Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 78
Found at i:486566 original size:18 final size:19
Alignment explanation
Indices: 486530--486566 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
486520 TGATTATTTT
*
486530 ATTATTATTTTATTTAGAA
1 ATTAGTATTTTATTTAGAA
486549 ATTAGTATTTTA-TTAGAA
1 ATTAGTATTTTATTTAGAA
486567 CTTTTGTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
ATTAGTATTTTATTTAGAA
Found at i:486780 original size:19 final size:18
Alignment explanation
Indices: 486756--486791 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
486746 CAATGCTATC
486756 TTTCATCATTTTACTTTTT
1 TTTCATCATTTTA-TTTTT
*
486775 TTTCATTATTTTATTTT
1 TTTCATCATTTTATTTT
486792 CATAATACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTCATCATTTTATTTTT
Found at i:489981 original size:2 final size:2
Alignment explanation
Indices: 489974--490011 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
489964 TATTACAAAC
489974 TA TA TA TA -A 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 TA TA T
490012 TTATTACATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:491089 original size:4 final size:4
Alignment explanation
Indices: 491063--491214 Score: 53
Period size: 4 Copynumber: 39.0 Consensus size: 4
491053 TCAATATATA
* * *
491063 TATT TAAT TATT T-TT TA-T TATT TA-T T-TT TAAT TATT T-TT TCCTT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT T-ATT
*
491107 CT-TT TATT TATT TA-T TA-T TA-T TACTT T-TT TA-A TATT TATT CTATT
1 -TATT TATT TATT TATT TATT TATT TA-TT TATT TATT TATT TATT -TATT
* * *
491152 ATAATA TATA TATA TATAT T-TT TATT TA-T TATTT TATTT TATT TA-T
1 -T-ATT TATT TATT TAT-T TATT TATT TATT TA-TT TA-TT TATT TATT
491198 TATTT TATT TATT TATT
1 TA-TT TATT TATT TATT
491215 CTTATTGTTT
Statistics
Matches: 119, Mismatches: 9, Indels: 40
0.71 0.05 0.24
Matches are distributed among these distances:
3 36 0.30
4 58 0.49
5 22 0.18
6 3 0.03
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (4 bp):
TATT
Found at i:491116 original size:24 final size:24
Alignment explanation
Indices: 491061--491213 Score: 80
Period size: 24 Copynumber: 6.1 Consensus size: 24
491051 TATCAATATA
491061 TATATTTAATTATTTTTTATTATT
1 TATATTTAATTATTTTTTATTATT
* * *
491085 TATTTTTAATTATTTTTTCCTTCTT
1 TATATTTAATTATTTTTT-ATTATT
* *
491110 T-TATTTATTTATTATTATTACTTTTT
1 TATATTTAATTATT-TT-TTA-TTATT
* * * * *
491136 TAATATTT-ATTCTATTATAATATA
1 T-ATATTTAATTATTTTTTATTATT
*
491160 TATATATATATT-TTTATTTATTATT
1 TATATTTA-ATTATTT-TTTATTATT
*
491185 T-TATTTTATTTATTATTTTATTTATT
1 TATA-TTTAATTATT-TTTTATT-ATT
491211 TAT
1 TAT
491214 TCTTATTGTT
Statistics
Matches: 94, Mismatches: 21, Indels: 25
0.67 0.15 0.18
Matches are distributed among these distances:
23 5 0.05
24 36 0.38
25 30 0.32
26 14 0.15
27 4 0.04
28 5 0.05
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (24 bp):
TATATTTAATTATTTTTTATTATT
Found at i:491193 original size:17 final size:17
Alignment explanation
Indices: 491171--491214 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
491161 ATATATATAT
491171 TTTTATTTATTATTTTA
1 TTTTATTTATTATTTTA
491188 TTTTATTTATTATTTTA
1 TTTTATTTATTATTTTA
491205 -TTTATTTATT
1 TTTTATTTATT
491215 CTTATTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 10 0.37
17 17 0.63
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTATTTATTATTTTA
Found at i:491298 original size:16 final size:16
Alignment explanation
Indices: 491258--491310 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
491248 TATTATTTTC
* *
491258 TTTTCTTTTTTTAACAC
1 TTTTCTTTTTTT-ATAT
*
491275 TTTACTTTTTTTATAT
1 TTTTCTTTTTTTATAT
*
491291 TTTTCTTTTGTATATAT
1 TTTTCTTTT-TTTATAT
491308 TTT
1 TTT
491311 ATGTTCATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 10 0.33
17 20 0.67
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (16 bp):
TTTTCTTTTTTTATAT
Found at i:491387 original size:15 final size:14
Alignment explanation
Indices: 491357--491399 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
491347 TTAGTATCTG
491357 TTTTGTTTATTTAT
1 TTTTGTTTATTTAT
491371 TTTTGTTTATCTTA-
1 TTTTGTTTAT-TTAT
491385 TTTT-TTTATTTAT
1 TTTTGTTTATTTAT
491398 TT
1 TT
491400 CTTTTGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 3 0.11
13 7 0.26
14 14 0.52
15 3 0.11
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (14 bp):
TTTTGTTTATTTAT
Found at i:491404 original size:14 final size:13
Alignment explanation
Indices: 491357--491417 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 13
491347 TTAGTATCTG
*
491357 TTTTGTTTATTTA
1 TTTTTTTTATTTA
491370 TTTTTGTTTATCTTA
1 TTTTT-TTTAT-TTA
491385 -TTTTTTTATTTA
1 TTTTTTTTATTTA
491397 TTTCTTTTGT-TTTA
1 TTT-TTTT-TATTTA
491411 GTTTTTT
1 -TTTTTT
491418 AGTTTTATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
12 3 0.07
13 11 0.27
14 20 0.49
15 7 0.17
ACGTcount: A:0.11, C:0.03, G:0.07, T:0.79
Consensus pattern (13 bp):
TTTTTTTTATTTA
Found at i:491415 original size:27 final size:27
Alignment explanation
Indices: 491356--491432 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 27
491346 CTTAGTATCT
*
491356 GTTTTGTTTATTTATTTTTGTTTATCTTA
1 GTTTT-TTTATTTATTTCT-TTTATCTTA
* *
491385 -TTTTTTTATTTATTTCTTTTGTTTTA
1 GTTTTTTTATTTATTTCTTTTATCTTA
491411 G-TTTTTTAGTTTTATTTCTTTT
1 GTTTTTTTA--TTTATTTCTTTT
491433 TTTCTTTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
26 14 0.33
27 12 0.29
28 16 0.38
ACGTcount: A:0.12, C:0.04, G:0.08, T:0.77
Consensus pattern (27 bp):
GTTTTTTTATTTATTTCTTTTATCTTA
Found at i:492629 original size:79 final size:82
Alignment explanation
Indices: 492488--492637 Score: 225
Period size: 80 Copynumber: 1.9 Consensus size: 82
492478 AATCCAAATA
*
492488 TATGAAGAAAAACAAAACATTATCTTAAGAACGATGACTAACATCAAAAGAACCCATTAATATTC
1 TATGAAGAAAAACAAAACATTATCTTAAGAACGATGACTAACATCAAAAGAACCCAATAATATTC
*
492553 ATAAAAAACCTATTATC
66 ACAAAAAACCTATTATC
* * * *
492570 TATGAAGAAAAAC-GAA-ATTCTCTTGAGAATGATGACTAACATC-AAAGAACCCAATAATATTC
1 TATGAAGAAAAACAAAACATTATCTTAAGAACGATGACTAACATCAAAAGAACCCAATAATATTC
492632 ACAAAA
66 ACAAAA
492638 CTCATGTCTC
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
79 23 0.37
80 24 0.39
81 2 0.03
82 13 0.21
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.23
Consensus pattern (82 bp):
TATGAAGAAAAACAAAACATTATCTTAAGAACGATGACTAACATCAAAAGAACCCAATAATATTC
ACAAAAAACCTATTATC
Found at i:492890 original size:23 final size:23
Alignment explanation
Indices: 492847--492890 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
492837 TCTTGAGCGA
*
492847 GTACCAAAAACGATCTTAAAGGT
1 GTACCAAAAACGATCTAAAAGGT
*
492870 GTACTAAAAACGTATC-AAAAG
1 GTACCAAAAACG-ATCTAAAAG
492891 TTATAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (23 bp):
GTACCAAAAACGATCTAAAAGGT
Found at i:496407 original size:46 final size:48
Alignment explanation
Indices: 496339--496436 Score: 137
Period size: 46 Copynumber: 2.1 Consensus size: 48
496329 TTTATTTTCG
*
496339 TTTTTCGAATAAATGCATGCGAACTAGATATCATGCAGTTAGGTTTTA
1 TTTTTCGAATAAATGCATGCGAACTAGATATCATGCAGTTAGGATTTA
* * * *
496387 TTTTTCGAA-CAA-GCATGCGAATTAGATATCATGCGGTTAGGATTTC
1 TTTTTCGAATAAATGCATGCGAACTAGATATCATGCAGTTAGGATTTA
496433 TTTT
1 TTTT
496437 GAACAAAGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
46 34 0.76
47 2 0.04
48 9 0.20
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (48 bp):
TTTTTCGAATAAATGCATGCGAACTAGATATCATGCAGTTAGGATTTA
Found at i:508175 original size:17 final size:17
Alignment explanation
Indices: 508155--508188 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
508145 AATAAGACAT
508155 CACTTCATTAGAGACCA
1 CACTTCATTAGAGACCA
508172 CACTTCATTAGAGACCA
1 CACTTCATTAGAGACCA
508189 TGTCACTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (17 bp):
CACTTCATTAGAGACCA
Found at i:508604 original size:20 final size:20
Alignment explanation
Indices: 508578--508639 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
508568 ATTTTGGTGC
508578 AGAGGGAATCGATCCCCCCT
1 AGAGGGAATCGATCCCCCCT
* *
508598 TGAGGGAACCGATTCCCCCC-
1 AGAGGGAATCGA-TCCCCCCT
*
508618 ACAGGGGAATCGATACCCCCCT
1 AGA-GGGAATCGAT-CCCCCCT
508640 GGGGTTCTGG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
20 12 0.36
21 21 0.64
ACGTcount: A:0.24, C:0.37, G:0.24, T:0.15
Consensus pattern (20 bp):
AGAGGGAATCGATCCCCCCT
Found at i:508616 original size:21 final size:20
Alignment explanation
Indices: 508579--508617 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
508569 TTTTGGTGCA
*
508579 GAGGGAATCGATCCCCCCTT
1 GAGGGAACCGATCCCCCCTT
508599 GAGGGAACCGATTCCCCCC
1 GAGGGAACCGA-TCCCCCC
508618 ACAGGGGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.21, C:0.38, G:0.26, T:0.15
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCTT
Found at i:509524 original size:24 final size:24
Alignment explanation
Indices: 509497--509570 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
509487 GTCAAGCTAT
509497 ACCCCTAGCTCTCATGACACATAG
1 ACCCCTAGCTCTCATGACACATAG
* * *
509521 A-CCCTCGACTCTTGGCATGCCA-ACTAT
1 ACCCCTAG-CTC-T--CATGACACA-TAG
509548 ACCCCTAGCTCTCATGACACATA
1 ACCCCTAGCTCTCATGACACATA
509571 ACATGGGCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
23 5 0.13
24 12 0.32
25 2 0.05
26 2 0.05
27 12 0.32
28 5 0.13
ACGTcount: A:0.27, C:0.38, G:0.12, T:0.23
Consensus pattern (24 bp):
ACCCCTAGCTCTCATGACACATAG
Found at i:514257 original size:23 final size:23
Alignment explanation
Indices: 514231--514289 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
514221 CATATAAATA
*
514231 CACCGAAGTGCCACATAGAATTG
1 CACCGTAGTGCCACATAGAATTG
* * *
514254 CACCGTAGTACCGCGTAGAATTG
1 CACCGTAGTGCCACATAGAATTG
*
514277 CATCGTAGTGCCA
1 CACCGTAGTGCCA
514290 TATAATAATG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (23 bp):
CACCGTAGTGCCACATAGAATTG
Found at i:514436 original size:103 final size:103
Alignment explanation
Indices: 514305--514522 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
514295 TAATGTCCAT
* *
514305 AAGGACCACATATCATTCCTTAATAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTACGTGTCTCACCA
514370 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
514408 AAGGACAACATATCATTCCTTAAGAATCATATATATATACTAGGGATCAAGTACGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTACGTGTCTCACCA
514473 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
514511 AAAGACCACATA
1 AAGGACCACATA
514523 GACCCTCGAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTACGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:521187 original size:72 final size:72
Alignment explanation
Indices: 521070--521219 Score: 273
Period size: 72 Copynumber: 2.1 Consensus size: 72
521060 CCCTAACAGA
*
521070 TTCTTGATCAGTTGCTATCATCACATTGGCTGCACCACTAACATTCAGATTCTCACCCAAAGTCT
1 TTCTTGATCAGTTGCTATCATCACATTGGATGCACCACTAACATTCAGATTCTCACCCAAAGTCT
521135 TCATATT
66 TCATATT
* *
521142 TTCTTGATCATTTGCTATCATCACATTGGATGCACCACTAACATTCAGATTCTCACCCGAAGTCT
1 TTCTTGATCAGTTGCTATCATCACATTGGATGCACCACTAACATTCAGATTCTCACCCAAAGTCT
521207 TCATATT
66 TCATATT
521214 TTCTTG
1 TTCTTG
521220 TGTAATAGGG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 75 1.00
ACGTcount: A:0.25, C:0.27, G:0.11, T:0.37
Consensus pattern (72 bp):
TTCTTGATCAGTTGCTATCATCACATTGGATGCACCACTAACATTCAGATTCTCACCCAAAGTCT
TCATATT
Found at i:521975 original size:55 final size:55
Alignment explanation
Indices: 521881--522011 Score: 172
Period size: 55 Copynumber: 2.4 Consensus size: 55
521871 AACATCTTCA
* ** * *
521881 GGATGTCTTTCTTTGTGGATCGGTCTTCAATCAGTTTCAAATTTCTTCATTCATC
1 GGATGTCCTTCTTCATGAATCGGTCTTCAATCAGGTTCAAATTTCTTCATTCATC
* * *
521936 GGATGTCCTTCTTCATGAATCGTTCTTCAGTCAGGTTCAAATTTCTTCATTCGTC
1 GGATGTCCTTCTTCATGAATCGGTCTTCAATCAGGTTCAAATTTCTTCATTCATC
* *
521991 GAATGTTCTTCTTCATGAATC
1 GGATGTCCTTCTTCATGAATC
522012 ATCTGAATGC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (55 bp):
GGATGTCCTTCTTCATGAATCGGTCTTCAATCAGGTTCAAATTTCTTCATTCATC
Found at i:522359 original size:47 final size:46
Alignment explanation
Indices: 522299--522395 Score: 124
Period size: 45 Copynumber: 2.1 Consensus size: 46
522289 ATCTACCCCT
* * * *
522299 ATGCTTTGTTTGAACATTAAAACCCTAACCGCATGATATCTAATTCGC
1 ATGCTTTGCTTGAAAAAT-AAA-CCTAACCGCATGATATCTAATTCAC
*
522347 ATGC-TTGCTTGAAAAATAAACCTAACCGCATGATATCTAGTTCAC
1 ATGCTTTGCTTGAAAAATAAACCTAACCGCATGATATCTAATTCAC
522392 ATGC
1 ATGC
522396 ATTTATTCGA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
45 27 0.61
46 3 0.07
47 10 0.23
48 4 0.09
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (46 bp):
ATGCTTTGCTTGAAAAATAAACCTAACCGCATGATATCTAATTCAC
Found at i:527821 original size:109 final size:112
Alignment explanation
Indices: 527627--527847 Score: 385
Period size: 109 Copynumber: 2.0 Consensus size: 112
527617 GGATCCGCAT
*
527627 GAACATATAAACAATCATAATGTAAATTTCATTTATAAAACAATCTGACCCACAACTTATGTTCT
1 GAACATATAAACAATCATAATCTAAATTTCATTTATAAAACAATCTGACCCACAACTTATGTTCT
527692 CTCTTCATTTGAATTCTCACTTCCTGTCTTCTTAGAATATTTACAAA
66 CTCTTCATTTGAATTCTCACTTCCTGTCTTCTTAGAATATTTACAAA
*
527739 GAACATGTAAACAATCATAATCTAAA-TTCA-TT-TAAAACAATCTGACCCACAACTTATGTTCT
1 GAACATATAAACAATCATAATCTAAATTTCATTTATAAAACAATCTGACCCACAACTTATGTTCT
* *
527801 CTCTTCATTTGAATTCTCACTTCCTTTCTTCTTTGAATATTTACAAA
66 CTCTTCATTTGAATTCTCACTTCCTGTCTTCTTAGAATATTTACAAA
527848 TAATATACCA
Statistics
Matches: 105, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
109 75 0.71
110 2 0.02
111 4 0.04
112 24 0.23
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (112 bp):
GAACATATAAACAATCATAATCTAAATTTCATTTATAAAACAATCTGACCCACAACTTATGTTCT
CTCTTCATTTGAATTCTCACTTCCTGTCTTCTTAGAATATTTACAAA
Found at i:538495 original size:8 final size:8
Alignment explanation
Indices: 538482--538508 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
538472 AAAGATGAAG
538482 AAACATTA
1 AAACATTA
538490 AAACATTA
1 AAACATTA
538498 AAACATTA
1 AAACATTA
538506 AAA
1 AAA
538509 ATGCTAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (8 bp):
AAACATTA
Found at i:546013 original size:3 final size:3
Alignment explanation
Indices: 546000--546032 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
545990 TTTGCATACC
*
546000 ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
546033 TAGGCGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:546519 original size:17 final size:18
Alignment explanation
Indices: 546482--546522 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
546472 TAATATTGTA
*
546482 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
546500 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
546517 TTTACT
1 TTTACT
546523 AATATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:548198 original size:18 final size:18
Alignment explanation
Indices: 548175--548210 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
548165 ACAGCACCGT
*
548175 AGCCATTTATGATGCCGC
1 AGCCATATATGATGCCGC
548193 AGCCATATATGATGCCGC
1 AGCCATATATGATGCCGC
548211 CATCGCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (18 bp):
AGCCATATATGATGCCGC
Found at i:548562 original size:9 final size:9
Alignment explanation
Indices: 548548--548572 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
548538 TCTGCTCAGG
548548 ACGACGACA
1 ACGACGACA
548557 ACGACGACA
1 ACGACGACA
548566 ACGACGA
1 ACGACGA
548573 TGATGGTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.32, G:0.24, T:0.00
Consensus pattern (9 bp):
ACGACGACA
Found at i:554474 original size:21 final size:21
Alignment explanation
Indices: 554448--554510 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
554438 ATGTGAAATT
* *
554448 TGTCCCGAAGGACCTCATGTA
1 TGTCCCGAATGACCTCATATA
*
554469 TGTCCCGAATGACCTCTTATA
1 TGTCCCGAATGACCTCATATA
554490 TGTCCCGAATGACCTCATATA
1 TGTCCCGAATGACCTCATATA
554511 ACCCTCGACT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (21 bp):
TGTCCCGAATGACCTCATATA
Found at i:554822 original size:12 final size:12
Alignment explanation
Indices: 554790--554825 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
554780 AATGATCATA
554790 ATATATATAT--
1 ATATATATATGC
554800 ATATATATATGC
1 ATATATATATGC
554812 ATATATATATGC
1 ATATATATATGC
554824 AT
1 AT
554826 GTTCATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.42
12 14 0.58
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (12 bp):
ATATATATATGC
Found at i:557386 original size:35 final size:36
Alignment explanation
Indices: 557338--557406 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
557328 TAGGTCCATA
* *
557338 AGGAATTATCAGCTTGATT-GTGCTGAACCTGCATG
1 AGGAATTACCAGCTTGATTGGAGCTGAACCTGCATG
557373 AGGAATTACCAGCTTGATTGGAGCTGAACCTGCA
1 AGGAATTACCAGCTTGATTGGAGCTGAACCTGCA
557407 GAGACTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 18 0.58
36 13 0.42
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (36 bp):
AGGAATTACCAGCTTGATTGGAGCTGAACCTGCATG
Found at i:557679 original size:2 final size:2
Alignment explanation
Indices: 557672--557724 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
557662 CAAAACAGAA
557672 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
557714 AT AT AT AT AT A
1 AT AT AT AT AT A
557725 GCACACAAGG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:567721 original size:42 final size:41
Alignment explanation
Indices: 567675--567956 Score: 200
Period size: 42 Copynumber: 6.7 Consensus size: 41
567665 TCCAAGTTCG
*
567675 CGTTGCGA-TAGTCGAAGTTCGTGTTGCGATTTATTCCAAATT
1 CGTTGCGATTAGTCCAAGTTC--GTTGCGATTTATTCCAAATT
* * * * *
567717 CGTTGCGATTTATTCCAAATTCGTTCCGA--TAGTCCAAGTT
1 CGTTGCGA-TTAGTCCAAGTTCGTTGCGATTTATTCCAAATT
* * * *
567757 CGCGTTGCGATTTATTCCAAGTTCGTTGCGA--TAGTCGAAGTT
1 --CGTTGCGA-TTAGTCCAAGTTCGTTGCGATTTATTCCAAATT
* * * *
567799 CGCGTTGCGATTTATTCCAAATTTGTTGCGATTTATACCAAATT
1 --CGTTGCGA-TTAGTCCAAGTTCGTTGCGATTTATTCCAAATT
* *
567843 CGTTGAGA-TAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CGTTGCGATTAGTCCAAGTT--CGTTGCGATTTATTCCAAATT
* **
567885 CATTGCGA-TAGTTGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATTAGTCCAAGTT--CGTTGCGATTTATTCCAAATT
* *
567927 CGTTGCAATTTATTCCAAGTTCGTTGCGAT
1 CGTTGCGA-TTAGTCCAAGTTCGTTGCGAT
567957 AGTCGAAGTT
Statistics
Matches: 199, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
40 18 0.09
42 157 0.79
44 24 0.12
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTAGTCCAAGTTCGTTGCGATTTATTCCAAATT
Found at i:567784 original size:105 final size:105
Alignment explanation
Indices: 567665--568002 Score: 559
Period size: 105 Copynumber: 3.2 Consensus size: 105
567655 ATTGCGATAG
*
567665 TCCAAGTTCGCGTTGCGATAGTCGAAGTTCGTGTTGCGATTTATTCCAAATTCGTTGCGATTTAT
1 TCCAAGTT--CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTAT
*
567730 TCCAAATTCGTTCCGATAGTCCAAGTTCGCGTTGCGATTTAT
64 TCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
* *
567772 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTTGTTGCGATTTATAC
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTC
*
567837 CAAATTCGTTGAGATAGTCCAAGTTCGCGTTGCGATTTAT
66 CAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
* * *
567877 TCCAAGTTCATTGCGATAGTTGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCAATTTATTC
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTC
* *
567942 CAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
66 CAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
*
567982 TCCAAATTCGTTGCGATAGTC
1 TCCAAGTTCGTTGCGATAGTC
568003 CAAAATCGCA
Statistics
Matches: 215, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
105 207 0.96
107 8 0.04
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (105 bp):
TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTC
CAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
Found at i:567881 original size:63 final size:62
Alignment explanation
Indices: 567656--567872 Score: 260
Period size: 63 Copynumber: 3.5 Consensus size: 62
567646 CATATTCGCA
*
567656 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGTGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAGTTC-TGTTGCGATTTATTCCAAATTCG
* * * * *
567719 TTGCGATTTATTCCAAATT--CGTTCCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGA--TAGTCCAAGTTCGCGTTGCGATAGTCCAAGTTC-TGTTGCGATTTATTCCAAATTCG
* * * *
567782 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT-TGTTGCGATTTATACCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA--TAGTCCAAGTTCTGTTGCGATTTATTCCAAATTCG
*
567845 TTGAGATAGTCCAAGTTCGCGTTGCGAT
1 TTGCGATAGTCCAAGTTCGCGTTGCGAT
567873 TTATTCCAAG
Statistics
Matches: 131, Mismatches: 17, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
61 9 0.07
63 104 0.79
65 18 0.14
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (62 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAGTTCTGTTGCGATTTATTCCAAATTCG
Found at i:567910 original size:63 final size:63
Alignment explanation
Indices: 567780--567977 Score: 217
Period size: 63 Copynumber: 3.1 Consensus size: 63
567770 ATTCCAAGTT
* * * * *
567780 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTTGTTGCGATTTA-TACCAAATT-
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGA--TAGT-CGAAGTTC
567843 -
63 G
* * *
567843 CGTTGAGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCATTGCGATAGTTGAAGTTCG
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCG
* * *
567906 CGTTGCGATTTATTCCAAATT--CGTTGCAATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCG
1 CGTTGCGA--TAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCG
567969 CGTTGCGAT
1 CGTTGCGAT
567978 TTATTCCAAA
Statistics
Matches: 116, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
61 7 0.06
62 1 0.01
63 99 0.85
65 9 0.08
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (63 bp):
CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCG
Found at i:567978 original size:63 final size:63
Alignment explanation
Indices: 567864--567995 Score: 237
Period size: 63 Copynumber: 2.1 Consensus size: 63
567854 TCCAAGTTCG
* *
567864 CGTTGCGATTTATTCCAAGTTCATTGCGATAGTTGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCAATTTATTCCAAGTTCATTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
*
567927 CGTTGCAATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCAATTTATTCCAAGTTCATTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
567990 CGTTGC
1 CGTTGC
567996 GATAGTCCAA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (63 bp):
CGTTGCAATTTATTCCAAGTTCATTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:568585 original size:12 final size:12
Alignment explanation
Indices: 568565--568597 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
568555 TCTCGTCTCG
568565 GGTCATGGTCGT
1 GGTCATGGTCGT
*
568577 GGTCGTGGTCGT
1 GGTCATGGTCGT
568589 GGTCATGGT
1 GGTCATGGT
568598 AATACGTGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.15, G:0.45, T:0.33
Consensus pattern (12 bp):
GGTCATGGTCGT
Found at i:568739 original size:21 final size:21
Alignment explanation
Indices: 568715--568851 Score: 149
Period size: 21 Copynumber: 6.6 Consensus size: 21
568705 TTTGGAATAA
568715 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
*
568736 ATCGCAA--CGAA-TTCGGAAT
1 ATCGCAACGCGAACTTC-GACT
568755 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
* * **
568778 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
568797 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
*
568818 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
*
568839 ATCGCAATGCGAA
1 ATCGCAACGCGAA
568852 TATGTAAATC
Statistics
Matches: 96, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.03
19 22 0.23
21 61 0.64
23 7 0.07
24 3 0.03
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:568740 original size:42 final size:42
Alignment explanation
Indices: 568681--568826 Score: 251
Period size: 42 Copynumber: 3.5 Consensus size: 42
568671 ACCAGTCGTT
* *
568681 GCGAACTTTGACTATCGCAATGAATTTGGAATAAATCGCAAC
1 GCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAAC
*
568723 GCGAACTTCGACTATCGCAACGAATTCGGAATAAATCGCAAC
1 GCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAAC
568765 GCGAACTTCGACTATCGCAACGAATTTGG-A-AAATCGCAAC
1 GCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAAC
568805 GCGAACTTCGACTATCGCAACG
1 GCGAACTTCGACTATCGCAACG
568827 CGAACTTGGA
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 32 0.32
41 1 0.01
42 67 0.67
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (42 bp):
GCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAAC
Found at i:568851 original size:82 final size:83
Alignment explanation
Indices: 568680--568851 Score: 244
Period size: 82 Copynumber: 2.1 Consensus size: 83
568670 CACCAGTCGT
* *
568680 TGCGAACTTTGACTATCGCAATGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACG
1 TGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACG
568745 AATTCGGAATAAATCGCAA
66 AATTCGGAAT-AATCGCAA
*
568764 CGCGAACTTCGACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTCGACTATCGCAACG
1 TGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA--
*
568827 CGAACTT-GGACT-ATCGCAA
64 CGAA-TTCGGAATAATCGCAA
568846 TGCGAA
1 TGCGAA
568852 TATGTAAATC
Statistics
Matches: 80, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
82 42 0.52
83 1 0.01
84 35 0.44
85 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (83 bp):
TGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACG
AATTCGGAATAATCGCAA
Found at i:568890 original size:21 final size:21
Alignment explanation
Indices: 568866--568912 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
568856 TAAATCGCAA
568866 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGAAGTTCGCGT
*
568887 TGCGATAGTCGAAGTTCGCTT
1 TGCGATAGTCGAAGTTCGCGT
568908 TGCGA
1 TGCGA
568913 ATCTGGAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.30
Consensus pattern (21 bp):
TGCGATAGTCGAAGTTCGCGT
Found at i:586049 original size:2 final size:2
Alignment explanation
Indices: 586042--586085 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
586032 TCACAGAGGT
* * * *
586042 TA TA TA TA TA CA TA TA CA CA TA TA TG TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
586084 TA
1 TA
586086 CACGCAGAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (2 bp):
TA
Found at i:599256 original size:15 final size:15
Alignment explanation
Indices: 599220--599248 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
599210 CATCTTTCAA
599220 AGAGCCTGCTGGTCC
1 AGAGCCTGCTGGTCC
599235 AGAGCCTGCTGGTC
1 AGAGCCTGCTGGTC
599249 TAGGGCCTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.31, G:0.34, T:0.21
Consensus pattern (15 bp):
AGAGCCTGCTGGTCC
Found at i:604062 original size:52 final size:52
Alignment explanation
Indices: 603942--604049 Score: 180
Period size: 52 Copynumber: 2.1 Consensus size: 52
603932 TGAGTAAAAA
*
603942 AATTGAATCAGTCGAGTGTATGAGCATTATTTTATCATTCAAACTTCATTTT
1 AATTGAATCAGTCGAGTGTATGAGCATTATTTTATCATTCAAACTTCATTTG
* * *
603994 AATTGAATCAATCGAGTGTATGAGCATTATTTTATCATTCAAATTTTATTTG
1 AATTGAATCAGTCGAGTGTATGAGCATTATTTTATCATTCAAACTTCATTTG
604046 AATT
1 AATT
604050 TTTTTAGTCG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (52 bp):
AATTGAATCAGTCGAGTGTATGAGCATTATTTTATCATTCAAACTTCATTTG
Found at i:608221 original size:73 final size:74
Alignment explanation
Indices: 608067--608261 Score: 208
Period size: 73 Copynumber: 2.7 Consensus size: 74
608057 AAGCTAAAAA
* *
608067 CAGATTGCTCAGAGGGAACCGATTCCCCCCCATA--GG-ACCGATT-CCCCCTAAATGGTTTTGG
1 CAGAATGCTCGGAGGGAACCGA-TCCCCCCCA-AGGGGAACCGATTCCCCCCTAAA-GGTTTTGG
*
608128 CCCCGAGATTTC
63 CCCCGAGAATTC
* *
608140 CAGAATGCTC-GAGGGAACCGAT-TCCCCTATAGGTGGAACCGATTCCCCCCTAACA-GTTTT-G
1 CAGAATGCTCGGAGGGAACCGATCCCCCCCA-AGG-GGAACCGATTCCCCCCTAA-AGGTTTTGG
*
608201 CTCCGAGAATTC
63 CCCCGAGAATTC
* *
608213 CAGTATGCTCGGAGGGAACCGATCCCCCCCAAGGGGTACCGATTCCCCC
1 CAGAATGCTCGGAGGGAACCGATCCCCCCCAAGGGGAACCGATTCCCCC
608262 TTGTACAACG
Statistics
Matches: 105, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
70 7 0.07
71 1 0.01
72 11 0.10
73 45 0.43
74 27 0.26
75 13 0.12
76 1 0.01
ACGTcount: A:0.23, C:0.33, G:0.23, T:0.21
Consensus pattern (74 bp):
CAGAATGCTCGGAGGGAACCGATCCCCCCCAAGGGGAACCGATTCCCCCCTAAAGGTTTTGGCCC
CGAGAATTC
Found at i:613974 original size:21 final size:22
Alignment explanation
Indices: 613948--613997 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
613938 AGGGAATCGA
613948 TCCCCCCCTG-AGGGAACCAAT
1 TCCCCCCCTGAAGGGAACCAAT
** *
613969 TCCCCCTTTGAAGGGAACCGAT
1 TCCCCCCCTGAAGGGAACCAAT
613991 TCCCCCC
1 TCCCCCC
613998 ACAGGGGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.20, C:0.44, G:0.18, T:0.18
Consensus pattern (22 bp):
TCCCCCCCTGAAGGGAACCAAT
Found at i:615980 original size:30 final size:30
Alignment explanation
Indices: 615946--616017 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 30
615936 GGAGAAGAAT
* *
615946 AGGTGTTAAGTGTTAAATATAATAAATTGA
1 AGGTGTTAAATGTTAAACATAATAAATTGA
**
615976 AGGTGTTAAATGTTTTACATAATAAATTGA
1 AGGTGTTAAATGTTAAACATAATAAATTGA
616006 AGAAGTGTTAAA
1 AG--GTGTTAAA
616018 GTAAAGGGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 28 0.78
32 8 0.22
ACGTcount: A:0.43, C:0.01, G:0.19, T:0.36
Consensus pattern (30 bp):
AGGTGTTAAATGTTAAACATAATAAATTGA
Found at i:616469 original size:75 final size:76
Alignment explanation
Indices: 616328--616525 Score: 253
Period size: 75 Copynumber: 2.6 Consensus size: 76
616318 AATTACAGAT
* **
616328 TGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATT-CCCCCTAAATGGTTTTGGCCCC
1 TGCTCGGAGGGAACCGATT--CCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTTGGCCCC
*
616392 GAGATTTCCA-TAA
64 GAGAATTCCAGT-A
*
616405 TGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTT-GCTCCGA
1 TGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTTGGCCCCGA
616469 GAATTCCAGTA
66 GAATTCCAGTA
* * *
616480 TGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGA-TCCCCCCT
1 TGCTCGGAGGGAACCGAT-TCCCCCATAGGAGGAACCGATTCCCCCCT
616526 TGTAAACGTC
Statistics
Matches: 110, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
74 8 0.07
75 63 0.57
76 21 0.19
77 18 0.16
ACGTcount: A:0.23, C:0.33, G:0.24, T:0.20
Consensus pattern (76 bp):
TGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTTTTGGCCCCGA
GAATTCCAGTA
Found at i:617409 original size:31 final size:31
Alignment explanation
Indices: 617351--617445 Score: 86
Period size: 30 Copynumber: 3.1 Consensus size: 31
617341 AGAGTCGAGG
* *
617351 GTTTACCTATGTTC-TAAGGAACATATGGATA
1 GTTTACCTAGGTTCTTAAGG-ACCTATGGATA
* *
617382 GTTTACCTAGGTTCTTCAGGACCTATGGACA
1 GTTTACCTAGGTTCTTAAGGACCTATGGATA
* * * * *
617413 G-TTACCGAGGATCTTTATGACCTCTGGATA
1 GTTTACCTAGGTTCTTAAGGACCTATGGATA
617443 GTT
1 GTT
617446 ACAGACGATC
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
30 24 0.46
31 24 0.46
32 4 0.08
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTAAGGACCTATGGATA
Found at i:617435 original size:30 final size:30
Alignment explanation
Indices: 617374--617465 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 30
617364 CTAAGGAACA
* * * *
617374 TATGGATAGTTTACCTAGGTTCTTCAGGACC
1 TATGGATAG-TTACCGAGGATCTTTATGACC
*
617405 TATGGACAGTTACCGAGGATCTTTATGACC
1 TATGGATAGTTACCGAGGATCTTTATGACC
* * *
617435 TCTGGATAGTTACAGACGATCTTTATGACC
1 TATGGATAGTTACCGAGGATCTTTATGACC
617465 T
1 T
617466 GGATAGGTCC
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
30 44 0.85
31 8 0.15
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (30 bp):
TATGGATAGTTACCGAGGATCTTTATGACC
Found at i:618932 original size:83 final size:83
Alignment explanation
Indices: 618843--619672 Score: 887
Period size: 83 Copynumber: 10.0 Consensus size: 83
618833 TTATTGACAA
* * * * * * * * *
618843 ATAACCCTTCTTGCATTGAGCTAAGTTGTAAATGATTTGTCTCTGAGTTGAATGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
* **
618908 GAAGGTCTTTGACT-ATAG
66 GAAGGTCTTTG-TTGGCAG
* * * * * * *
618926 ATAACCCTTCTCGTCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGTTGAATGTAATCGAAC
1 ATAACCCTTCTTGCCTTGAGCTATGCTGCAAA--TGATGTGCCTTTGAGCTGAGTGTAATCGAAC
*
618991 TTGAAGGTCTTTTGTTGGCAG
64 TCGAAGGTC-TTTGTTGGCAG
* * ** *
619012 ATAGCCCTTCTCGCCTAAAGCTATGCTGCAAATGATGTGCCTTTGAGATGAGTGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
* *
619077 GCAGGTCTTTGTTGACAG
66 GAAGGTCTTTGTTGGCAG
* * * * * ** *
619095 ATAACTCTTCTAGCCTTGAGTTATGTTG-TAATGATACGCTTTTGAGCTGAGT-TAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
*
619158 GAAGCTCTTTTGTTGGCAG
66 GAAGGTC-TTTGTTGGCAG
* *
619177 ATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGGTGTGCCTTTGAGCTGAGTGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
** *
619242 GAAGGTCTTTGTTGATAT
66 GAAGGTCTTTGTTGGCAG
* * * ** * * *
619260 ATAACCCTTCTAGCCTTGAGTTATGTTTTAAATGATGCGCCTTTGAGCTGAGTAT-TTCGAACTC
1 ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
619324 G-AGGTCTTTTGTTGGCAG
66 GAAGGTC-TTTGTTGGCAG
* * * * *
619342 ATAGCCCTTATTGCCTTGAGCTATGCTGCAAATGATATGTCTTTGAGCTGATTGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
619407 GAAGGTCTTTGGTTGGCAG
66 GAAGGTCTTT-GTTGGCAG
* * * * * ** *
619426 ATAGCCCTTCTCGCCTTAAGTTATGCTACAAATGATGCACCTTTGAGCTGAGTATAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
* **
619491 GAAGGTCTTGGTTGATAG
66 GAAGGTCTTTGTTGGCAG
* * * * *
619509 ATAGCCCTTCTTTCCTTGAGCTATACTACAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
*
619574 GAAGGTCTTTTATTGGCAG
66 GAAGGTC-TTTGTTGGCAG
* *
619593 ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGATGAGTGTAATTGAACTC
1 ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
619658 GAAGGTCTTTTGTTG
66 GAAGGTC-TTTGTTG
619673 AAGGTGCTTT
Statistics
Matches: 620, Mismatches: 115, Indels: 23
0.82 0.15 0.03
Matches are distributed among these distances:
81 21 0.03
82 112 0.18
83 211 0.34
84 207 0.33
85 37 0.06
86 32 0.05
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (83 bp):
ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
GAAGGTCTTTGTTGGCAG
Found at i:619083 original size:84 final size:84
Alignment explanation
Indices: 618847--619672 Score: 905
Period size: 84 Copynumber: 9.9 Consensus size: 84
618837 TGACAAATAA
* * * * * * * * *
618847 CCCTTCTTGCATTGAGCTAAGTTGTAAATGATTTGTCTCTGAGTTGAATGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
* ** *
618912 GTC-TTTGACT-ATAGATAA
66 GTCTTTTG-TTGGCAGATAG
* * * * * * * *
618930 CCCTTCTCGTCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGTTGAATGTAATCGAACTTGA
1 CCCTTCTTGCCTTGAGCTATGCTGCAAA--TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGA
618995 AGGTCTTTTGTTGGCAGATAG
64 AGGTCTTTTGTTGGCAGATAG
* ** * *
619016 CCCTTCTCGCCTAAAGCTATGCTGCAAATGATGTGCCTTTGAGATGAGTGTAATCGAACTCGCAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
* *
619081 GTC-TTTGTTGACAGATAA
66 GTCTTTTGTTGGCAGATAG
* * * * * ** *
619099 CTCTTCTAGCCTTGAGTTATGTTG-TAATGATACGCTTTTGAGCTGAGT-TAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
*
619162 CTCTTTTGTTGGCAGATAG
66 GTCTTTTGTTGGCAGATAG
*
619181 CCCTTCTTGCCTTGAGCTATGCTGCAAATGGTGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
** * *
619246 GTC-TTTGTTGATATATAA
66 GTCTTTTGTTGGCAGATAG
* * * ** * * *
619264 CCCTTCTAGCCTTGAGTTATGTTTTAAATGATGCGCCTTTGAGCTGAGTAT-TTCGAACTCG-AG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
619327 GTCTTTTGTTGGCAGATAG
66 GTCTTTTGTTGGCAGATAG
* * * *
619346 CCCTTATTGCCTTGAGCTATGCTGCAAATGATATGTCTTTGAGCTGATTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
*
619411 GTCTTTGGTTGGCAGATAG
66 GTCTTTTGTTGGCAGATAG
* * * * ** *
619430 CCCTTCTCGCCTTAAGTTATGCTACAAATGATGCACCTTTGAGCTGAGTATAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
* **
619495 GTC-TTGGTTGATAGATAG
66 GTCTTTTGTTGGCAGATAG
* * * *
619513 CCCTTCTTTCCTTGAGCTATACTACAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
* *
619578 GTCTTTTATTGGCAGATAA
66 GTCTTTTGTTGGCAGATAG
* *
619597 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGATGAGTGTAATTGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
619662 GTCTTTTGTTG
66 GTCTTTTGTTG
619673 AAGGTGCTTT
Statistics
Matches: 617, Mismatches: 115, Indels: 21
0.82 0.15 0.03
Matches are distributed among these distances:
81 21 0.03
82 112 0.18
83 207 0.34
84 208 0.34
85 37 0.06
86 32 0.05
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (84 bp):
CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
GTCTTTTGTTGGCAGATAG
Found at i:619207 original size:165 final size:166
Alignment explanation
Indices: 618847--619672 Score: 978
Period size: 165 Copynumber: 5.0 Consensus size: 166
618837 TGACAAATAA
* * * * * * * *
618847 CCCTTCTTGCATTGAGCTAAGTTGTAAATGATTTGTCTCTGAGTTGAATGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAG
* * * * * ** *
618912 GTCTTTGACT-ATAGATAACCCTTCTCGTCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGT
66 GTCTTTG-TTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGT-AA--TGATGCGCCTTTGAGC
* *
618976 TGAATGTAATCGAACTTGAAGGTCTTTTGTTGGCAGATAG
127 TGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAG
* ** * * *
619016 CCCTTCTCGCCTAAAGCTATGCTGCAAATGATGTGCCTTTGAGATGAGTGTAATCGAACTCGCAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAG
* * *
619081 GTCTTTGTTGACAGATAACTCTTCTAGCCTTGAGTTATGTTGTAATGATACGCTTTTGAGCTGAG
66 GTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAATGATGCGCCTTTGAGCTGAG
*
619146 T-TAATCGAACTCGAAGCTCTTTTGTTGGCAGATAG
131 TGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAG
* *
619181 CCCTTCTTGCCTTGAGCTATGCTGCAAATGGTGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAG
* * *
619246 GTCTTTGTTGATATATAACCCTTCTAGCCTTGAGTTATGTTTTAAATGATGCGCCTTTGAGCTGA
66 GTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGT-AATGATGCGCCTTTGAGCTGA
* *
619311 GTAT-TTCGAACTCG-AGGTCTTTTGTTGGCAGATAG
130 GTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAG
* * *
619346 CCCTTATTGCCTTGAGCTATGCTGCAAATGATATGTCTTTGAGCTGATTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAG
* * * * *** *
619411 GTCTTTGGTTGGCAGATAGCCCTTCTCGCCTTAAGTTATGCTACAAATGATGCACCTTTGAGCTG
66 GTCTTT-GTTGACAGATAACCCTTCTAGCCTTGAGTTATG-TTGTAATGATGCGCCTTTGAGCTG
* * **
619476 AGTATAATCGAACTCGAAGGTC-TTGGTTGATAGATAG
129 AGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAG
* * *
619513 CCCTTCTTTCCTTGAGCTATACTACAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAG
* * * * * * * *
619578 GTCTTTTATTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGATG
66 GTC-TTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTG-TAATGATGCGCCTTTGAGCTG
*
619643 AGTGTAATTGAACTCGAAGGTCTTTTGTTG
129 AGTGTAATCGAACTCGAAGGTCTTTTGTTG
619673 AAGGTGCTTT
Statistics
Matches: 569, Mismatches: 78, Indels: 21
0.85 0.12 0.03
Matches are distributed among these distances:
165 216 0.38
166 98 0.17
167 151 0.27
168 17 0.03
169 87 0.15
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (166 bp):
CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAG
GTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAATGATGCGCCTTTGAGCTGAG
TGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAG
Found at i:621231 original size:30 final size:30
Alignment explanation
Indices: 621186--621258 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
621176 GGTTCTTCGG
* * * *
621186 GACCTATGGACAGTTACCTAGGATCTTTAT
1 GACCTCTGGATAGTTACCGACGATCTTTAT
621216 GACCTCTGGATAGTTACCGACGATCTTTAT
1 GACCTCTGGATAGTTACCGACGATCTTTAT
621246 GACCTCTGGATAG
1 GACCTCTGGATAG
621259 GTCCTTCGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGACGATCTTTAT
Found at i:623915 original size:2 final size:2
Alignment explanation
Indices: 623908--623949 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
623898 GAGTTTGGGG
623908 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
623950 TGTGATCATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:626453 original size:31 final size:31
Alignment explanation
Indices: 626395--626489 Score: 86
Period size: 31 Copynumber: 3.1 Consensus size: 31
626385 AGAGTCGAGG
* * * *
626395 GTTTACCTATGTTCTAAGGAACATATGGATA
1 GTTTACCTAGGTTCTTAGGGACCTATGGATA
* *
626426 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTAGGGACCTATGGATA
* * *
626457 G-TTACCTAGGATCTTTA-TGACCTCTGGATA
1 GTTTACCTAGGTTC-TTAGGGACCTATGGATA
626487 GTT
1 GTT
626490 ACAGACGATT
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
30 22 0.43
31 29 0.57
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTAGGGACCTATGGATA
Found at i:626479 original size:30 final size:30
Alignment explanation
Indices: 626418--626518 Score: 94
Period size: 30 Copynumber: 3.3 Consensus size: 30
626408 CTAAGGAACA
* ***
626418 TATGGATAGTTTACCTAGGTTCTTCGGGACC
1 TATGGATAG-TTACCTAGGATCTTTATGACC
*
626449 TATGGACAGTTACCTAGGATCTTTATGACC
1 TATGGATAGTTACCTAGGATCTTTATGACC
* ** *
626479 TCTGGATAGTTACAGACGATTCTTTATGACC
1 TATGGATAGTTACCTAGGA-TCTTTATGACC
*
626510 TCTGGATAG
1 TATGGATAG
626519 GTCCTTCGGG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 31 0.53
31 28 0.47
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (30 bp):
TATGGATAGTTACCTAGGATCTTTATGACC
Found at i:628133 original size:84 final size:84
Alignment explanation
Indices: 627899--628727 Score: 932
Period size: 84 Copynumber: 9.9 Consensus size: 84
627889 TGACAAATAA
* * * * * * * * *
627899 CCCTTCTTGCATTGAGCTAAGTTGTAAATGATTTGTCTCTGAGTTGAATGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
* * *
627964 GTC-TTTGACT-ACAGATAA
66 GTCTTTTG-TTGGCAGATAG
* * * * * * * *
627982 CCCTTCTCGTCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGTTGAATGTAATCGAACTTGA
1 CCCTTCTTGCCTTGAGCTATGCTGCAAA--TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGA
628047 AGGTCTTTTGTTGGCAGATAG
64 AGGTCTTTTGTTGGCAGATAG
* ** *
628068 CCCTTCTCGCCTAAAGCTATGCTGCAAATGATGTGCCTTTGAGATGAGTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
* *
628133 GTC-TTTGTTGACAGATAA
66 GTCTTTTGTTGGCAGATAG
* * * * * ** *
628151 CTCTTCTAGCCTTGAGTTATGTTGTAAATGATACGCTTTTGAGCTGAGT-TAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
*
628215 CTCTTTTGTTGGCAGATAG
66 GTCTTTTGTTGGCAGATAG
* *
628234 CCCTTCTTGCCTTGAGCTATGCTGCAAATGGTGTGCCTTTGAGCTGAGTGTAATCGAACTTGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
* * *
628299 GTC-TTTGTTGACATATAA
66 GTCTTTTGTTGGCAGATAG
* * * ** * * *
628317 CCCTTCTAGCCTTGAGTTATGTTTTAAATGATGCGCCTTTGAGCTAAGTGTATTCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
628382 GTCTTTTGTTGGCAGATAG
66 GTCTTTTGTTGGCAGATAG
* * ** *
628401 CCCTTATTGCCTTGAGCTATGCTGCAAATGATATATCTTTGAGCTGATTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
*
628466 GTCTTTGGTTGGCAGATAG
66 GTCTTTTGTTGGCAGATAG
* * * * ** *
628485 CCCTTCTCGCCTTAAGCTATGCTACAAATAATGCACCTTTGAGCTGAGTATAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
* **
628550 GTC-TTGGTTGATAGATAG
66 GTCTTTTGTTGGCAGATAG
* * * *
628568 CCCTTCTTTCCTTGAGCTATACTACAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
*
628633 GTCTTTTGTTGGCAGATAA
66 GTCTTTTGTTGGCAGATAG
* * * *
628652 CCCTTCTTGCCTTGAGTTATGCTGCAAATGATATGCCTTTGAGATGAGTGTAATTGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
628717 GTCTTTTGTTG
66 GTCTTTTGTTG
628728 AAGGTGTTTT
Statistics
Matches: 626, Mismatches: 112, Indels: 15
0.83 0.15 0.02
Matches are distributed among these distances:
82 17 0.03
83 268 0.43
84 271 0.43
85 37 0.06
86 33 0.05
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (84 bp):
CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
GTCTTTTGTTGGCAGATAG
Found at i:628447 original size:167 final size:167
Alignment explanation
Indices: 627899--628727 Score: 1052
Period size: 167 Copynumber: 5.0 Consensus size: 167
627889 TGACAAATAA
* * * * * * * *
627899 CCCTTCTTGCATTGAGCTAAGTTGTAAATGATTTGTCTCTGAGTTGAATGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAG
* * * * *
627964 GTCTTTGACT-ACAGATAACCCTTCTCGTCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGT
66 GTCTTTG-TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA--TGATACGCCTTTGAGC
* *
628028 TGAATGTAATCGAACTTGAAGGTCTTTTGTTGGCAGATAG
128 TGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAG
* ** * *
628068 CCCTTCTCGCCTAAAGCTATGCTGCAAATGATGTGCCTTTGAGATGAGTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAG
* * *
628133 GTCTTTGTTGACAGATAACTCTTCTAGCCTTGAGTTATGTTGTAAATGATACGCTTTTGAGCTGA
66 GTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATACGCCTTTGAGCTGA
*
628198 GT-TAATCGAACTCGAAGCTCTTTTGTTGGCAGATAG
131 GTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAG
* * *
628234 CCCTTCTTGCCTTGAGCTATGCTGCAAATGGTGTGCCTTTGAGCTGAGTGTAATCGAACTTGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAG
* * * * *
628299 GTCTTTGTTGACATATAACCCTTCTAGCCTTGAGTTATGTTTTAAATGATGCGCCTTTGAGCTAA
66 GTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATACGCCTTTGAGCTGA
*
628364 GTGTATTCGAACTCGAAGGTCTTTTGTTGGCAGATAG
131 GTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAG
* * * *
628401 CCCTTATTGCCTTGAGCTATGCTGCAAATGATATATCTTTGAGCTGATTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAG
* * * * * ** * * *
628466 GTCTTTGGTTGGCAGATAGCCCTTCTCGCCTTAAGCTATGCTACAAATAATGCACCTTTGAGCTG
66 GTCTTT-GTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATACGCCTTTGAGCTG
* * **
628531 AGTATAATCGAACTCGAAGGTC-TTGGTTGATAGATAG
130 AGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAG
* * *
628568 CCCTTCTTTCCTTGAGCTATACTACAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAG
* * * * *
628633 GTCTTTTGTTGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATATGCCTTTGAGATG
66 GTC-TTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATACGCCTTTGAGCTG
*
628698 AGTGTAATTGAACTCGAAGGTCTTTTGTTG
130 AGTGTAATCGAACTCGAAGGTCTTTTGTTG
628728 AAGGTGTTTT
Statistics
Matches: 574, Mismatches: 81, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
166 152 0.26
167 254 0.44
168 76 0.13
169 92 0.16
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (167 bp):
CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAG
GTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATACGCCTTTGAGCTGA
GTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAG
Found at i:628532 original size:251 final size:249
Alignment explanation
Indices: 627895--628727 Score: 981
Period size: 251 Copynumber: 3.3 Consensus size: 249
627885 TTATTGACAA
* * * * * * * *
627895 ATAACCCTTCTTGCATTGAGCTAAGTTGTAAATGATTTGTCTCTGAGTTGAATGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATATGTCTTTGAGCTGAGTGTAATCGAACTC
** * * * * *
627960 GAAGGTCTTTGACT-ACAGATAACCCTTCTCGTCTTGAGTTATGCTGTAAATTTGATATGCCTTT
66 GAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAA--T-A-ATGCCTTT
* * * * **
628024 GAGTTGAATGTAATCGAACTTGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCGCCTAAAGCTATG
127 GAGCTGAGTGTAATCGAACTTGAAGGTC-TTTGTTGACAGATAGCCCTTCTAGCCTTGAGCTATG
* * *
628089 CTGCAAATGATGTGCCTTTGAGATGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAG
191 CTACAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAG
* * * * * *
628147 ATAACTCTTCTAGCCTTGAGTTATGTTGTAAATGATACG-CTTTTGAGCTGAGT-TAATCGAACT
1 ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATATGTC-TTTGAGCTGAGTGTAATCGAACT
* * * **
628210 CGAAGCTCTTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGGTGTGCCTTTG
65 CGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAAT--AATGCCTTTG
* * * *
628275 AGCTGAGTGTAATCGAACTTGAAGGTCTTTGTTGACATATAACCCTTCTAGCCTTGAGTTATGTT
128 AGCTGAGTGTAATCGAACTTGAAGGTCTTTGTTGACAGATAGCCCTTCTAGCCTTGAGCTATGCT
** * * *
628340 TTAAATGATGCGCCTTTGAGCTAAGTGTATTCGAACTCGAAGGTCTTTTGTTGGCAG
193 ACAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAG
* * * *
628397 ATAGCCCTTATTGCCTTGAGCTATGCTGCAAATGATATATCTTTGAGCTGATTGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATATGTCTTTGAGCTGAGTGTAATCGAACTC
* *
628462 GAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGCCTTAAGCTATGCTACAAATAATGCACCTTTGA
66 GAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAATAATG--CCTTTGA
* * * * ** *
628527 GCTGAGTATAATCGAACTCGAAGGTCTTGGTTGATAGATAGCCCTTCTTTCCTTGAGCTATACTA
129 GCTGAGTGTAATCGAACTTGAAGGTCTTTGTTGACAGATAGCCCTTCTAGCCTTGAGCTATGCTA
*
628592 CAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAG
194 CAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAG
* * * *
628648 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATATGCCTTTGAGATGAGTGTAATTGAACTC
1 ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATATGTCTTTGAGCTGAGTGTAATCGAACTC
*
628713 GAAGGTCTTTTGTTG
66 GAAGGTCTTTGGTTG
628728 AAGGTGTTTT
Statistics
Matches: 491, Mismatches: 82, Indels: 17
0.83 0.14 0.03
Matches are distributed among these distances:
249 71 0.14
250 85 0.17
251 264 0.54
252 71 0.14
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (249 bp):
ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATATGTCTTTGAGCTGAGTGTAATCGAACTC
GAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAATAATGCCTTTGAGC
TGAGTGTAATCGAACTTGAAGGTCTTTGTTGACAGATAGCCCTTCTAGCCTTGAGCTATGCTACA
AATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAG
Found at i:636945 original size:59 final size:59
Alignment explanation
Indices: 636876--636998 Score: 149
Period size: 59 Copynumber: 2.1 Consensus size: 59
636866 AGGTAATCGT
* ** * * *
636876 TTTGTAACTTTTAATGGTCAAGGGACTCAACAAAGCAACT-TTCTATAATTGGGGGACTA
1 TTTGTAACTTTTAATAGTCAAGAAACTCAACAAAACAA-TATTATATAATTGGAGGACTA
** *
636935 TTTGTAACTTTTAATAGTTGAGAAACTCAACAAAACAATATTATATAGTTGGAGGACTA
1 TTTGTAACTTTTAATAGTCAAGAAACTCAACAAAACAATATTATATAATTGGAGGACTA
636994 TTTGT
1 TTTGT
636999 GCACTTTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 1 0.02
59 53 0.98
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (59 bp):
TTTGTAACTTTTAATAGTCAAGAAACTCAACAAAACAATATTATATAATTGGAGGACTA
Found at i:645365 original size:14 final size:15
Alignment explanation
Indices: 645341--645371 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
645331 AGCTTCAAAG
645341 TGTGAAATGTGATAA
1 TGTGAAATGTGATAA
645356 TGTG-AATGTGATAA
1 TGTGAAATGTGATAA
645370 TG
1 TG
645372 GCTCTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (15 bp):
TGTGAAATGTGATAA
Found at i:651774 original size:10 final size:9
Alignment explanation
Indices: 651743--651821 Score: 77
Period size: 10 Copynumber: 8.3 Consensus size: 9
651733 CTGGTTTTCA
651743 ACCGGTTCTG
1 ACCGGTT-TG
*
651753 ATCGGTTTG
1 ACCGGTTTG
651762 ACCGGTTTCG
1 ACCGGTTT-G
*
651772 ACCGGTTCG
1 ACCGGTTTG
*
651781 AACCGGCTTG
1 -ACCGGTTTG
*
651791 ACCGGTCTG
1 ACCGGTTTG
651800 AACCGGTTTG
1 -ACCGGTTTG
*
651810 ACCGGTCTG
1 ACCGGTTTG
651819 ACC
1 ACC
651822 CGACCCGACC
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
9 28 0.49
10 29 0.51
ACGTcount: A:0.14, C:0.29, G:0.30, T:0.27
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:651777 original size:19 final size:19
Alignment explanation
Indices: 651742--651819 Score: 88
Period size: 19 Copynumber: 4.1 Consensus size: 19
651732 ACTGGTTTTC
* *
651742 AACCGGTTCTGATCGGTTTG
1 AACCGGTT-TGACCGGTCTG
651762 -ACCGGTTTCGACCGGT-TCG
1 AACCGGTTT-GACCGGTCT-G
*
651781 AACCGGCTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
651800 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
651819 A
1 A
651820 CCCGACCCGA
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
18 2 0.04
19 41 0.80
20 8 0.16
ACGTcount: A:0.15, C:0.27, G:0.31, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:651777 original size:29 final size:29
Alignment explanation
Indices: 651723--651821 Score: 87
Period size: 29 Copynumber: 3.4 Consensus size: 29
651713 AGGGCTGGAA
* * *
651723 ACCGGTTAGACTGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TTTCGACCGGTTCTG
*
651753 ATCGGTTTGACCGGTTTCGACCGGTTC-G
1 ACCGGTTTGACCGGTTTCGACCGGTTCTG
* *
651781 AACCGGCTTGACCGGTCT-GAACCGGTT-TG
1 -ACCGGTTTGACCGGTTTCG-ACCGGTTCTG
*
651810 ACCGGTCTGACC
1 ACCGGTTTGACC
651822 CGACCCGACC
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
28 12 0.21
29 34 0.60
30 11 0.19
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.28
Consensus pattern (29 bp):
ACCGGTTTGACCGGTTTCGACCGGTTCTG
Found at i:651840 original size:7 final size:7
Alignment explanation
Indices: 651828--651858 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
651818 GACCCGACCC
651828 GACCGTT
1 GACCGTT
651835 GACCGTT
1 GACCGTT
651842 GACCGTT
1 GACCGTT
651849 GACCGTT
1 GACCGTT
651856 GAC
1 GAC
651859 TTCTTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:658917 original size:10 final size:9
Alignment explanation
Indices: 658892--658950 Score: 64
Period size: 9 Copynumber: 6.3 Consensus size: 9
658882 AAGGCTGGAA
658892 ACCGGTTTG
1 ACCGGTTTG
658901 ACCGGTTCTG
1 ACCGGTT-TG
*
658911 ACTGGTTTG
1 ACCGGTTTG
**
658920 ACCGGTTCAA
1 ACCGGTT-TG
658930 ACCGGTTTG
1 ACCGGTTTG
*
658939 ACCGGTCTG
1 ACCGGTTTG
658948 ACC
1 ACC
658951 CGACCCGACT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
9 26 0.63
10 15 0.37
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:658919 original size:19 final size:19
Alignment explanation
Indices: 658892--658950 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
658882 AAGGCTGGAA
658892 ACCGGTTTGACCGGTTCTG
1 ACCGGTTTGACCGGTTCTG
* **
658911 ACTGGTTTGACCGGTTCAA
1 ACCGGTTTGACCGGTTCTG
658930 ACCGGTTTGACCGG-TCTG
1 ACCGGTTTGACCGGTTCTG
658948 ACC
1 ACC
658951 CGACCCGACT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
18 5 0.15
19 29 0.85
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.29
Consensus pattern (19 bp):
ACCGGTTTGACCGGTTCTG
Found at i:658957 original size:5 final size:5
Alignment explanation
Indices: 658947--658984 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
658937 TGACCGGTCT
*
658947 GACCC GACCC GA-CT GACCC GACCC GACCC GACCC GACC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACC
658985 GTTGACCGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 3 0.10
5 27 0.90
ACGTcount: A:0.21, C:0.55, G:0.21, T:0.03
Consensus pattern (5 bp):
GACCC
Found at i:658962 original size:14 final size:15
Alignment explanation
Indices: 658945--658984 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
658935 TTTGACCGGT
658945 CTGACCCGACCCGA-
1 CTGACCCGACCCGAC
658959 CTGACCCGACCCGAC
1 CTGACCCGACCCGAC
*
658974 CCGACCCGACC
1 CTGACCCGACC
658985 GTTGACCGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.20, C:0.55, G:0.20, T:0.05
Consensus pattern (15 bp):
CTGACCCGACCCGAC
Found at i:659005 original size:6 final size:7
Alignment explanation
Indices: 658981--659017 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
658971 GACCCGACCC
658981 GACCGTT
1 GACCGTT
658988 GACCGTT
1 GACCGTT
658995 GACCG-T
1 GACCGTT
659001 GACCGTT
1 GACCGTT
*
659008 GAACGTT
1 GACCGTT
659015 GAC
1 GAC
659018 TTCCTTTGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.19, C:0.27, G:0.30, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:659005 original size:13 final size:14
Alignment explanation
Indices: 658981--659017 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
658971 GACCCGACCC
658981 GACCGTTGACCGTT
1 GACCGTTGACCGTT
658995 GACCG-TGACCGTT
1 GACCGTTGACCGTT
*
659008 GAACGTTGAC
1 GACCGTTGAC
659018 TTCCTTTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.19, C:0.27, G:0.30, T:0.24
Consensus pattern (14 bp):
GACCGTTGACCGTT
Found at i:660704 original size:21 final size:21
Alignment explanation
Indices: 660671--660719 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
660661 AATATTTGTT
*
660671 TAAAAATTAATTAT-TTAATAA
1 TAAATATTAATTATATT-ATAA
* *
660692 TAAATATTTATTATATTCTAA
1 TAAATATTAATTATATTATAA
660713 TAAATAT
1 TAAATAT
660720 CACGATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TAAATATTAATTATATTATAA
Found at i:662948 original size:25 final size:25
Alignment explanation
Indices: 662920--662969 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
662910 ATTAAGGTTT
*
662920 TTAGGGTTTGTTGTAAATTGAATAA
1 TTAGGGGTTGTTGTAAATTGAATAA
662945 TTAGGGGTTGTTGTAAATTGAATAA
1 TTAGGGGTTGTTGTAAATTGAATAA
662970 GAAGAATAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (25 bp):
TTAGGGGTTGTTGTAAATTGAATAA
Found at i:664642 original size:23 final size:24
Alignment explanation
Indices: 664616--664661 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
664606 GATTAAATTA
664616 TAAATGTA-TAATAATAA-TAATCC
1 TAAA-GTACTAATAATAATTAATCC
*
664639 TAAAGTACTATTAATAATTAATC
1 TAAAGTACTAATAATAATTAATC
664662 ATATAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 12 0.60
24 5 0.25
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (24 bp):
TAAAGTACTAATAATAATTAATCC
Found at i:666380 original size:88 final size:86
Alignment explanation
Indices: 666214--666428 Score: 278
Period size: 88 Copynumber: 2.5 Consensus size: 86
666204 TGAAGGCTGA
* * *
666214 GGATGACTTGCAAATGATTTGCTTCACTATTCTTCCGTGAAGGCTGAATTTGCATTACTTCACTA
1 GGATGACTTGAAAATGATTTGCTTCACTATTCTTCTGTGAAGGCTGAATTTGCATTACTCCACTA
* * *
666279 CTGTTCCGTGAAGGTTGATCTT
66 CTCTTCCATGAAGGTTGA-ATT
*
666301 GGATGACTTGAAAATGATTTGCATCACTATTCTTCTTGTGAAGGCTGAATATT-CATTACTCCAC
1 GGATGACTTGAAAATGATTTGCTTCACTATTCTTC-TGTGAAGGCTGAAT-TTGCATTACTCCAC
666365 TACTCTTCCATGAAGGTTGAATT
64 TACTCTTCCATGAAGGTTGAATT
* *
666388 ---TG-CATTAAAAATGAATTGCTTCACTATTCTTCTGTGAAGGC
1 GGATGAC-TTGAAAATGATTTGCTTCACTATTCTTCTGTGAAGGC
666429 CGAGGATAAC
Statistics
Matches: 115, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
83 10 0.09
84 27 0.23
87 35 0.30
88 41 0.36
89 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (86 bp):
GGATGACTTGAAAATGATTTGCTTCACTATTCTTCTGTGAAGGCTGAATTTGCATTACTCCACTA
CTCTTCCATGAAGGTTGAATT
Found at i:666836 original size:189 final size:190
Alignment explanation
Indices: 666516--666862 Score: 493
Period size: 189 Copynumber: 1.8 Consensus size: 190
666506 AAGAATCTAA
* * * *
666516 TTTCACTACTCTTCCATGAAGATCAGACTTGAAGTTGTGTTACTTCACTACTCGTTCATGAAGAT
1 TTTCACTACTCTTCCATGAAAATCAGACTCGAAATCGTGTTACTTCACTACTCGTTCATGAAGAT
* * * *
666581 TTCATACTTTGCTGAAAAATCTGTTCCACTATTTTTCCATGGAGAGCGAATTTTGATCTTGCTCT
66 TCCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCATGGAGAGCGAATTTTGATCTTGCTCT
666646 TGCTTCACTA-TATTCTGTAAAGGCTGAGGATAATTTACAAATGATTTGAACAAAATCTG
131 TGCTTCACTACTATTCTGTAAAGGCTGAGGATAATTTACAAATGATTTGAACAAAATCTG
* * *
666705 TTTCACTACTCTTTCGTGAAAATCAGACTCGAAATCG-GATTACTTCACTACTC-TTCCGTGAAG
1 TTTCACTACTCTTCCATGAAAATCAGACTCGAAATCGTG-TTACTTCACTACTCGTT-CATGAAG
* ** *
666768 GTTCCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCTGTGGAGAGCGATTTTTGATCTTGCT
64 ATTCCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCATGGAGAGCGAATTTTGATCTTGCT
* * *
666833 CTTGCTTTACTACTCTTCTGTGAAGGCTGA
129 CTTGCTTCACTACTATTCTGTAAAGGCTGA
666863 AGATGACTTG
Statistics
Matches: 137, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
188 3 0.02
189 119 0.87
190 15 0.11
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.37
Consensus pattern (190 bp):
TTTCACTACTCTTCCATGAAAATCAGACTCGAAATCGTGTTACTTCACTACTCGTTCATGAAGAT
TCCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCATGGAGAGCGAATTTTGATCTTGCTCT
TGCTTCACTACTATTCTGTAAAGGCTGAGGATAATTTACAAATGATTTGAACAAAATCTG
Found at i:666992 original size:131 final size:131
Alignment explanation
Indices: 666833--667082 Score: 410
Period size: 131 Copynumber: 1.9 Consensus size: 131
666823 TGATCTTGCT
* *
666833 CTTGCTTTACTACTCTTCTGTGAAGGCTGAAGATGACTTGAAAATGATTTGCTTCACTACTCTTC
1 CTTGCTTCACTACTCTTCTGTAAAGGCTGAAGATGACTTGAAAATGATTTGCTTCACTACTCTTC
*
666898 TTGTGAAGGCTGAATTTGCATTACTCCACTACTCATCCGTGAAGGTTGATCTTGCATTAAAAATA
66 CTGTGAAGGCTGAATTTGCATTACTCCACTACTCATCCGTGAAGGTTGATCTTGCATTAAAAATA
666963 A
131 A
* * ** *
666964 CTTGCTTCACTATTCTTCTGTAAAGGCTGAGGATGACTTGCGAATGATTTGCTTTACTACTCTTC
1 CTTGCTTCACTACTCTTCTGTAAAGGCTGAAGATGACTTGAAAATGATTTGCTTCACTACTCTTC
* *
667029 CTGTGAAGGCTGAATTTTCATTACTCCACTACTCTTCCGTGAAGGTTGATCTTG
66 CTGTGAAGGCTGAATTTGCATTACTCCACTACTCATCCGTGAAGGTTGATCTTG
667083 GATGACTTGA
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
131 109 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (131 bp):
CTTGCTTCACTACTCTTCTGTAAAGGCTGAAGATGACTTGAAAATGATTTGCTTCACTACTCTTC
CTGTGAAGGCTGAATTTGCATTACTCCACTACTCATCCGTGAAGGTTGATCTTGCATTAAAAATA
A
Found at i:667750 original size:6 final size:6
Alignment explanation
Indices: 667739--667763 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
667729 GCGATTTTGA
667739 TCTTGC TCTTGC TCTTGC TCTTGC T
1 TCTTGC TCTTGC TCTTGC TCTTGC T
667764 TCACTACACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.16, T:0.52
Consensus pattern (6 bp):
TCTTGC
Found at i:672082 original size:14 final size:14
Alignment explanation
Indices: 672063--672102 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
672053 AATGGGCATT
*
672063 TTTGAAAAACTATG
1 TTTGAAAAACAATG
672077 TTTG-AAAACAATG
1 TTTGAAAAACAATG
*
672090 TTTGAAAATCAAT
1 TTTGAAAAACAAT
672103 ATGTAGCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.35
Consensus pattern (14 bp):
TTTGAAAAACAATG
Found at i:684063 original size:33 final size:35
Alignment explanation
Indices: 684008--684079 Score: 96
Period size: 33 Copynumber: 2.1 Consensus size: 35
683998 TAATTACTAA
*
684008 ATAATATTTAACATAAATATTAT-TA-ATTACATT
1 ATAATATTTAACATAAATATTATATAGATTAAATT
*
684041 ATAATATTTAATATCAAA-ATTATATAGATTAAATT
1 ATAATATTTAACAT-AAATATTATATAGATTAAATT
684076 ATAA
1 ATAA
684080 ATTATGTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 18 0.53
34 5 0.15
35 11 0.32
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (35 bp):
ATAATATTTAACATAAATATTATATAGATTAAATT
Found at i:689085 original size:17 final size:18
Alignment explanation
Indices: 689057--689099 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
689047 TATGTAGTCC
689057 TTCGGG-CATAGTGGT-A
1 TTCGGGACATAGTGGTCA
689073 TTCGGGACATAGTGGTCA
1 TTCGGGACATAGTGGTCA
689091 TTCGGGACA
1 TTCGGGACA
689100 AATTTTAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 6 0.24
17 9 0.36
18 10 0.40
ACGTcount: A:0.21, C:0.16, G:0.35, T:0.28
Consensus pattern (18 bp):
TTCGGGACATAGTGGTCA
Found at i:693791 original size:3 final size:3
Alignment explanation
Indices: 693783--693814 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
693773 TAAGGGAAAG
693783 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
693815 TGATAGGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:695819 original size:35 final size:35
Alignment explanation
Indices: 695773--695844 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
695763 TGTGTTGAAT
*
695773 CAATATTTGTGGTATCGTCATATTCACATCAACAC
1 CAATATTTGTGGTATCATCATATTCACATCAACAC
*
695808 CAATATTTGTGGTATCATCATATTCACATGAACAC
1 CAATATTTGTGGTATCATCATATTCACATCAACAC
695843 CA
1 CA
695845 TCCTAATGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (35 bp):
CAATATTTGTGGTATCATCATATTCACATCAACAC
Found at i:697842 original size:35 final size:35
Alignment explanation
Indices: 697796--697867 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
697786 TGTGTTGAAT
*
697796 CAATATTTGTGGTATCGTCATATTCACATCAACAC
1 CAATATTTGTGGTATCATCATATTCACATCAACAC
* * *
697831 CAATATTTGTGGTATCATGATATTTACATGAACAC
1 CAATATTTGTGGTATCATCATATTCACATCAACAC
697866 CA
1 CA
697868 TCCTAATGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (35 bp):
CAATATTTGTGGTATCATCATATTCACATCAACAC
Found at i:700007 original size:22 final size:21
Alignment explanation
Indices: 699982--700025 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
699972 TTTATTGATG
699982 ATTT-AATTTTGTATTCTTTAAA
1 ATTTAAATTTT-TATT-TTTAAA
700004 ATTTAAAATTTTTATTTTTAAA
1 ATTT-AAATTTTTATTTTTAAA
700026 TTTCTAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 10 0.50
23 4 0.20
24 6 0.30
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
ATTTAAATTTTTATTTTTAAA
Found at i:701542 original size:24 final size:24
Alignment explanation
Indices: 701508--701553 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
701498 CATTAGTGAG
*
701508 TTAGTGGGTTACTCACTTATTGGA
1 TTAGTGAGTTACTCACTTATTGGA
701532 TTAGTGAGTTACTCACTTATTG
1 TTAGTGAGTTACTCACTTATTG
701554 ACCTGAAGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.43
Consensus pattern (24 bp):
TTAGTGAGTTACTCACTTATTGGA
Found at i:704059 original size:24 final size:24
Alignment explanation
Indices: 704032--704085 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
704022 AAATATTAAC
*
704032 AATAATATTAACG-TATCATTATAA
1 AATAATACTAA-GTTATCATTATAA
*
704056 AATAATACTAAGTTATTATTATAA
1 AATAATACTAAGTTATCATTATAA
704080 AA-AATA
1 AATAATA
704086 AAAATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AATAATACTAAGTTATCATTATAA
Found at i:707336 original size:23 final size:23
Alignment explanation
Indices: 707264--707336 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
707254 ATACTTTACA
*
707264 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* * *
707287 ATAAAAACGCTACATATTACATT
1 ATATAAGCGCTACCTATTACATT
*
707310 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
707333 ATAT
1 ATAT
707337 TTTTACCTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:707778 original size:23 final size:23
Alignment explanation
Indices: 707743--707838 Score: 165
Period size: 23 Copynumber: 4.2 Consensus size: 23
707733 ATACTTTACA
*
707743 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
707766 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
707789 ATATAAGCGCTACTTATTACATT
1 ATATAAGCGCTACCTATTACATT
707812 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
707835 ATAT
1 ATAT
707839 TAGAGGTCGG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:710185 original size:178 final size:180
Alignment explanation
Indices: 709632--710421 Score: 1409
Period size: 178 Copynumber: 4.4 Consensus size: 180
709622 TACTTAAAAT
709632 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG--TA
*
709697 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
64 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
709762 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
129 CGACACTTTTTGACAAGGTATCGACACA-TTTTCTTCCAATCTGGACATAAAG
709815 TACCGACAC-ATATTAAAAAGTGTCGATATAGGTTGTAGACCTATT-GCTCATAAAACCGGTATT
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATT
*
709878 TATACCGG-T-TATTACAAAATTATCTATTACATTATAATTCTGAGTT-CGATGTGTAAATGTCG
66 TATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCG
709940 ACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 ACACTTTTTGACAAGGTATCGACACA-TTTTCTTCCAATCTGGACATAAAG
709991 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATT
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATT
710056 TATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCG
66 TATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCG
710121 ACACTTTTTGACAAGGTATCGTACACA-TTT-TTCCAATCTGGACATAAAG
131 ACACTTTTTGACAAGGTATCG-ACACATTTTCTTCCAATCTGGACATAAAG
710170 TACCGACAC-ATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATT
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATT
*
710234 TATACCGGTTAAATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCG
66 TATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCG
*
710299 ACACTTTTTGACAAGGT-TCGACACATTTTTATTCCAATCTGGACATAAAG
131 ACACTTTTTGACAAGGTATCGACACA-TTTTCTTCCAATCTGGACATAAAG
710349 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG--TA
710414 TTTATACC
64 TTTATACC
710422 TGTTTGCCAT
Statistics
Matches: 591, Mismatches: 4, Indels: 25
0.95 0.01 0.04
Matches are distributed among these distances:
176 81 0.14
177 74 0.13
178 166 0.28
179 69 0.12
180 90 0.15
181 51 0.09
182 51 0.09
183 9 0.02
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (180 bp):
TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATT
TATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCG
ACACTTTTTGACAAGGTATCGACACATTTTCTTCCAATCTGGACATAAAG
Found at i:710370 original size:358 final size:357
Alignment explanation
Indices: 709632--710421 Score: 1453
Period size: 358 Copynumber: 2.2 Consensus size: 357
709622 TACTTAAAAT
709632 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG-ATA
709697 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
65 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
709762 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACATA
130 CGACACTTTTTGACAAGGTATCGACACA-TTTTCTTCCAATCTGGACATAAAGTACCGACACATA
709827 TTAAAAAGTGTCGATATAGGTTGTAGACCTATTGCTCATAAAACCGGTATTTATACCGGTTATTA
194 TTAAAAAGTGTCGATATAGGTTGTAGACCTATTGCTCATAAAACCGGTATTTATACCGGTTATTA
709892 CAAAATTATCTATTACATTATAATTCTGAGTTCGATGTGTAAATGTCGACACTTTTTGACAAGGT
259 CAAAATTATCTATTACATTATAATTCTGAGTTCGATGTGTAAATGTCGACACTTTTTGACAAGGT
*
709957 ATCGACACATTTTTCTTCCAATCTGGACATAAAG
324 ATCGACACATTTTTATTCCAATCTGGACATAAAG
709991 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG-TAT
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGATAT
*
710055 TTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTC
66 TTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTC
710120 GACACTTTTTGACAAGGTATCGTACACA-TTT-TTCCAATCTGGACATAAAGTACCGACACATAT
131 GACACTTTTTGACAAGGTATCG-ACACATTTTCTTCCAATCTGGACATAAAGTACCGACACATAT
710183 TAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATTTATACCGGTTAAAT
195 TAAAAAGTGTCGATATAGGTTGTAGACCTATT-GCTCATAAAACCGGTATTTATACCGGTT--AT
*
710248 TACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAA
257 TACAAAATTATCTATTACATTATAATTCTGAGTT-CGATGTGTAAATGTCGACACTTTTTGACAA
710313 GGT-TCGACACATTTTTATTCCAATCTGGACATAAAG
321 GGTATCGACACATTTTTATTCCAATCTGGACATAAAG
710349 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG-ATA
710414 TTTATACC
65 TTTATACC
710422 TGTTTGCCAT
Statistics
Matches: 421, Mismatches: 3, Indels: 13
0.96 0.01 0.03
Matches are distributed among these distances:
355 64 0.15
356 31 0.07
357 89 0.21
358 133 0.32
359 94 0.22
360 10 0.02
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (357 bp):
TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGATAT
TTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTC
GACACTTTTTGACAAGGTATCGACACATTTTCTTCCAATCTGGACATAAAGTACCGACACATATT
AAAAAGTGTCGATATAGGTTGTAGACCTATTGCTCATAAAACCGGTATTTATACCGGTTATTACA
AAATTATCTATTACATTATAATTCTGAGTTCGATGTGTAAATGTCGACACTTTTTGACAAGGTAT
CGACACATTTTTATTCCAATCTGGACATAAAG
Found at i:710930 original size:196 final size:200
Alignment explanation
Indices: 710420--711180 Score: 1342
Period size: 196 Copynumber: 3.8 Consensus size: 200
710410 TATATTTATA
*
710420 CCTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACTACAAAAGTGTCGATACATTATT
1 CCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGATACATTATT
*
710485 TAGACCTATTCTCTCATAAAATCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACAT
66 TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACAT
710550 TATACTTTTGGGTTTCGATGTTTATGGGATCGACAC-TTTTATATATGGATCGACAC-TTATGGT
131 TATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATGGT
710613 TGCAC
196 TGCAC
* *
710618 CCTGTTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGACATATTAT
1 CCTG-TTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGATACATTAT
* *
710683 TTAGACCTATTCTCTCAT-AAATCGGTATAC-TGTACCGG-TAGATTAAAAAATTACATATTACA
65 TTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACA
710745 TTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATGG
130 TTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATGG
710810 TTGCAC
195 TTGCAC
* *
710816 CCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACTAACTACAAAAGTGTCGATACATTATT
1 CCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGATACATTATT
710881 TAGACCTA-T-TCTCATAAAACCGGT-TAC-TGTACCGGTTAGATTGAAAAATTACATATTACAT
66 TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACAT
*
710942 TATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGAATCGACACTTTATGGT
131 TATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATGGT
711007 TGCAC
196 TGCAC
711012 CCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGATACATTATT
1 CCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGATACATTATT
* * *
711077 TAGACCTATTCTCTCATAAAACCGGTACACTTGTACCGATTAGATTGAAAAATTACCTATTACAT
66 TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACAT
711142 TATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTT
131 TATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTT
711181 ATGGTTGCAC
Statistics
Matches: 538, Mismatches: 16, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
195 17 0.03
196 232 0.43
197 94 0.17
198 47 0.09
199 77 0.14
200 71 0.13
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (200 bp):
CCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGATACATTATT
TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACAT
TATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATGGT
TGCAC
Found at i:711152 original size:396 final size:396
Alignment explanation
Indices: 710420--711180 Score: 1334
Period size: 396 Copynumber: 1.9 Consensus size: 396
710410 TATATTTATA
710420 CCTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACTACAAAAGTGTCGATACATTATT
1 CCTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACTACAAAAGTGTCGATACATTATT
*
710485 TAGACCTATTCTCTCATAAAATCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACAT
66 TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACAT
*
710550 TATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTATATATGGATCGACACTTATGGTTG
131 TATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTATATATGAATCGACACTTATGGTTG
*
710615 CACCCTGTTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGACATAT
196 CACCCTGTTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGACACAT
* *
710680 TATTTAGACCTATTCTCTCATAAATCGGTATACTGTACCGGTAGATTAAAAAATTACATATTACA
261 TATTTAGACCTATTCTCTCATAAACCGGTACACTGTACCGGTAGATTAAAAAATTACATATTACA
710745 TTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATGG
326 TTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATGG
710810 TTGCAC
391 TTGCAC
* * *
710816 CCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACTAACTACAAAAGTGTCGATACATTATT
1 CCTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACTACAAAAGTGTCGATACATTATT
710881 TAGACCTA-T-TCTCATAAAACCGGT-TAC-TGTACCGGTTAGATTGAAAAATTACATATTACAT
66 TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACAT
710942 TATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGAATCGACACTTTATGGT
131 TATACTTTTGGGTTTCGATGTTTATGGGATCGACAC-TTTTATATATGAATCGACAC-TTATGGT
*
711007 TGCACCCTG-TTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGATAC
194 TGCACCCTGTTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGACAC
* * *
711071 ATTATTTAGACCTATTCTCTCATAAAACCGGTACACTTGTACCGATTAGATTGAAAAATTACCTA
259 ATTATTTAGACCTATTCTCTCAT-AAACCGGTACAC-TGTACCG-GTAGATTAAAAAATTACATA
711136 TTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTT
321 TTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTT
711181 ATGGTTGCAC
Statistics
Matches: 348, Mismatches: 12, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
392 70 0.20
393 98 0.28
394 40 0.11
395 8 0.02
396 132 0.38
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (396 bp):
CCTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACTACAAAAGTGTCGATACATTATT
TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACAT
TATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTATATATGAATCGACACTTATGGTTG
CACCCTGTTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGACACAT
TATTTAGACCTATTCTCTCATAAACCGGTACACTGTACCGGTAGATTAAAAAATTACATATTACA
TTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATGG
TTGCAC
Found at i:711326 original size:18 final size:18
Alignment explanation
Indices: 711303--711363 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
711293 TCTCATTCAT
*
711303 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
711321 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
711340 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
711359 AATTA
1 AATTA
711364 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:711339 original size:19 final size:19
Alignment explanation
Indices: 711315--711363 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
711305 TTATATTCAC
711315 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
711334 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
711353 ATACAAAATTA
1 ATACAAAATTA
711364 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:713236 original size:21 final size:21
Alignment explanation
Indices: 713211--713275 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
713201 CCCCTTATGC
* *
713211 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
713232 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
713253 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
713274 CT
1 CT
713276 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:713759 original size:12 final size:12
Alignment explanation
Indices: 713742--713767 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
713732 TTTAAAGGTG
713742 ATTATTGATTCA
1 ATTATTGATTCA
713754 ATTATTGATTCA
1 ATTATTGATTCA
713766 AT
1 AT
713768 CAATCTCGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (12 bp):
ATTATTGATTCA
Found at i:715349 original size:15 final size:15
Alignment explanation
Indices: 715331--715373 Score: 86
Period size: 15 Copynumber: 2.9 Consensus size: 15
715321 ATCCGCACCG
715331 CATCCGCCCGCCCCA
1 CATCCGCCCGCCCCA
715346 CATCCGCCCGCCCCA
1 CATCCGCCCGCCCCA
715361 CATCCGCCCGCCC
1 CATCCGCCCGCCC
715374 AACTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.12, C:0.67, G:0.14, T:0.07
Consensus pattern (15 bp):
CATCCGCCCGCCCCA
Found at i:716697 original size:17 final size:17
Alignment explanation
Indices: 716675--716721 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
716665 AATATATCGG
716675 TATCATTTTACCGGTTT
1 TATCATTTTACCGGTTT
*
716692 TATCATTTTGATACGGTTT
1 TATCATTTT-A-CCGGTTT
716711 TAT-ATTTTACC
1 TATCATTTTACC
716722 TGTTATATCG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 1 0.04
17 10 0.38
18 6 0.23
19 9 0.35
ACGTcount: A:0.21, C:0.15, G:0.11, T:0.53
Consensus pattern (17 bp):
TATCATTTTACCGGTTT
Found at i:716858 original size:171 final size:180
Alignment explanation
Indices: 716648--717087 Score: 612
Period size: 178 Copynumber: 2.5 Consensus size: 180
716638 ACGTATTACG
* *
716648 AAAGTATCGACACTTTCAATATAT-CGGTATCATTTTACCGGTTTTATCATTTTGATA-CGG-TT
1 AAAGTATCGACACTTTCAATATATCCGGTAAC-GTTTACCGGTTTTATCATTTTGATACCGGTTT
*
716710 T-T-ATA-TTTTACCTGTTATATCGTTGTGGATCGAT-ATTTTTTTAAAGTATCGACACATTATA
65 TATCATAGTTTTACCTGTTATATCGTTGTGGATCGATAATTTTTTAAAAGTATCGACACATTATA
*
716771 GGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCC-T-TA-T
130 GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
*
716819 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTACCGGTTTTATCATTTTGTTACCGGTTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTACCGGTTTTATCATTTTGATACCGGTTTT
* * * *
716884 ATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTATA
66 ATCATAGTTTTACCTGTTATATCGTTGTGGATCGATA-ATTTTTTAAAAGTATCGACACATTATA
** *
716949 GGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * **
717000 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACG-TTTACCGGTTTTATCATTTTGATACCGGTTT
*
717065 TGTCATAGTTTTACCTGTTATAT
65 TATCATAGTTTTACCTGTTATAT
717088 TGTTTTGAAT
Statistics
Matches: 236, Mismatches: 21, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
171 47 0.20
172 9 0.04
173 3 0.01
174 1 0.00
175 3 0.01
176 27 0.11
178 65 0.28
179 1 0.00
180 2 0.01
181 30 0.13
182 48 0.20
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (180 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTACCGGTTTTATCATTTTGATACCGGTTTT
ATCATAGTTTTACCTGTTATATCGTTGTGGATCGATAATTTTTTAAAAGTATCGACACATTATAG
GAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:716878 original size:20 final size:20
Alignment explanation
Indices: 716852--716897 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
716842 TCCGGTAACG
716852 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
716871 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
716892 TTTACC
1 TTTACC
716898 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:716972 original size:178 final size:179
Alignment explanation
Indices: 716648--717109 Score: 627
Period size: 182 Copynumber: 2.6 Consensus size: 179
716638 ACGTATTACG
* *
716648 AAAGTATCGACACTTTCAATATAT-CGGTATCATTTTACCGGTTTTATCATTTTGATA-CGG-TT
1 AAAGTATCGACACTTTCAATATATCCGGTAAC-GTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
716710 TT-ATATTTTACCTGTTATATCGTTGTGGATCGAT--ATTTTTTTAAAGTATCGACACATTATAG
65 TTCATATTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTATAG
*
716772 GCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCC-T-TA-T
130 GAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
*
716819 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTACCGGTTTTATCATTTTGTTACCGGTTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTACCGGTTTTATCATTTTGATACCGGTTTT
* *
716884 ATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTATA
66 -TCATA-TTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTATA
** *
716949 GGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
129 GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * **
717000 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACG-TTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
717065 TGTCATAGTTTTACCTGTTATATTGTTTTGAATCGACACATTTTT
65 T-TCATA-TTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
717110 AATTGGATCG
Statistics
Matches: 255, Mismatches: 24, Indels: 13
0.87 0.08 0.04
Matches are distributed among these distances:
171 47 0.18
172 9 0.04
173 3 0.01
174 1 0.00
175 3 0.01
176 27 0.11
178 65 0.25
179 1 0.00
180 2 0.01
181 30 0.12
182 67 0.26
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (179 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTACCGGTTTTATCATTTTGATACCGGTTTT
TCATATTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTATAGG
AGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:718803 original size:43 final size:42
Alignment explanation
Indices: 718753--719163 Score: 428
Period size: 43 Copynumber: 9.6 Consensus size: 42
718743 AAAGGTCGTT
* * * *
718753 ATCTATAGCAGCGCTTTTGGAACAAACGTCGCAAAAGGTCGG
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAG
*
718795 TATCTATAGCGGCGTTTTTGGAACAAACGCCGCAATAGGTCAAG
1 -ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC-AG
* * * *
718839 ATCTATAGCGGCGCTTTTGGAATAAAAGTCGCAAAAGGTCAG
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAG
* * * * *
718881 ATATATAGTGGCATTTCTGGAACAAACGCCGTAAAAGGTCAG
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAG
*
718923 ATCTATAGCGGCGTTTTTTGATACAAACGCCGCAAAAGGTCAG
1 ATCTATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAGGTCAG
* * * * *
718966 GTCTATAGCGGCGTTTCTGAAACAAACGCCGTAAAAGGTC-T
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAG
* * * * * * *
719007 ATCTGTAGCGGCATTTTTTGATACAAATGTCGTAAAAGGTCAA
1 ATCTATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAGGTCAG
* *
719050 ATCTATAGCGGCGTTTTTTGATACAAACGCCACAAAAGGTCAG
1 ATCTATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAGGTCAG
* * * * *
719093 ATCTATAGTGGCGTTTTTGGATATAAATGCCGTAAAAGGTCAA
1 ATCTATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAGGTCAG
* *
719136 ATCTATAACGGTGTTTTTGGATACAAAC
1 ATCTATAGCGGCGTTTTTGGA-ACAAAC
719164 TATGTATTTA
Statistics
Matches: 305, Mismatches: 59, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
41 15 0.05
42 86 0.28
43 203 0.67
44 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (42 bp):
ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAG
Found at i:718942 original size:85 final size:84
Alignment explanation
Indices: 718753--719163 Score: 414
Period size: 85 Copynumber: 4.8 Consensus size: 84
718743 AAAGGTCGTT
* * * * * *
718753 ATCTATAGCAGCGCTTTTGGAACAAACGTCGCAAAAGGTCGGTATCTATAGCGGCGTTTTTGGAA
1 ATCTATAGCGGCGTTTTTGGAATAAAAGTCGCAAAAGGTCAG-ATCTATAGCGGCGTTTCTGGAA
*
718818 CAAACGCCGCAATAGGTCAAG
65 CAAACGCCGCAAAAGGTC-AG
* * * *
718839 ATCTATAGCGGCGCTTTTGGAATAAAAGTCGCAAAAGGTCAGATATATAGTGGCATTTCTGGAAC
1 ATCTATAGCGGCGTTTTTGGAATAAAAGTCGCAAAAGGTCAGATCTATAGCGGCGTTTCTGGAAC
*
718904 AAACGCCGTAAAAGGTCAG
66 AAACGCCGCAAAAGGTCAG
* * * *
718923 ATCTATAGCGGCGTTTTTTG-ATACAAACGCCGCAAAAGGTCAGGTCTATAGCGGCGTTTCTGAA
1 ATCTATAGCGGCGTTTTTGGAATA-AAA-GTCGCAAAAGGTCAGATCTATAGCGGCGTTTCTGGA
* *
718987 ACAAACGCCGTAAAAGGTC-T
64 ACAAACGCCGCAAAAGGTCAG
* * * * * * *
719007 ATCTGTAGCGGCATTTTTTG-ATACAAATGTCGTAAAAGGTCAAATCTATAGCGGCGTTTTTTGA
1 ATCTATAGCGGCGTTTTTGGAATA-AAA-GTCGCAAAAGGTCAGATCTATAGCGGCGTTTCTGGA
*
719071 TACAAACGCCACAAAAGGTCAG
64 -ACAAACGCCGCAAAAGGTCAG
* * * * * * * *
719093 ATCTATAGTGGCGTTTTTGGATATAAATGCCGTAAAAGGTCAAATCTATAACGGTGTTTTTGGAT
1 ATCTATAGCGGCGTTTTTGGA-ATAAAAGTCGCAAAAGGTCAGATCTATAGCGGCGTTTCTGGA-
719158 ACAAAC
64 ACAAAC
719164 TATGTATTTA
Statistics
Matches: 278, Mismatches: 41, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
83 3 0.01
84 77 0.28
85 100 0.36
86 93 0.33
87 2 0.01
88 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (84 bp):
ATCTATAGCGGCGTTTTTGGAATAAAAGTCGCAAAAGGTCAGATCTATAGCGGCGTTTCTGGAAC
AAACGCCGCAAAAGGTCAG
Found at i:719041 original size:127 final size:126
Alignment explanation
Indices: 718770--719134 Score: 446
Period size: 127 Copynumber: 2.9 Consensus size: 126
718760 GCAGCGCTTT
* * * *
718770 TGGAACAAACGTCGCAAAAGGTCGGTATCTATAGCGGCGTTTTTGGA-ACAAACGCCGCAATAGG
1 TGGAACAAACGTCGTAAAAGGTCAG-ATCTATAGCGGCGTTTTTTGATACAAACGCCGCAAAAGG
* * * *
718834 TCAAGATCTATAGCGGCGCTTTTGGAATAAAAGTCGCAAAAGGTCAGATATATAGTGGCATTTC
65 TC-AGATCTATAGCGGCG-TTTTGAAATAAAAGCCGTAAAAGGTCAGATATATAGCGGCATTTC
*
718898 TGGAACAAACGCCGTAAAAGGTCAGATCTATAGCGGCGTTTTTTGATACAAACGCCGCAAAAGGT
1 TGGAACAAACGTCGTAAAAGGTCAGATCTATAGCGGCGTTTTTTGATACAAACGCCGCAAAAGGT
* * * * * * *
718963 CAGGTCTATAGCGGCGTTTCTGAAACAAACGCCGTAAAAGGTC-TATCTGTAGCGGCATTTT
66 CAGATCTATAGCGGCGTTT-TGAAATAAAAGCCGTAAAAGGTCAGATATATAGCGGCATTTC
* * * *
719024 TTGATACAAATGTCGTAAAAGGTCAAATCTATAGCGGCGTTTTTTGATACAAACGCCACAAAAGG
1 TGGA-ACAAACGTCGTAAAAGGTCAGATCTATAGCGGCGTTTTTTGATACAAACGCCGCAAAAGG
* * *
719089 TCAGATCTATAGTGGCGTTTTTGGATATAAATGCCGTAAAAGGTCA
65 TCAGATCTATAGCGGCG-TTTT-GAAATAAAAGCCGTAAAAGGTCA
719135 AATCTATAAC
Statistics
Matches: 205, Mismatches: 26, Indels: 11
0.85 0.11 0.05
Matches are distributed among these distances:
126 19 0.09
127 124 0.60
128 62 0.30
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (126 bp):
TGGAACAAACGTCGTAAAAGGTCAGATCTATAGCGGCGTTTTTTGATACAAACGCCGCAAAAGGT
CAGATCTATAGCGGCGTTTTGAAATAAAAGCCGTAAAAGGTCAGATATATAGCGGCATTTC
Found at i:719310 original size:21 final size:21
Alignment explanation
Indices: 719273--719330 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
719263 ATTATCCAAT
*
719273 AAACTTGACAT-CATAACAAC
1 AAACTTGAAATCCATAACAAC
*
719293 AAACTTGAAATCCATAACAAG
1 AAACTTGAAATCCATAACAAC
719314 AAACTTGAAATCCATAA
1 AAACTTGAAATCCATAA
719331 TAATAATCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 10 0.29
21 25 0.71
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.21
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:720375 original size:66 final size:66
Alignment explanation
Indices: 720257--720383 Score: 191
Period size: 66 Copynumber: 1.9 Consensus size: 66
720247 CCAAGCTAAA
* * *
720257 TGCAACAATCAGAAACAATAAACCATCCTCATCTAGACTTGAAAGGATCTTCACATTGAATCAAA
1 TGCAACAATCAGAAACAACAAACCATCCTCACCTAGACTTGAAAGGAACTTCACATTGAATCAAA
720322 G
66 G
* * * *
720323 TGCATCAATCAGAAACAGCAAACCATCCTCACCTAGACTTGCAGGGAACTTCACATTGAAT
1 TGCAACAATCAGAAACAACAAACCATCCTCACCTAGACTTGAAAGGAACTTCACATTGAAT
720384 TAAATTTTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.22
Consensus pattern (66 bp):
TGCAACAATCAGAAACAACAAACCATCCTCACCTAGACTTGAAAGGAACTTCACATTGAATCAAA
G
Found at i:722329 original size:41 final size:40
Alignment explanation
Indices: 722242--722728 Score: 453
Period size: 41 Copynumber: 11.8 Consensus size: 40
722232 TTGCAGCACA
* * *
722242 AGTCTATAGCGGCGTTTGTAAACACAAACGCCACTAAAGTATG
1 AGTCTTTAGCGGCGTTTGTATA-A-AAACGCCACTAAA-TACG
722285 AGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACG
1 AGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAA-TACG
* *
722326 AGTCTATAGCGGCGTTTGTATAAAAACGTCACTAAATCACG
1 AGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAT-ACG
* * * *
722367 ATTCTTTAGCGGCGTTTGTAAACAAAATGCCACTAAATCATG
1 AGTCTTTAGCGGCGTTTGTATA-AAAACGCCACTAAAT-ACG
* *
722409 AGCCTTTAGCGGCGTTTGTATAAAAACGCCACTAAATCATG
1 AGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAT-ACG
* * **
722450 AGTCTATAGCAGCGTTTGTATAAAAAATCCACTAAATCACG
1 AGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAT-ACG
* * *
722491 AGTCTATAGCGACGTTTGTATAAAAATGCCACTAAATCACG
1 AGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAT-ACG
* * * * *
722532 AGTCTATAGCGGCGTTTTTGA-AACAAACGCCGCTAAAGACT
1 AGTCTTTAGCGGCGTTTGT-ATAA-AAACGCCACTAAATACG
* *
722573 CGTACTATT-GCGGCGTTTGTATAAAAACGCCACTAAATTA-T
1 AGT-CT-TTAGCGGCGTTTGTATAAAAACGCCACTAAA-TACG
722614 AGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAATAC-
1 AGTCTTTAGCGGCGTTTGTATAAAAACGCCACT-AAATACG
* * * * *
722654 ATTCTTTAGCGGTGTTTTTATACAAACGGCGCTA-TAATAATATG
1 AGTCTTTAGCGGCGTTTGTATAAAAAC-GC-C-ACT-A-AATACG
* *
722698 AGTCTTTAACGGCGTTTGTTCTAAAAACGCC
1 AGTCTTTAGCGGCGTTTG-TATAAAAACGCC
722729 GCTACAAATG
Statistics
Matches: 379, Mismatches: 48, Indels: 34
0.82 0.10 0.07
Matches are distributed among these distances:
39 2 0.01
40 53 0.14
41 207 0.55
42 67 0.18
43 27 0.07
44 16 0.04
45 7 0.02
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (40 bp):
AGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAATACG
Found at i:722467 original size:165 final size:164
Alignment explanation
Indices: 722248--722681 Score: 533
Period size: 165 Copynumber: 2.6 Consensus size: 164
722238 CACAAGTCTA
*
722248 TAGCGGCGTTTGTAAACACAAACGCCACTAAAGTATGAGTCTTTAGCGGCGTTTGTATAAAAACG
1 TAGCGGCGTTTGTATA-A-AAACGCCACTAAA-TATGAGTCTTTAGCGGCGTTTGTATAAAAACG
* * *
722313 CCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGTCACTAAATCACGATTCTTTAGCG
63 CCACTAAA-TACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAATCACGAGTCTATAGCG
*
722378 GCGTTTGT-AAACAAAATGCCACTAAATCA-T-G-AGCCT-T
127 GCGTTTGTGAAAC-AAACGCCACTAAA-CACTCGTA--CTAT
* * **
722415 TAGCGGCGTTTGTATAAAAACGCCACTAAATCATGAGTCTATAGCAGCGTTTGTATAAAAAATCC
1 TAGCGGCGTTTGTATAAAAACGCCACTAAAT-ATGAGTCTTTAGCGGCGTTTGTATAAAAACGCC
* *
722480 ACTAAATCACGAGTCTATAGCGACGTTTGTATAAAAATGCCACTAAATCACGAGTCTATAGCGGC
65 ACTAAAT-ACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAATCACGAGTCTATAGCGGC
* * *
722545 GTTTTTGAAACAAACGCCGCTAAAGACTCGTACTAT
129 GTTTGTGAAACAAACGCCACTAAACACTCGTACTAT
722581 T-GCGGCGTTTGTATAAAAACGCCACTAAATTAT-AGTCTTTAGCGGCGTTTGTATAAAAACGCC
1 TAGCGGCGTTTGTATAAAAACGCCACTAAA-TATGAGTCTTTAGCGGCGTTTGTATAAAAACGCC
* * * * *
722644 ACTAAAATAC-ATTCTTTAGCGGTGTTTTTATACAAACG
65 ACT-AAATACGAGTCTATAGCGGCGTTTGTATAAAAACG
722682 GCGCTATAAT
Statistics
Matches: 233, Mismatches: 25, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
163 21 0.09
164 34 0.15
165 153 0.66
166 9 0.04
167 16 0.07
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (164 bp):
TAGCGGCGTTTGTATAAAAACGCCACTAAATATGAGTCTTTAGCGGCGTTTGTATAAAAACGCCA
CTAAATACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAATCACGAGTCTATAGCGGCGT
TTGTGAAACAAACGCCACTAAACACTCGTACTAT
Found at i:722469 original size:124 final size:122
Alignment explanation
Indices: 722242--722726 Score: 484
Period size: 124 Copynumber: 3.9 Consensus size: 122
722232 TTGCAGCACA
*
722242 AGTCTATAGCGGCGTTTGTAAACACAAACGCCACTAAAGT-ATGAGTCTTTAGCGGCGTTTGTAT
1 AGTCTTTAGCGGCGTTTGTAAA-A-AAACGCCACTAAA-TCATGAGTCTTTAGCGGCGTTTGTAT
*
722306 AAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGTCACTAAATCACG
63 AAAAACGCCACTAAA-TATGAGTCTATAGCGGCGTTTGTATAAAAACGTCACTAAATCACG
* * *
722367 ATTCTTTAGCGGCGTTTGTAAACAAAATGCCACTAAATCATGAGCCTTTAGCGGCGTTTGTATAA
1 AGTCTTTAGCGGCGTTTGTAAA-AAAACGCCACTAAATCATGAGTCTTTAGCGGCGTTTGTATAA
* *
722432 AAACGCCACTAAATCATGAGTCTATAGCAGCGTTTGTATAAAAA-ATCCACTAAATCACG
65 AAACGCCACTAAAT-ATGAGTCTATAGCGGCGTTTGTATAAAAACGT-CACTAAATCACG
* * * * * * *
722491 AGTCTATAGCGACGTTTGTATAAAAATGCCACTAAATCACGAGTCTATAGCGGCGTTTTTGA-AA
1 AGTCTTTAGCGGCGTTTGTAAAAAAACGCCACTAAATCATGAGTCTTTAGCGGCGTTTGT-ATAA
* * * * * * *
722555 CAAACGCCGCTAAAGACT-CGTACTATTGCGGCGTTTGTATAAAAACGCCACTAAATTA-T
65 -AAACGCCACTAAATA-TGAGT-CTATAGCGGCGTTTGTATAAAAACGTCACTAAATCACG
* * *
722614 AGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAATACAT---TCTTTAGCGGTGTTTTTATA
1 AGTCTTTAGCGGCGTTTGTAAAAAAACGCCACT-AAAT-CATGAGTCTTTAGCGGCGTTTGTATA
* * * *
722676 CAAACGGCGCTA-TAATAATATGAGTCTTTAACGGCGTTTGTTCTAAAAACG
64 AAAAC-GC-C-ACT-A-AATATGAGTCTATAGCGGCGTTTG-TATAAAAACG
722727 CCGCTACAAA
Statistics
Matches: 304, Mismatches: 38, Indels: 36
0.80 0.10 0.10
Matches are distributed among these distances:
121 5 0.02
122 18 0.06
123 74 0.24
124 169 0.56
125 38 0.12
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (122 bp):
AGTCTTTAGCGGCGTTTGTAAAAAAACGCCACTAAATCATGAGTCTTTAGCGGCGTTTGTATAAA
AACGCCACTAAATATGAGTCTATAGCGGCGTTTGTATAAAAACGTCACTAAATCACG
Found at i:723954 original size:14 final size:14
Alignment explanation
Indices: 723935--723962 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
723925 ACCCCACGTG
723935 TAGAATTACATTTT
1 TAGAATTACATTTT
723949 TAGAATTACATTTT
1 TAGAATTACATTTT
723963 CTACTTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
TAGAATTACATTTT
Found at i:724204 original size:321 final size:321
Alignment explanation
Indices: 723622--724259 Score: 1276
Period size: 321 Copynumber: 2.0 Consensus size: 321
723612 AATCAAAGGG
723622 CATTTTTAGAATTACATTTTCTACTTTGAAGGAGACAACCCTTTCCTTGGAAATGAAAGAGATTG
1 CATTTTTAGAATTACATTTTCTACTTTGAAGGAGACAACCCTTTCCTTGGAAATGAAAGAGATTG
723687 AAACTTTTTTTTTATTTCCCTCGTCTTTTTGGCTATTGACTTGCATGGAACAGAAAGTGATTGGA
66 AAACTTTTTTTTTATTTCCCTCGTCTTTTTGGCTATTGACTTGCATGGAACAGAAAGTGATTGGA
723752 AAGACAAAAATGAAAGAGACAGCCCTTTGACAAATGGTGATTAGGTCTTATCCTATTCTACTGCA
131 AAGACAAAAATGAAAGAGACAGCCCTTTGACAAATGGTGATTAGGTCTTATCCTATTCTACTGCA
723817 CTGACACCTGAAATCTCTATAGAACCTTCTCTTTCTCTACTCTCCATGCTTTCTGCAACCCTATT
196 CTGACACCTGAAATCTCTATAGAACCTTCTCTTTCTCTACTCTCCATGCTTTCTGCAACCCTATT
723882 TGTACTATGTTTTCTTTTTCTTACCTGAAATGGTGTTGCATGCACCCCACGTGTAGAATTA
261 TGTACTATGTTTTCTTTTTCTTACCTGAAATGGTGTTGCATGCACCCCACGTGTAGAATTA
723943 CATTTTTAGAATTACATTTTCTACTTTGAAGGAGACAACCCTTTCCTTGGAAATGAAAGAGATTG
1 CATTTTTAGAATTACATTTTCTACTTTGAAGGAGACAACCCTTTCCTTGGAAATGAAAGAGATTG
724008 AAACTTTTTTTTTATTTCCCTCGTCTTTTTGGCTATTGACTTGCATGGAACAGAAAGTGATTGGA
66 AAACTTTTTTTTTATTTCCCTCGTCTTTTTGGCTATTGACTTGCATGGAACAGAAAGTGATTGGA
724073 AAGACAAAAATGAAAGAGACAGCCCTTTGACAAATGGTGATTAGGTCTTATCCTATTCTACTGCA
131 AAGACAAAAATGAAAGAGACAGCCCTTTGACAAATGGTGATTAGGTCTTATCCTATTCTACTGCA
724138 CTGACACCTGAAATCTCTATAGAACCTTCTCTTTCTCTACTCTCCATGCTTTCTGCAACCCTATT
196 CTGACACCTGAAATCTCTATAGAACCTTCTCTTTCTCTACTCTCCATGCTTTCTGCAACCCTATT
724203 TGTACTATGTTTTCTTTTTCTTACCTGAAATGGTGTTGCATGCACCCCACGTGTAGA
261 TGTACTATGTTTTCTTTTTCTTACCTGAAATGGTGTTGCATGCACCCCACGTGTAGA
724260 GACGACTACG
Statistics
Matches: 317, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
321 317 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (321 bp):
CATTTTTAGAATTACATTTTCTACTTTGAAGGAGACAACCCTTTCCTTGGAAATGAAAGAGATTG
AAACTTTTTTTTTATTTCCCTCGTCTTTTTGGCTATTGACTTGCATGGAACAGAAAGTGATTGGA
AAGACAAAAATGAAAGAGACAGCCCTTTGACAAATGGTGATTAGGTCTTATCCTATTCTACTGCA
CTGACACCTGAAATCTCTATAGAACCTTCTCTTTCTCTACTCTCCATGCTTTCTGCAACCCTATT
TGTACTATGTTTTCTTTTTCTTACCTGAAATGGTGTTGCATGCACCCCACGTGTAGAATTA
Found at i:726955 original size:21 final size:22
Alignment explanation
Indices: 726918--726973 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
726908 AAAAAATACT
726918 AAAATAATTATATTTTTAATAA
1 AAAATAATTATATTTTTAATAA
726940 AAAATAATTATATTTTTAATAA
1 AAAATAATTATATTTTTAATAA
726962 AAATATACATTA
1 AAA-ATA-ATTA
726974 ATTATATTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 25 0.78
23 3 0.09
24 4 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATAATTATATTTTTAATAA
Found at i:726966 original size:28 final size:28
Alignment explanation
Indices: 726935--726991 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
726925 TTATATTTTT
*
726935 AATAAAAAATAATTATATTTTTAATAAA
1 AATAAAAAATAATTATATTCTTAATAAA
* * * *
726963 AATATACATTAATTATATTCTTATTAAA
1 AATAAAAAATAATTATATTCTTAATAAA
726991 A
1 A
726992 TTTAAACTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (28 bp):
AATAAAAAATAATTATATTCTTAATAAA
Found at i:734093 original size:21 final size:21
Alignment explanation
Indices: 734067--734116 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
734057 GTTGAGGGTA
734067 TATGTGGTCATTCGGGACAAT
1 TATGTGGTCATTCGGGACAAT
734088 TATGTGGTCATTCGGGACAAT
1 TATGTGGTCATTCGGGACAAT
*
734109 CATGTGGT
1 TATGTGGT
734117 TCTCCGGGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.34
Consensus pattern (21 bp):
TATGTGGTCATTCGGGACAAT
Found at i:734124 original size:21 final size:21
Alignment explanation
Indices: 734068--734128 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
734058 TTGAGGGTAT
* *
734068 ATGTGGTCATTCGGGACAATT
1 ATGTGGTCATCCGGGACAATC
*
734089 ATGTGGTCATTCGGGACAATC
1 ATGTGGTCATCCGGGACAATC
734110 ATGTGGTTC-TCCGGGACAA
1 ATGTGG-TCATCCGGGACAA
734129 AAATGTGACA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 35 0.95
22 2 0.05
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (21 bp):
ATGTGGTCATCCGGGACAATC
Found at i:739801 original size:23 final size:23
Alignment explanation
Indices: 739783--739839 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
739773 CTCGTATAAA
739783 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* * *
739806 TGCACTGAAATGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
739829 TACACCGAAGT
1 TGCACCGAAGT
739840 TCCATATAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:741373 original size:63 final size:63
Alignment explanation
Indices: 741287--741447 Score: 180
Period size: 63 Copynumber: 2.5 Consensus size: 63
741277 CCATTAATAT
* * *
741287 GTGCATCGATGCACTACCCATGCATCAATACACAAATCACCTTCGATGTTTT-AATCTTAAGGGG
1 GTGCATCGATGCACT-CCTATGCATCGATACACAAATCACATTCGATGTTTTCAATCTTAA-GGG
* * * * ** * *
741351 GTGTATCGATGCACTCTTATGCATCGATGCACTAATTGCATTCGATGTTTTCATTTTTAAGGG
1 GTGCATCGATGCACTCCTATGCATCGATACACAAATCACATTCGATGTTTTCAATCTTAAGGG
*
741414 GTGCATCGATGCACTTCCTGTGCATCGATACACA
1 GTGCATCGATGCAC-TCCTATGCATCGATACACA
741448 CTGAACAATT
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
63 44 0.56
64 35 0.44
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTATGCATCGATACACAAATCACATTCGATGTTTTCAATCTTAAGGG
Done.