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATAC
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
70270082 CCAGCACGAAGCCTGCGGGACTTTAGCCCAGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
70270121 C
1 C
70270122 TAGTGTCTTG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 72 1.00
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.19
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:70276718 original size:38 final size:38
Alignment explanation
Indices: 70276653--70276746 Score: 152
Period size: 38 Copynumber: 2.4 Consensus size: 38
70276643 TCAATCATGC
* *
70276653 ACTGGGCCGTAGCCCTTTTCGTATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
70276692 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
70276730 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
70276747 ACTGTAAACG
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 41 0.79
39 11 0.21
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.37
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:70276984 original size:24 final size:24
Alignment explanation
Indices: 70276938--70277032 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
70276928 GCTTTATCAT
*
70276938 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
70276963 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
70276987 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
70277010 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
70277033 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:70277017 original size:47 final size:49
Alignment explanation
Indices: 70276938--70277031 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
70276928 GCTTTATCAT
*
70276938 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
70276987 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
70277032 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:70277108 original size:20 final size:20
Alignment explanation
Indices: 70277083--70277142 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
70277073 TATGATTACC
70277083 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
70277103 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
70277123 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
70277143 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:70277217 original size:25 final size:25
Alignment explanation
Indices: 70277185--70277232 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
70277175 ATACATAAAC
* * *
70277185 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
70277210 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
70277233 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:70285001 original size:38 final size:38
Alignment explanation
Indices: 70284936--70285029 Score: 152
Period size: 38 Copynumber: 2.4 Consensus size: 38
70284926 TCAATCATGC
* *
70284936 ACTGGGCCGTAGCCCTTTTCGTATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
70284975 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
70285013 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
70285030 ACTGTAAACG
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 41 0.79
39 11 0.21
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.37
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:70285267 original size:24 final size:24
Alignment explanation
Indices: 70285221--70285315 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
70285211 GCTTTATCAT
*
70285221 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
70285246 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
70285270 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
70285293 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
70285316 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:70285300 original size:47 final size:49
Alignment explanation
Indices: 70285221--70285314 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
70285211 GCTTTATCAT
*
70285221 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
70285270 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
70285315 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:70285391 original size:20 final size:20
Alignment explanation
Indices: 70285366--70285425 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
70285356 TATGATTACC
70285366 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
70285386 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
70285406 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
70285426 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:70285500 original size:25 final size:25
Alignment explanation
Indices: 70285468--70285515 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
70285458 ATACATAAAC
* * *
70285468 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
70285493 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
70285516 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:70289000 original size:10 final size:10
Alignment explanation
Indices: 70288985--70289043 Score: 75
Period size: 10 Copynumber: 5.9 Consensus size: 10
70288975 AATTTTAGCT
*
70288985 TTTATCTTCA
1 TTTATCTTTA
70288995 TTTATCTTTA
1 TTTATCTTTA
*
70289005 ATTATCTTTA
1 TTTATCTTTA
*
70289015 ATTATCTTTA
1 TTTATCTTTA
70289025 TTTAT-TTGTA
1 TTTATCTT-TA
70289035 TTTATCTTT
1 TTTATCTTT
70289044 TACAATTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
9 2 0.05
10 40 0.91
11 2 0.05
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:70292827 original size:15 final size:16
Alignment explanation
Indices: 70292807--70292846 Score: 64
Period size: 15 Copynumber: 2.5 Consensus size: 16
70292797 CCCAATTTTG
70292807 TTTTATTTATATAT-T
1 TTTTATTTATATATAT
70292822 TTTTATTTATATATAT
1 TTTTATTTATATATAT
70292838 TTTCTATTT
1 TTT-TATTT
70292847 TCTTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 14 0.61
16 4 0.17
17 5 0.22
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATTTATATATAT
Found at i:70293811 original size:100 final size:100
Alignment explanation
Indices: 70293649--70293828 Score: 272
Period size: 100 Copynumber: 1.8 Consensus size: 100
70293639 TATTGGACTG
* * * * *
70293649 AGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGTTTCGACATGTTCTTAA
1 AGTAACCAGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCATCAAAAGGTTCAACATATTCTTAA
*
70293714 G-AAAAATATAAAAAAATTAGGAGTATGTTGGGCTA
66 GCAAAAA-AGAAAAAAATTAGGAGTATGTTGGGCTA
* *
70293749 AGTAACCAGGGTGGGGTGTTTGGCTGTCATCTCTCTTCGCATCAAAAGGTTCAATATATTCTTAA
1 AGTAACCAGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCATCAAAAGGTTCAACATATTCTTAA
70293814 GCAAAAAAGAAAAAA
66 GCAAAAAAGAAAAAA
70293829 GAGAAAAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
100 66 0.93
101 5 0.07
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (100 bp):
AGTAACCAGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCATCAAAAGGTTCAACATATTCTTAA
GCAAAAAAGAAAAAAATTAGGAGTATGTTGGGCTA
Found at i:70293855 original size:11 final size:10
Alignment explanation
Indices: 70293816--70293865 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
70293806 ATTCTTAAGC
70293816 AAAAAAG-AA
1 AAAAAAGAAA
*
70293825 AAAAGAGAAA
1 AAAAAAGAAA
70293835 AAAACAA-AAA
1 AAAA-AAGAAA
*
70293845 GAAAAAGAAA
1 AAAAAAGAAA
70293855 AACAAAAGAAA
1 AA-AAAAGAAA
70293866 TGCATTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 8 0.24
10 16 0.48
11 9 0.27
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:70293861 original size:23 final size:23
Alignment explanation
Indices: 70293817--70293861 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
70293807 TTCTTAAGCA
*
70293817 AAAAAGAAAAAAGAGAAAAAAAC
1 AAAAAGAAAAAAGAAAAAAAAAC
70293840 AAAAAG-AAAAAGAAAAACAAAA
1 AAAAAGAAAAAAGAAAAA-AAAA
70293862 GAAATGCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.84, C:0.04, G:0.11, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAAAAGAAAAAAAAAC
Found at i:70296562 original size:3 final size:3
Alignment explanation
Indices: 70296549--70296594 Score: 83
Period size: 3 Copynumber: 15.0 Consensus size: 3
70296539 TTCCATTTCC
70296549 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
70296595 AAGTAAAGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:70299512 original size:1 final size:1
Alignment explanation
Indices: 70299506--70299531 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
70299496 CTGTATTGGC
70299506 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
70299532 GAAGGATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:70301284 original size:33 final size:33
Alignment explanation
Indices: 70301240--70301307 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
70301230 TGATACATGT
*
70301240 CCTATATCAGTGTCTTCATCA-TTAGATCCAACC
1 CCTATACCAGTGTCTTCATCATTTA-ATCCAACC
*
70301273 CCTATACCAGTGTCTTCGTCATTTAATCCAACC
1 CCTATACCAGTGTCTTCATCATTTAATCCAACC
70301306 CC
1 CC
70301308 AATTAACCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 29 0.91
34 3 0.09
ACGTcount: A:0.25, C:0.34, G:0.09, T:0.32
Consensus pattern (33 bp):
CCTATACCAGTGTCTTCATCATTTAATCCAACC
Found at i:70303630 original size:19 final size:19
Alignment explanation
Indices: 70303606--70303646 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
70303596 TATTTTAAAG
70303606 TTATTTAGATAGATAAATC
1 TTATTTAGATAGATAAATC
*
70303625 TTATTTAGGTAGATAAATC
1 TTATTTAGATAGATAAATC
70303644 TTA
1 TTA
70303647 GAATAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (19 bp):
TTATTTAGATAGATAAATC
Found at i:70315285 original size:2 final size:2
Alignment explanation
Indices: 70315278--70315302 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
70315268 ATATGAAATG
70315278 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
70315303 AGCTTCGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:70323881 original size:40 final size:40
Alignment explanation
Indices: 70323798--70324018 Score: 234
Period size: 40 Copynumber: 5.5 Consensus size: 40
70323788 ACCCAAGTAT
** * *
70323798 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
70323836 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* **
70323876 CTTCGGGACTTAGCCCGGATATAGTTGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
70323916 CTTCGGGTTTTGGCTCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
70323956 CTTCGGATCTTA-CTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGC-CCGGATATAGTCAC-TAGCACAAATGC
*
70323997 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
70324019 CATTCGAATA
Statistics
Matches: 150, Mismatches: 27, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.11
40 93 0.62
41 28 0.19
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:70334637 original size:4 final size:4
Alignment explanation
Indices: 70334630--70334654 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
70334620 GCTAGTGCTA
70334630 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
70334655 TAAAGGAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:70339743 original size:29 final size:29
Alignment explanation
Indices: 70339710--70339767 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
70339700 GTGACGAGAT
70339710 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
70339739 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
70339768 CAGCACTGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:70339782 original size:29 final size:29
Alignment explanation
Indices: 70339712--70339774 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
70339702 GACGAGATTG
**
70339712 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATACA
70339741 GCACTAAGTGTGCATGCTGGAAATATACA
1 GCACTAAGTGTGCATGCTGGAAATATACA
70339770 GCACT
1 GCACT
70339775 GGGTGTGCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (29 bp):
GCACTAAGTGTGCATGCTGGAAATATACA
Found at i:70347712 original size:29 final size:29
Alignment explanation
Indices: 70347640--70347704 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
70347630 GTGACGAGAT
70347640 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
70347669 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
70347698 TGGCACT
1 TGGCACT
70347705 GGGTGTGCGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:70347810 original size:2 final size:2
Alignment explanation
Indices: 70347805--70347839 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
70347795 GTGCGTACTC
70347805 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
70347840 CTCCGATCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:70349302 original size:40 final size:40
Alignment explanation
Indices: 70349242--70349406 Score: 251
Period size: 40 Copynumber: 4.1 Consensus size: 40
70349232 AGTGACTAAT
* *
70349242 TCCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
70349282 TTCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
**
70349322 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
70349362 TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
70349402 TCCGG
1 TCCGG
70349407 TTAAATCTCG
Statistics
Matches: 114, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.02
40 112 0.98
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:70356894 original size:20 final size:20
Alignment explanation
Indices: 70356861--70356901 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
70356851 AACACATGAA
70356861 TTCATAAAAATTCAAAAGTT
1 TTCATAAAAATTCAAAAGTT
* * *
70356881 TTCATCAAATTTCATAAGTT
1 TTCATAAAAATTCAAAAGTT
70356901 T
1 T
70356902 ACATTTTAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.41
Consensus pattern (20 bp):
TTCATAAAAATTCAAAAGTT
Found at i:70359635 original size:54 final size:55
Alignment explanation
Indices: 70359532--70359640 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 55
70359522 CTAGCCGAAT
* * *
70359532 TTCAATTAGGTCTCTAATAGCCCATATTTTTAATTGATTTCATAGTTTAAGCATG
1 TTCAATTAGGTCTCTAATAGCCCATATTTTTAATTGATTTCACAATTTAACCATG
* *
70359587 TTCAATTAGGTCTCTAGTAG-CCATATTTTTCACTT-ATTTCACAATTTAACCATG
1 TTCAATTAGGTCTCTAATAGCCCATATTTTT-AATTGATTTCACAATTTAACCATG
70359641 AATTTTACAC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
54 26 0.54
55 22 0.46
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.43
Consensus pattern (55 bp):
TTCAATTAGGTCTCTAATAGCCCATATTTTTAATTGATTTCACAATTTAACCATG
Found at i:70360927 original size:2 final size:2
Alignment explanation
Indices: 70360920--70360952 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
70360910 TGATTCTCAG
70360920 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
70360953 TATGTATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:70362824 original size:14 final size:14
Alignment explanation
Indices: 70362798--70362827 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
70362788 GTATTTGGCC
70362798 AAGGGAAGAAAAAT
1 AAGGGAAGAAAAAT
70362812 AAGGAGAAGAAAAAT
1 AAGG-GAAGAAAAAT
70362827 A
1 A
70362828 TTTTTTTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (14 bp):
AAGGGAAGAAAAAT
Found at i:70369473 original size:39 final size:39
Alignment explanation
Indices: 70369363--70369584 Score: 309
Period size: 39 Copynumber: 5.6 Consensus size: 39
70369353 TCGTTCAAAC
* * ** * **
70369363 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* *
70369403 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
70369443 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
70369482 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
* * * *
70369521 GCCTTCGGGCTTAGCCCAGATATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
70369560 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
70369585 CTCGAACATT
Statistics
Matches: 166, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 126 0.76
40 40 0.24
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:70375774 original size:29 final size:29
Alignment explanation
Indices: 70375740--70375814 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
70375730 CCATTAATTC
* * *
70375740 ATATGGGCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCAAAATCACATGT
*
70375769 ATATGGCCCATTAGGCCAAAATCACATTT
1 ATATGGCCCATTAGGCCAAAATCACATGT
*
70375798 ATATGGCCCGTTAGGCC
1 ATATGGCCCATTAGGCC
70375815 TAGTCACATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCAAAATCACATGT
Found at i:70377452 original size:46 final size:47
Alignment explanation
Indices: 70377400--70377515 Score: 166
Period size: 46 Copynumber: 2.5 Consensus size: 47
70377390 TGAGACGAGG
*
70377400 GCTAGTGTAAGACATGTCTTGGACATGCATCAGCCAC-AT-TATGAGT
1 GCTAGTGTAAGACATGTCTTGGACATGCATCAG-CACGATATATGAGA
*
70377446 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATATATGAGA
1 GCTAGTGTAAGACATGTCTTGGACATGCATCAGCACG-ATATATGAGA
70377494 GCTAGTGTAAGACCATGT-TTGG
1 GCTAGTGTAAGA-CATGTCTTGG
70377516 GATATGGTGT
Statistics
Matches: 63, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
45 3 0.05
46 32 0.51
47 2 0.03
48 21 0.33
49 5 0.08
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTTGGACATGCATCAGCACGATATATGAGA
Found at i:70377498 original size:94 final size:93
Alignment explanation
Indices: 70377309--70377515 Score: 242
Period size: 94 Copynumber: 2.2 Consensus size: 93
70377299 TTTGTGCGCC
* *
70377309 AGTGTAAGACATGTTTGGGACATGCATCGGCCACACTATGATATCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTTT-GGACATGCATCAGCCACACTATGATAGCCAGTGTAAGACCATGTCTGG
* *
70377374 GACACGGCATCGGCGTTGAGACGAGGGCT
65 GACACGGCATCGACGTTGAGACGAGAGCT
* *
70377403 AGTGTAAGACATGTCTTGGACATGCATCAGCCACATTATGAGT-GCTAGTGTAAGA-CATGTCTG
1 AGTGTAAGACATGT-TTGGACATGCATCAGCCACACTATGA-TAGCCAGTGTAAGACCATGTCTG
* * *
70377466 GGACA-TGCATCAGCACGTAT-ATATGAGAGCT
64 GGACACGGCATC-G-ACGT-TGAGACGAGAGCT
70377497 AGTGTAAGACCATGTTTGG
1 AGTGTAAGA-CATGTTTGG
70377516 GATATGGTGT
Statistics
Matches: 98, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
92 5 0.05
93 14 0.14
94 70 0.71
95 9 0.09
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (93 bp):
AGTGTAAGACATGTTTGGACATGCATCAGCCACACTATGATAGCCAGTGTAAGACCATGTCTGGG
ACACGGCATCGACGTTGAGACGAGAGCT
Found at i:70381030 original size:46 final size:46
Alignment explanation
Indices: 70380971--70381146 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
70380961 TATTTGGGAA
70380971 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGGGAATG
1 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGGGAATG
* * * *
70381017 TCTGAGCTCGTTGAGTTGAGT-TCGAGTTC-GTGA--GAT-GTAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCT-GAGTTCACTTATGGATGGGAA-T--G
* *
70381062 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGGGAATG
* * *
70381110 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
70381147 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 4 0.04
46 60 0.57
47 26 0.25
48 4 0.04
50 3 0.03
51 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGGGAATG
Found at i:70381129 original size:93 final size:93
Alignment explanation
Indices: 70380970--70381139 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
70380960 ATATTTGGGA
* * * *
70380970 ATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGGGAATGTCTGAGCTCGTTGAGTTG
1 ATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTG
*
70381035 AGTTCGAGTTCGTGAGATGTAACTAGGC
66 AGTCCGAGTTCGTGAGATGTAACTAGGC
70381063 ATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTG
1 ATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTG
70381128 AGTCCGAGTTCG
66 AGTCCGAGTTCG
70381140 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (93 bp):
ATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTG
AGTCCGAGTTCGTGAGATGTAACTAGGC
Found at i:70383481 original size:16 final size:16
Alignment explanation
Indices: 70383457--70383487 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
70383447 AAATTCAAGC
*
70383457 TTTCGGGATTTTTGGA
1 TTTCAGGATTTTTGGA
70383473 TTTCAGGATTTTTGG
1 TTTCAGGATTTTTGG
70383488 GGCGTTACAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.06, G:0.29, T:0.52
Consensus pattern (16 bp):
TTTCAGGATTTTTGGA
Found at i:70386532 original size:27 final size:27
Alignment explanation
Indices: 70386502--70386563 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
70386492 ATTTACTAAA
70386502 ATACCCCTAAGAATG-AAAATGACTATT
1 ATACCCCTAAG-ATGCAAAATGACTATT
* *
70386529 ATA-CCCTTAGGTGCAAAATGACTATT
1 ATACCCCTAAGATGCAAAATGACTATT
70386555 ATACCCCTA
1 ATACCCCTA
70386564 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.07
26 21 0.70
27 7 0.23
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATGACTATT
Found at i:70386742 original size:27 final size:26
Alignment explanation
Indices: 70386667--70386781 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 26
70386657 TGGAGTAAGC
*
70386667 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
70386694 GTTTCTGGTGGCTAC-GCTACAAATATCT
1 G-TTCTGGTGGCT-CTGCCAC-AATATCT
70386722 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
70386748 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
70386775 GTTCTGG
1 GTTCTGG
70386782 AAGCCATGCT
Statistics
Matches: 79, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
26 15 0.19
27 40 0.51
28 24 0.30
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:70393727 original size:29 final size:29
Alignment explanation
Indices: 70393694--70393794 Score: 157
Period size: 29 Copynumber: 3.5 Consensus size: 29
70393684 TGACGAGATC
70393694 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
*
70393723 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* *
70393752 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* *
70393781 GACACTATGTGTGC
1 GGCACTAAGTGTGC
70393795 AAGCTGGGAA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:70393795 original size:29 final size:29
Alignment explanation
Indices: 70393694--70393815 Score: 154
Period size: 29 Copynumber: 4.2 Consensus size: 29
70393684 TGACGAGATC
* *
70393694 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAT
* * *
70393723 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAT
70393752 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAT
* * * * *
70393781 GACACTATGTGTGCAAGCTGGGAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAT
70393810 GGCACT
1 GGCACT
70393816 GGGTGTGCGA
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 83 1.00
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAT
Found at i:70393828 original size:29 final size:29
Alignment explanation
Indices: 70393693--70393828 Score: 141
Period size: 29 Copynumber: 4.7 Consensus size: 29
70393683 GTGACGAGAT
*
70393693 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAATATA
* *
70393722 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAATATA
* *
70393751 AGGCACTAAGTGTGC-ATGCTGGAAAAATA
1 CGGCACTAAGTGTGCGA-GCTGGAAATATA
* * * *
70393780 TGACACTATGTGTGCAAGCTGGGAAA-ATA
1 CGGCACTAAGTGTGCGAGCT-GGAAATATA
**
70393809 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
70393829 CGGAGGGTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
29 86 0.93
30 6 0.07
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.24
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:70397437 original size:27 final size:26
Alignment explanation
Indices: 70397407--70397465 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
70397397 TACTAAAATG
* *
70397407 CCCCTAAGAATGAAAATTACCATTATA
1 CCCCTAAGAA-CAAAATGACCATTATA
* *
70397434 CCCCTAGGTACAAAATGACCATTATA
1 CCCCTAAGAACAAAATGACCATTATA
70397460 CCCCTA
1 CCCCTA
70397466 GGGTTAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.39, C:0.29, G:0.08, T:0.24
Consensus pattern (26 bp):
CCCCTAAGAACAAAATGACCATTATA
Found at i:70397613 original size:28 final size:27
Alignment explanation
Indices: 70397570--70397656 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
70397560 GGAGGAAGCG
* *
70397570 TTCTGATGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCAC-AATATCTGT
70397598 TTCTGGTGGCTCTGCCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTGT
* * * *
70397625 ATCTGGTGACTCTGTCTCAATATCTG-
1 TTCTGGTGGCTCTGCCACAATATCTGT
70397651 TTCTGG
1 TTCTGG
70397657 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.10
27 31 0.60
28 16 0.31
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACAATATCTGT
Found at i:70401163 original size:12 final size:13
Alignment explanation
Indices: 70401146--70401178 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
70401136 GTTTCGCACG
70401146 TTTAAATAGTT-T
1 TTTAAATAGTTGT
*
70401158 TTTAAATTGTTGT
1 TTTAAATAGTTGT
70401171 TTTAAATA
1 TTTAAATA
70401179 CTATCATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (13 bp):
TTTAAATAGTTGT
Found at i:70403138 original size:63 final size:63
Alignment explanation
Indices: 70403027--70403148 Score: 174
Period size: 63 Copynumber: 1.9 Consensus size: 63
70403017 TTACCTATCT
*
70403027 GGGCTAAATCCTTAATGCACACATATTCATCAAAAGGCTCGATTACTCAAGGAACACCCATTC
1 GGGCTAAATCCTTAATGCACACATATTCATCAAAAGGCTCGATCACTCAAGGAACACCCATTC
* * * * *
70403090 GGGCTAGAA-CCTTAATGCACACATATTCTTCGATATGCTTGATCACTCAAGGAACACCC
1 GGGCTA-AATCCTTAATGCACACATATTCATCAAAAGGCTCGATCACTCAAGGAACACCC
70403149 GTCTGAGCTA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 50 0.96
64 2 0.04
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (63 bp):
GGGCTAAATCCTTAATGCACACATATTCATCAAAAGGCTCGATCACTCAAGGAACACCCATTC
Found at i:70403159 original size:63 final size:63
Alignment explanation
Indices: 70403036--70403165 Score: 163
Period size: 63 Copynumber: 2.1 Consensus size: 63
70403026 TGGGCTAAAT
* *
70403036 CCTTAATGCACACATATTCATCAAAAGGCTCGATTACTCAAGGAACACCCATTCGGGCTAGAA
1 CCTTAATGCACACATATTCATCAAAAGGCTCGATCACTCAAGGAACACCCATTCGAGCTAGAA
* * * * * * *
70403099 CCTTAATGCACACATATTCTTCGATATGCTTGATCACTCAAGGAACACCC-GTCTGAGCTAGAT
1 CCTTAATGCACACATATTCATCAAAAGGCTCGATCACTCAAGGAACACCCATTC-GAGCTAGAA
70403162 CCTT
1 CCTT
70403166 TCTATATTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 2 0.04
63 55 0.96
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (63 bp):
CCTTAATGCACACATATTCATCAAAAGGCTCGATCACTCAAGGAACACCCATTCGAGCTAGAA
Found at i:70404489 original size:29 final size:29
Alignment explanation
Indices: 70404455--70404654 Score: 181
Period size: 29 Copynumber: 6.9 Consensus size: 29
70404445 TGCCATCAAG
*
70404455 TATGAAAATGGATGGTTTCGACCATCGAC
1 TATGAAAAGGGATGGTTTCGACCATCGAC
* * * *
70404484 TATGAAAAGGGATAGTTTTGACCATTGAT
1 TATGAAAAGGGATGGTTTCGACCATCGAC
* * * * *
70404513 TATGAAAAGGGTTAGTTTTGACTATTGAC
1 TATGAAAAGGGATGGTTTCGACCATCGAC
** *
70404542 TATG-AAAGGGATGGTGACGACCATCAAC
1 TATGAAAAGGGATGGTTTCGACCATCGAC
* * *
70404570 TATGAAAAGGGATGATGAT-GACCATCAACC
1 TATGAAAAGGGATGGT-TTCGACCATCGA-C
* * *
70404600 AATGAAAAGGGATGGTTCCGACCATCGAA
1 TATGAAAAGGGATGGTTTCGACCATCGAC
*
70404629 TATGAAAAGGGAT-GTTACGACCATCG
1 TATGAAAAGGGATGGTTTCGACCATCG
70404655 TTTAGCACAC
Statistics
Matches: 140, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
28 32 0.23
29 85 0.61
30 23 0.16
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.26
Consensus pattern (29 bp):
TATGAAAAGGGATGGTTTCGACCATCGAC
Found at i:70407597 original size:29 final size:29
Alignment explanation
Indices: 70407558--70407632 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
70407548 CGGTTGAGAG
* *
70407558 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
70407587 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
70407616 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
70407633 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:70415454 original size:29 final size:29
Alignment explanation
Indices: 70415415--70415489 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
70415405 GGTTGAGAGA
* *
70415415 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
70415444 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
70415473 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
70415490 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:70421512 original size:40 final size:40
Alignment explanation
Indices: 70421454--70421739 Score: 394
Period size: 40 Copynumber: 7.2 Consensus size: 40
70421444 CCGAATACAC
* * * * **
70421454 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCTAGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * *
70421494 AACACCAGCACGAATGCTCTTCGGGACTTAACCCTGG-TAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCC-GGATAT
* * * * *
70421534 AACTCTAGCACGAATGCTCTTTGAGACTTAGCCCGGGTAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
70421574 ATCACTAGCACGAATGCTCTTCGGGACTTAGGCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
70421614 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
70421654 ATCACTAGCACGAATGTTCTTCGGAACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
70421694 ATCACTAGCACGAATGCTCTTCGGTACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
70421734 ATCACT
1 ATCACT
70421740 CTCAATTCTC
Statistics
Matches: 221, Mismatches: 23, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 2 0.01
40 218 0.99
41 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
Found at i:70423088 original size:37 final size:37
Alignment explanation
Indices: 70423033--70423117 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
70423023 TATTTAGCGA
*
70423033 GTCTCACCC-GACAAAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCTCCACACGTAGTCATCGG
*
70423069 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCTCCACACGTAGTCATCGG
70423106 GTCTTACCCGGA
1 GTCTTACCCGGA
70423118 ATATATTTCC
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
36 8 0.17
37 38 0.83
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGTAGTCATCGG
Found at i:70423545 original size:2 final size:2
Alignment explanation
Indices: 70423538--70423568 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
70423528 GCTTTACCAC
70423538 AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70423569 TTGTCTTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:70423546 original size:48 final size:48
Alignment explanation
Indices: 70423258--70423542 Score: 500
Period size: 48 Copynumber: 5.9 Consensus size: 48
70423248 ATATACACAC
* * *
70423258 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
70423306 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
70423354 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
70423402 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
70423450 ATCTCATATATATTTCAC-CTTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
70423498 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATA
70423543 TATAATATAT
Statistics
Matches: 227, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
47 1 0.00
48 225 0.99
49 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:70427263 original size:40 final size:39
Alignment explanation
Indices: 70427205--70427488 Score: 347
Period size: 40 Copynumber: 7.2 Consensus size: 39
70427195 CCGAATACAC
* * * * *
70427205 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCTAGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCC-GGATAT
* * *
70427245 AACACCAGCACGAATGCTCTTCGGGACTTAACCCTGG-TAT
1 ATCACTAGCACGAATGCTCTTCGGGACTT-AGCC-GGATAT
* * * * *
70427285 AACTCTAGCACGAATGCTCTTTGAGACTTAGCCGGGTAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCGGATAT
70427324 ATCACTAGCACGAATGCTCTTCGGGACTTAGGCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTA-GCCGGATAT
70427364 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAG-CCGGATAT
* *
70427404 ATCACTAGCACGAATGTTCTTCGGAACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAG-CCGGATAT
*
70427444 ATCACTAGCAGGAATGCTCTTC-GGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAG-CCGGATAT
70427483 ATCACT
1 ATCACT
70427489 CTCAATTCTC
Statistics
Matches: 219, Mismatches: 21, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
38 2 0.01
39 55 0.25
40 157 0.72
41 5 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (39 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCGGATAT
Found at i:70427351 original size:79 final size:79
Alignment explanation
Indices: 70427205--70427488 Score: 365
Period size: 79 Copynumber: 3.6 Consensus size: 79
70427195 CCGAATACAC
* * * * ** * *
70427205 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCTAGATATAACACCAGCACGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGG
*
70427270 ACTTAACCCTGG-TAT
65 ACTTAGCCC-GGATAT
* * * *
70427285 AACTCTAGCACGAATGCTCTTTGAGACTTAG-CCGGGTATATCACTAGCACGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCG-GACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGG
*
70427349 ACTTAGGCCGGATAT
65 ACTTAGCCCGGATAT
* *
70427364 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGTTCTTCGGA
1 ATCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGG
70427429 ACTTAGCCCGGATAT
65 ACTTAGCCCGGATAT
*
70427444 ATCACTAGCAGGAATGCTCTTCGGACTTAGCCCGGATATATCACT
1 ATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCACT
70427489 CTCAATTCTC
Statistics
Matches: 178, Mismatches: 22, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
78 2 0.01
79 88 0.49
80 88 0.49
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (79 bp):
ATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGA
CTTAGCCCGGATAT
Found at i:70427416 original size:119 final size:120
Alignment explanation
Indices: 70427205--70427488 Score: 371
Period size: 119 Copynumber: 2.4 Consensus size: 120
70427195 CCGAATACAC
* * * * * * *
70427205 ATCACCAGCATGATTGCTCTTCGGGACCTA-GCCTAGATATAACACCAGCACGAATGCTCTTCGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGGCC-GGATATATCACTAGCACGAATGCTCTTCGG
* * *
70427269 GACTTAACCCTGGTATAACTCTAGCACGAATGCTCTT-TGAGACTTAG-CCGGGTAT
65 GACTTAACCCTGGTATAACACTAGCACGAATGCTCTTCGGA-ACTTAGCCCGGATAT
70427324 ATCACTAGCACGAATGCTCTTCGGGACTTAGGCCGGATATATCACTAGCACGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGGCCGGATATATCACTAGCACGAATGCTCTTCGGG
* * *
70427389 ACTTAGCCC-GGATATATCACTAGCACGAATGTTCTTCGGAACTTAGCCCGGATAT
66 ACTTAACCCTGG-TATAACACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATAT
* *
70427444 ATCACTAGCAGGAATGCTCTTC-GGACTTAGCCCGGATATATCACT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGGCCGGATATATCACT
70427489 CTCAATTCTC
Statistics
Matches: 146, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
118 2 0.01
119 111 0.76
120 33 0.23
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (120 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGGCCGGATATATCACTAGCACGAATGCTCTTCGGG
ACTTAACCCTGGTATAACACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATAT
Found at i:70428839 original size:37 final size:37
Alignment explanation
Indices: 70428780--70428868 Score: 151
Period size: 37 Copynumber: 2.4 Consensus size: 37
70428770 TCGTATTTAG
* *
70428780 CGGGTCTCACCCGAACAAAATCTCCACACGTAGTCAT
1 CGGGTCTTACCCGGACAAAATCTCCACACGTAGTCAT
*
70428817 CGGGTCTTACCCGGACATAATCTCCACACGTAGTCAT
1 CGGGTCTTACCCGGACAAAATCTCCACACGTAGTCAT
70428854 CGGGTCTTACCCGGA
1 CGGGTCTTACCCGGA
70428869 ATATATTTCC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.25, C:0.34, G:0.20, T:0.21
Consensus pattern (37 bp):
CGGGTCTTACCCGGACAAAATCTCCACACGTAGTCAT
Found at i:70429067 original size:48 final size:48
Alignment explanation
Indices: 70429009--70429298 Score: 483
Period size: 48 Copynumber: 6.0 Consensus size: 48
70428999 ATATACACAC
* * *
70429009 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
70429057 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
70429105 ATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
70429153 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
70429201 ATCTCATATATATTTCAC-CTTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
* *
70429249 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
70429297 AT
1 AT
70429299 ATATATATAT
Statistics
Matches: 229, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
47 1 0.00
48 227 0.99
49 1 0.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:70429296 original size:2 final size:2
Alignment explanation
Indices: 70429289--70429333 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
70429279 GCTTTACCAC
70429289 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70429331 AT A
1 AT A
70429334 AATTTGTCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:70432353 original size:46 final size:46
Alignment explanation
Indices: 70432300--70432475 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
70432290 TATTTGGGCA
70432300 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
70432346 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
70432393 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
70432439 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
70432476 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:70432455 original size:93 final size:93
Alignment explanation
Indices: 70432296--70432467 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
70432286 GGGATATTTG
* *
70432296 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
70432361 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
70432389 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
70432454 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
70432468 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:70435424 original size:15 final size:15
Alignment explanation
Indices: 70435385--70435463 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
70435375 GTATCTTGGG
*
70435385 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
70435400 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
70435415 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
70435429 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
70435444 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
70435458 TTTCTT
1 TTTCTT
70435464 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:70435448 original size:29 final size:29
Alignment explanation
Indices: 70435376--70435462 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
70435366 CATAGTATCG
* * * *
70435376 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
70435406 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
70435435 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
70435463 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:70437145 original size:2 final size:2
Alignment explanation
Indices: 70437138--70437167 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
70437128 AGTAAATGGC
70437138 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70437168 TGTGAATACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70437820 original size:40 final size:40
Alignment explanation
Indices: 70437764--70437862 Score: 166
Period size: 40 Copynumber: 2.5 Consensus size: 40
70437754 TATGTGCATA
70437764 GCATTCGT--GGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
70437802 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
70437842 GCATTCGTGCTGGTTGTTATA
1 GCATTCGTGCGGGTTATTATA
70437863 TCCGAGCCAA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
38 8 0.14
40 49 0.86
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:70437880 original size:40 final size:40
Alignment explanation
Indices: 70437764--70437880 Score: 112
Period size: 40 Copynumber: 3.0 Consensus size: 40
70437754 TATGTGCATA
* ** *
70437764 GCATTCGT--GGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGAGCCAAATCCCGAAG
* ** *
70437802 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGAGCCAAATCCCGAAG
* * * *
70437842 GCATTCGTGCTGGTTGTTATATCCGAGCCAAATTCCGAA
1 GCATTCGTGCGGGTTATTATAACCGAGCCAAATCCCGAA
70437881 AGTATTTATG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 8 0.12
40 61 0.88
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGAGCCAAATCCCGAAG
Found at i:70445982 original size:41 final size:40
Alignment explanation
Indices: 70445923--70446012 Score: 162
Period size: 41 Copynumber: 2.2 Consensus size: 40
70445913 TATGTGCATA
*
70445923 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGAGGGTTATTATAACCGGGTTAAGTCCCGAAG
70445963 GCATTCGTGAAGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTG-AGGGTTATTATAACCGGGTTAAGTCCCGAAG
70446004 GCATTCGTG
1 GCATTCGTG
70446013 CTGGTTGTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 9 0.19
41 39 0.81
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (40 bp):
GCATTCGTGAGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:70449101 original size:27 final size:28
Alignment explanation
Indices: 70449045--70449101 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
70449035 AAAGGTAAGT
*
70449045 ATATGTGTAAATGATGATATAGATCTAA
1 ATATGTGTAAATGATGATATAGAGCTAA
*
70449073 ATATGTG-AAATTATGATATAAGAGC-AA
1 ATATGTGTAAATGATGATAT-AGAGCTAA
70449100 AT
1 AT
70449102 GAATTGAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.46, C:0.04, G:0.18, T:0.33
Consensus pattern (28 bp):
ATATGTGTAAATGATGATATAGAGCTAA
Found at i:70449242 original size:19 final size:19
Alignment explanation
Indices: 70449218--70449262 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
70449208 TTTGTATATG
70449218 GCTTACTAAGCTTTTGAAA
1 GCTTACTAAGCTTTTGAAA
70449237 GCTTACTAAGCTTTTGAAA
1 GCTTACTAAGCTTTTGAAA
70449256 GCTTACT
1 GCTTACT
70449263 TTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (19 bp):
GCTTACTAAGCTTTTGAAA
Found at i:70452762 original size:2 final size:2
Alignment explanation
Indices: 70452755--70452784 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
70452745 GCACTTATGA
70452755 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70452785 GGTATTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70453466 original size:40 final size:40
Alignment explanation
Indices: 70453363--70453582 Score: 281
Period size: 39 Copynumber: 5.6 Consensus size: 40
70453353 TATTCGGATG
* * * *
70453363 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCTAATGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
70453403 A-ATTCC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
70453442 ATAACCGGGCTAAGTCCCGGAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
70453482 ATAACCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
70453521 ATAACCGAGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
*
70453561 ATATCC-GGCTAAAG-CCCGAAGG
1 ATAACCGGGCT-AAGTCCCGAAGG
70453583 TACTTGGTTG
Statistics
Matches: 160, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
39 82 0.51
40 78 0.49
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:70453500 original size:79 final size:78
Alignment explanation
Indices: 70453363--70453582 Score: 300
Period size: 79 Copynumber: 2.8 Consensus size: 78
70453353 TATTCGGATG
* * * *
70453363 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCTAATGACTA-ATTCCGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGCTAAG-CCCGAAGGCA
*
70453427 TTTGTGCGAGTTACT
64 ATTGTGCGAGTTACT
* *
70453442 ATAACCGGGCTAAGTCCCGGAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGCCCGAAGGCAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC-GGCTAAGCCCGAAGGCAA
70453507 TTGTGCGAGTTACT
65 TTGTGCGAGTTACT
* *
70453521 ATAACCGAGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCCGGCTAAAGCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGCT-AAGCCCGAAGG
70453583 TACTTGGTTG
Statistics
Matches: 126, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
78 6 0.05
79 112 0.89
80 8 0.06
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGCTAAGCCCGAAGGCAAT
TGTGCGAGTTACT
Found at i:70461483 original size:40 final size:40
Alignment explanation
Indices: 70461420--70461641 Score: 288
Period size: 40 Copynumber: 5.6 Consensus size: 40
70461410 TATTCGGATG
* * *
70461420 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAATGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
70461460 A-ATTCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
70461500 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
70461540 ATAACCGGGCTAAGTCTCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
70461580 ATAACCGTGCTAGGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
70461620 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
70461642 TACTTGGTTG
Statistics
Matches: 160, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 15 0.09
40 144 0.90
41 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:70473974 original size:30 final size:30
Alignment explanation
Indices: 70473919--70474078 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
70473909 ATAGTGAATC
70473919 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
70473948 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
70473978 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
70474007 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
70474035 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
70474065 CGCACACTTAGTGC
1 CGCACACTTAGTGC
70474079 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, 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 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:70474011 original size:59 final size:57
Alignment explanation
Indices: 70473919--70474078 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
70473909 ATAGTGAATC
*
70473919 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
70473978 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
70474035 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
70474079 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:70481865 original size:29 final size:29
Alignment explanation
Indices: 70481833--70481962 Score: 165
Period size: 29 Copynumber: 4.5 Consensus size: 29
70481823 ATAGTGAATC
*
70481833 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAACT
*
70481862 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAACT
*
70481891 CGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AACT
* * * *
70481919 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAACT
70481949 CGCACACTTAGTGC
1 CGCACACTTAGTGC
70481963 CAATCTTGTC
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.02
28 20 0.22
29 50 0.56
30 17 0.19
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAACT
Found at i:70486074 original size:25 final size:25
Alignment explanation
Indices: 70486035--70486091 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
70486025 GTAAGGAGGG
*
70486035 GATAA-GGGAGAAGATTTAGGAGCT
1 GATAAGGGGAGAAGATTTAAGAGCT
70486059 GATAAGGGGAGAAGATTTAAGAGCT
1 GATAAGGGGAGAAGATTTAAGAGCT
70486084 GATCAAGG
1 GAT-AAGG
70486092 AGCAAGAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 5 0.17
25 21 0.70
26 4 0.13
ACGTcount: A:0.39, C:0.05, G:0.37, T:0.19
Consensus pattern (25 bp):
GATAAGGGGAGAAGATTTAAGAGCT
Found at i:70487534 original size:27 final size:26
Alignment explanation
Indices: 70487495--70487600 Score: 104
Period size: 27 Copynumber: 4.0 Consensus size: 26
70487485 GGAAGCGTCT
*
70487495 TGGTGGCTATGCCACAACTATCTGATC
1 TGGTGGCTATGCCACAA-TATCTGTTC
* *
70487522 TGGTGGCTTTGCCACATATATCTGTTT
1 TGGTGGCTATGCCACA-ATATCTGTTC
* *
70487549 TGGTGGCTCTACCACAATTATCTGTTC
1 TGGTGGCTATGCCACAA-TATCTGTTC
* * * *
70487576 TGGTGACTCTGTCACATTATCTGTT
1 TGGTGGCTATGCCACAATATCTGTT
70487601 TTGGCAGCCG
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 9 0.13
27 57 0.85
28 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.39
Consensus pattern (26 bp):
TGGTGGCTATGCCACAATATCTGTTC
Found at i:70487578 original size:54 final size:53
Alignment explanation
Indices: 70487494--70487604 Score: 150
Period size: 54 Copynumber: 2.1 Consensus size: 53
70487484 AGGAAGCGTC
* * *
70487494 TTGGTGGCTATGCCACAACTATCTGATCTGGTGGCTTTGCCACATATATCTGTT
1 TTGGTGGCTATACCACAACTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * * *
70487548 TTGGTGGCTCTACCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTGTT
1 TTGGTGGCTATACCACAACTATCTGATCTGGTGACTCTGCCACATTATCTGTT
70487601 TTGG
1 TTGG
70487605 CAGCCGTGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 12 0.24
54 38 0.76
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.40
Consensus pattern (53 bp):
TTGGTGGCTATACCACAACTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:70492845 original size:16 final size:15
Alignment explanation
Indices: 70492820--70492849 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
70492810 CTAGATCGGC
70492820 AAAAGCCGAAAAGCT
1 AAAAGCCGAAAAGCT
70492835 AAAATGCCGAAAAGC
1 AAAA-GCCGAAAAGC
70492850 CAGCATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.20, G:0.20, T:0.07
Consensus pattern (15 bp):
AAAAGCCGAAAAGCT
Found at i:70493349 original size:54 final size:53
Alignment explanation
Indices: 70493265--70493375 Score: 159
Period size: 54 Copynumber: 2.1 Consensus size: 53
70493255 AGGAAGCGTC
*
70493265 CTGGTGGCTATGCCACAACTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCACAACTATCTGATCTGGTGACTCTGCCACAT-TATCTATT
* * * * *
70493319 CTGGTGGCTTTGCCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAACTATCTGATCTGGTGACTCTGCCACATTATCTATT
70493372 CTGG
1 CTGG
70493376 CAGCCGTGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 11 0.22
54 40 0.78
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAACTATCTGATCTGGTGACTCTGCCACATTATCTATT
Found at i:70493372 original size:26 final size:26
Alignment explanation
Indices: 70493265--70493375 Score: 132
Period size: 27 Copynumber: 4.2 Consensus size: 26
70493255 AGGAAGCGTC
* * *
70493265 CTGGTGGCTATGCCACAACTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
70493292 CTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
70493319 CTGGTGGCTTTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
70493346 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
70493372 CTGG
1 CTGG
70493376 CAGCCGTGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 15 0.21
27 56 0.77
28 2 0.03
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:70495692 original size:29 final size:29
Alignment explanation
Indices: 70495629--70495736 Score: 119
Period size: 29 Copynumber: 3.8 Consensus size: 29
70495619 TTAACATACC
* ** *
70495629 TGTATTTGGCCCATTAATCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * * *
70495657 TTTATATGGTCCATTAGACCCAAATCACC
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
70495686 TGTATATGGCCCATTAGGCCCAAATTACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
70495715 TTTATATGGCCCATTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
70495737 GTTACATTCA
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
28 16 0.24
29 50 0.76
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:70501032 original size:51 final size:51
Alignment explanation
Indices: 70500977--70501076 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
70500967 CCACCACATA
*
70500977 ACATGTAA-CACATCCATAATGAACTCGGACCTCTCTACAAGCTCGGATGTT
1 ACATG-AATCACATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGTT
* * *
70501028 ACATGAATCCCATCCATTATGAACTCGGACCTCTCAACGAGCTCGGATG
1 ACATGAATCACATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATG
70501077 CCACATATCT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 2 0.05
51 42 0.95
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (51 bp):
ACATGAATCACATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGTT
Found at i:70503930 original size:12 final size:13
Alignment explanation
Indices: 70503913--70503945 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
70503903 GTTTCGTACG
70503913 TTTAAATAGTT-T
1 TTTAAATAGTTGT
*
70503925 TTTAAATTGTTGT
1 TTTAAATAGTTGT
70503938 TTTAAATA
1 TTTAAATA
70503946 CTATCATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (13 bp):
TTTAAATAGTTGT
Found at i:70505918 original size:63 final size:63
Alignment explanation
Indices: 70505827--70505949 Score: 210
Period size: 63 Copynumber: 2.0 Consensus size: 63
70505817 TTACCCATCT
* * *
70505827 GGGCTAAATTCTTAATGCACCCATATTCTTTGGGAGGCTCGATCACTCAAGGAACACCCAACA
1 GGGCTAAATCCTTAATGCACACATATTCTTTGGGAGGCTCGACCACTCAAGGAACACCCAACA
*
70505890 GGGCTAGATCCTTAATGCACACATATTCTTTGGGAGGCTCGACCACTCAAGGAACACCCA
1 GGGCTAAATCCTTAATGCACACATATTCTTTGGGAGGCTCGACCACTCAAGGAACACCCA
70505950 TCCGAGCTCG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (63 bp):
GGGCTAAATCCTTAATGCACACATATTCTTTGGGAGGCTCGACCACTCAAGGAACACCCAACA
Found at i:70505963 original size:63 final size:63
Alignment explanation
Indices: 70505837--70505965 Score: 204
Period size: 63 Copynumber: 2.0 Consensus size: 63
70505827 GGGCTAAATT
* * *
70505837 CTTAATGCACCCATATTCTTTGGGAGGCTCGATCACTCAAGGAACACCCAACAGGGCTAGATC
1 CTTAATGCACACATATTCTTTGGGAGGCTCGACCACTCAAGGAACACCCAACAGAGCTAGATC
* * *
70505900 CTTAATGCACACATATTCTTTGGGAGGCTCGACCACTCAAGGAACACCCATCCGAGCTCGATC
1 CTTAATGCACACATATTCTTTGGGAGGCTCGACCACTCAAGGAACACCCAACAGAGCTAGATC
70505963 CTT
1 CTT
70505966 TCTATATTTG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.23
Consensus pattern (63 bp):
CTTAATGCACACATATTCTTTGGGAGGCTCGACCACTCAAGGAACACCCAACAGAGCTAGATC
Found at i:70507391 original size:30 final size:29
Alignment explanation
Indices: 70507307--70507409 Score: 129
Period size: 29 Copynumber: 3.6 Consensus size: 29
70507297 GTTAGTTTCG
70507307 ACTATG-AAAGGGATGGTGATGACCATCA
1 ACTATGAAAAGGGATGGTGATGACCATCA
*
70507335 ACTATGAAAAGGGATGATGATGACCATCA
1 ACTATGAAAAGGGATGGTGATGACCATCA
* ** *
70507364 ACTAATCAAAAGGGATGGTTCTAACCATCGA
1 ACT-ATGAAAAGGGATGGTGATGACCATC-A
70507395 A-TATGAAAAGGGATG
1 ACTATGAAAAGGGATG
70507410 TTACGACCAT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
28 6 0.09
29 36 0.55
30 21 0.32
31 2 0.03
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (29 bp):
ACTATGAAAAGGGATGGTGATGACCATCA
Found at i:70515983 original size:37 final size:37
Alignment explanation
Indices: 70515925--70516106 Score: 294
Period size: 37 Copynumber: 4.9 Consensus size: 37
70515915 GCTCAGACGA
* * *
70515925 AATCTCCACACGAAGTTATCGGGTCTTACCCGGATAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
70515962 ACTC-CCAACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCC-ACACGTAGTCATCGGGTCTTACCCGGACAT
*
70515999 AATCTCCACATGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
70516036 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
70516073 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
70516107 ATATACTTCC
Statistics
Matches: 135, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
36 2 0.01
37 131 0.97
38 2 0.01
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:70517537 original size:40 final size:40
Alignment explanation
Indices: 70517492--70517658 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
70517482 CGGAATATAA
70517492 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
70517532 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
70517572 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
70517612 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
70517651 CCGGATAT
1 CCGGATAT
70517659 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:70517642 original size:80 final size:79
Alignment explanation
Indices: 70517492--70517658 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
70517482 CGGAATATAA
* *
70517492 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
70517557 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
70517572 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
70517634 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
70517651 CCGGATAT
1 CCGGATAT
70517659 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Done.