Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008424.1 Hibiscus syriacus cultivar Beakdansim tig00111207_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: 4198033
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 16
Found at i:452223 original size:85 final size:83
Alignment explanation
Indices: 452080--452402 Score: 360
Period size: 85 Copynumber: 3.8 Consensus size: 83
452070 ATGTGTCGTC
* * * * * *
452080 GAGCTGAATGGAATCAGACTCGACATTTTTTCTTGACAGATAGCCCTTCTCGCCTTGAGCTATGT
1 GAGCTGAATGTAATCAAACTCGA-A-GTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
* *
452145 TGTAAATTTGACATGCCCTT
64 TGTAAATTTGATATGTCCTT
* * **
452165 GAGCTGAATGTAATCAAACTCGAAGATCTTTGTTGACAGATAACCCTTTTCGCCTTGAGTTATAT
1 GAGCTGAATGTAATCAAACTCGAAG-T-TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
*
452230 TGTAAATTTGATACGTCCTT
64 TGTAAATTTGATATGTCCTT
* *
452250 GAACTGAATGTAAT-AGAACTCGAAGGTTTTGGTTGACAGATAACCCTTCTCGCCTTGAGCAATG
1 GAGCTGAATGTAATCA-AACTCGAA-GTTTT-GTTGACAGATAACCCTTCTCGCCTTGAGCTATG
452314 CTGTAAATTTGATATGTCCTT
63 CTGTAAATTTGATATGTCCTT
* * * * * ** **
452335 GAGCTGAGTGTAATCGAACTAGAAGGTTTGTTGATAGATAGTCCTTCTTTCCTTGAGCTATGCTG
1 GAGCTGAATGTAATCAAACTCGAAGTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTG
452400 TAA
66 TAA
452403 TAGGCTGTGA
Statistics
Matches: 203, Mismatches: 29, Indels: 14
0.83 0.12 0.06
Matches are distributed among these distances:
83 33 0.16
84 10 0.05
85 159 0.78
86 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (83 bp):
GAGCTGAATGTAATCAAACTCGAAGTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTG
TAAATTTGATATGTCCTT
Found at i:460090 original size:21 final size:21
Alignment explanation
Indices: 460066--460116 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
460056 GTAGGTTTAC
460066 CGGTACACTCCCAAGGTGTAT
1 CGGTACACTCCCAAGGTGTAT
*
460087 CGGTATACTCCCAAGGTGTAT
1 CGGTACACTCCCAAGGTGTAT
*
460108 CGTTACACT
1 CGGTACACT
460117 ATGTGTACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (21 bp):
CGGTACACTCCCAAGGTGTAT
Found at i:462496 original size:20 final size:19
Alignment explanation
Indices: 462459--462500 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
462449 TATAGTTTTC
462459 AAAACAACATAATTAAATCA
1 AAAACAACATAATTAAAT-A
*
462479 AAAACAACA-ATTTAAAATA
1 AAAACAACATAATT-AAATA
462498 AAA
1 AAA
462501 TCAAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAACAACATAATTAAATA
Found at i:467568 original size:29 final size:27
Alignment explanation
Indices: 467526--467591 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 27
467516 AACATTGTTG
*
467526 AAAATTAAAAGCTGGAATTGAAAGGACT
1 AAAATTAAAAGCTGAAATTGAAAGG-CT
* *
467554 AAAATATAAATGCTGAAATTTAAAGGCT
1 AAAAT-TAAAAGCTGAAATTGAAAGGCT
*
467582 AAAACTAAAA
1 AAAATTAAAA
467592 TAACAAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
27 4 0.12
28 11 0.34
29 17 0.53
ACGTcount: A:0.55, C:0.08, G:0.15, T:0.23
Consensus pattern (27 bp):
AAAATTAAAAGCTGAAATTGAAAGGCT
Found at i:467592 original size:28 final size:28
Alignment explanation
Indices: 467526--467592 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
467516 AACATTGTTG
*
467526 AAAATTAAAA-GCTGGAATTGAAAGGACT
1 AAAA-TAAAATGCTGAAATTGAAAGGACT
*
467554 AAAATATAAATGCTGAAATTTAAAGG-CT
1 AAAATA-AAATGCTGAAATTGAAAGGACT
467582 AAAACTAAAAT
1 AAAA-TAAAAT
467593 AACAAAATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 2 0.06
28 17 0.50
29 15 0.44
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.24
Consensus pattern (28 bp):
AAAATAAAATGCTGAAATTGAAAGGACT
Found at i:476068 original size:61 final size:60
Alignment explanation
Indices: 475960--476074 Score: 178
Period size: 61 Copynumber: 1.9 Consensus size: 60
475950 GTCACACCCT
475960 AATTTAGGGGCTAAGTTTTAGAAATATTAAAGTATTGAATTAAAGTGATATTTTGAAAGA
1 AATTTAGGGGCTAAGTTTTAGAAATATTAAAGTATTGAATTAAAGTGATATTTTGAAAGA
** *
476020 AATTTAGGGGCTAAGTTTTATTTAAT-TATAAAGTGTTGAATTAAAGTGATATTTT
1 AATTTAGGGGCTAAGTTTTA-GAAATAT-TAAAGTATTGAATTAAAGTGATATTTT
476075 AAAAAGTGAG
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
60 21 0.42
61 29 0.58
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.41
Consensus pattern (60 bp):
AATTTAGGGGCTAAGTTTTAGAAATATTAAAGTATTGAATTAAAGTGATATTTTGAAAGA
Found at i:480825 original size:10 final size:10
Alignment explanation
Indices: 480810--480846 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
480800 AAAGCCCCCT
*
480810 CAATTTTTCC
1 CAATTTCTCC
480820 CAATTTCTCC
1 CAATTTCTCC
*
480830 TAATTTCTCC
1 CAATTTCTCC
480840 CAATTTC
1 CAATTTC
480847 CTTTCCCGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.22, C:0.32, G:0.00, T:0.46
Consensus pattern (10 bp):
CAATTTCTCC
Found at i:481433 original size:17 final size:17
Alignment explanation
Indices: 481411--481445 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
481401 GCCCCTTGTA
481411 ATTGACCACCATTGACC
1 ATTGACCACCATTGACC
*
481428 ATTGACCACCTTTGACC
1 ATTGACCACCATTGACC
481445 A
1 A
481446 GACCGTTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.11, T:0.26
Consensus pattern (17 bp):
ATTGACCACCATTGACC
Found at i:485099 original size:2 final size:2
Alignment explanation
Indices: 485092--485152 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
485082 GGAAATAATA
485092 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
485134 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
485153 AGATTATAGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:492850 original size:30 final size:30
Alignment explanation
Indices: 492815--492918 Score: 129
Period size: 30 Copynumber: 3.5 Consensus size: 30
492805 TTTGGATATG
* *
492815 AATTTAGTCAGAATTTCACTTTAGTCCCTA
1 AATTTAATCAAAATTTCACTTTAGTCCCTA
*
492845 AATTTAATCAAAAATTCACTTTAGTCCCTA
1 AATTTAATCAAAATTTCACTTTAGTCCCTA
* * * *
492875 AATTTAATCAAAATTT-AATTTAATCTCTG
1 AATTTAATCAAAATTTCACTTTAGTCCCTA
*
492904 AATTTAATAAAAATT
1 AATTTAATCAAAATT
492919 AAAATGAGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
29 23 0.35
30 42 0.65
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.40
Consensus pattern (30 bp):
AATTTAATCAAAATTTCACTTTAGTCCCTA
Found at i:494347 original size:14 final size:14
Alignment explanation
Indices: 494330--494357 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
494320 ATTTAGTAAT
494330 TATTTTTTAAAATA
1 TATTTTTTAAAATA
494344 TATTTTTTAAAATA
1 TATTTTTTAAAATA
494358 ATGATAATTT
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTTTTTAAAATA
Found at i:495619 original size:36 final size:36
Alignment explanation
Indices: 495578--495646 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
495568 ATTTATAAGT
495578 TGGTGATAATATAGGCGTGATAATGGTGATGGATTA
1 TGGTGATAATATAGGCGTGATAATGGTGATGGATTA
*
495614 TGGTGATGATATAGGCGTGATAATGGTGATGGA
1 TGGTGATAATATAGGCGTGATAATGGTGATGGA
495647 CAGATTGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.29, C:0.03, G:0.36, T:0.32
Consensus pattern (36 bp):
TGGTGATAATATAGGCGTGATAATGGTGATGGATTA
Found at i:499959 original size:13 final size:12
Alignment explanation
Indices: 499940--500025 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 12
499930 ATATAGGCGT
499940 GATATGGTGATG
1 GATATGGTGATG
499952 GAATATGGTGAT-
1 G-ATATGGTGATG
*
499964 GATATAGGCG-T-
1 GATAT-GGTGATG
499975 GATAATGGTGATG
1 GAT-ATGGTGATG
499988 GACTATGGTGAT-
1 GA-TATGGTGATG
*
500000 GATATAGGCG-T-
1 GATAT-GGTGATG
500011 GATAATGGTGATG
1 GAT-ATGGTGATG
500024 GA
1 GA
500026 CAGATTGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 21 0.35
12 16 0.27
13 22 0.37
14 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:499995 original size:36 final size:36
Alignment explanation
Indices: 499922--500026 Score: 185
Period size: 36 Copynumber: 2.9 Consensus size: 36
499912 ATTTATAAGT
* *
499922 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
499957 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
499993 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
500027 AGATTGTATC
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
35 20 0.30
36 47 0.70
ACGTcount: A:0.29, C:0.05, G:0.36, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:501842 original size:16 final size:16
Alignment explanation
Indices: 501821--501853 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
501811 AAAAGGAAAC
*
501821 ATAAAAATAATTTCAT
1 ATAAAAATAATTCCAT
501837 ATAAAAATAATTCCAT
1 ATAAAAATAATTCCAT
501853 A
1 A
501854 GTCGAACAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAAAATAATTCCAT
Found at i:502984 original size:310 final size:310
Alignment explanation
Indices: 502398--503001 Score: 748
Period size: 309 Copynumber: 1.9 Consensus size: 310
502388 TCATAATATG
* * * *
502398 AATATATTGCATAATCTTATTCTTATAGTTATTCTTATATTCATGAACCAAACACAACCAAGAGA
1 AATATATTCCATAATCATATTCTTATAGTTAGTC-TATATCCATGAACCAAACACAACCAAGAGA
** ** * * *** **
502463 TGTGGTATACACAAATTTAAAAAAAACTTCATTATACTCTTAAATAAAGAATTTATGTTCAAACC
65 CATGACATACACAAATCTAAAAAAAACTACATTATACTCTTAAATAAAGAACGCACATTCAAACC
* * * * * * *
502528 TTGAAACAAGATTATTGTGAGAAGTATCCACGAAGCTGGTAAATGAAAGGTCTGAAATTCCAATC
130 TTGAAACAAGATTATTGAGAGAAATAGCCACGAAGCTAGTAAATAAAAGGTCTAAAAGTCCAATC
* * *
502593 AAGATTAAATATAGAGAAAAGGGAAACAAGTAAATAATTTCACATAGAAATAACTACATAGTCGA
195 AAGATTAAATATAAAGAAAAGGGAAACAAGTAAATAATTTCACATAAAAATAACTACACAGTCGA
502658 TTTCAGAATCATATACTCTATAATCAAATTAATACTTGACAAATATAAAAT
260 TTTCAGAATCATATACTCTATAATCAAATTAATACTTGACAAATATAAAAT
* * * *
502709 AATATATTCCATAATCATATTCTTATAGTTAGTC-CTATCCATGAACCAAACATATTCGAA-AGA
1 AATATATTCCATAATCATATTCTTATAGTTAGTCTATATCCATGAACCAAACACA-ACCAAGAGA
* * *
502772 CATGACATACACGAATCTAAAAATAACTACATTATACTCTTAAATAAAGAACGCACATTCAAATC
65 CATGACATACACAAATCTAAAAAAAACTACATTATACTCTTAAATAAAGAACGCACATTCAAACC
* **
502837 TTGAAACTATTTTATTGAGAGAAATAGCCACGAAGCTAGTAAATAAAAGGTCTAAAAAGTCCAAT
130 TTGAAACAAGATTATTGAGAGAAATAGCCACGAAGCTAGTAAATAAAAGGTCT-AAAAGTCCAAT
* * * * **
502902 CAAGATTAAATATTAAAG-AAAGGGAAATAA-TAAAATAATTTCATATAAAAATTATTGTACAGT
194 CAAGATTAAATA-TAAAGAAAAGGGAAACAAGT-AAATAATTTCACATAAAAATAACTACACAGT
* *
502965 CGATTTCATAATCATATACTCTATAGTCAAATTAATA
257 CGATTTCAGAATCATATACTCTATAATCAAATTAATA
503002 TATATATATA
Statistics
Matches: 246, Mismatches: 43, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
309 117 0.48
310 94 0.38
311 35 0.14
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (310 bp):
AATATATTCCATAATCATATTCTTATAGTTAGTCTATATCCATGAACCAAACACAACCAAGAGAC
ATGACATACACAAATCTAAAAAAAACTACATTATACTCTTAAATAAAGAACGCACATTCAAACCT
TGAAACAAGATTATTGAGAGAAATAGCCACGAAGCTAGTAAATAAAAGGTCTAAAAGTCCAATCA
AGATTAAATATAAAGAAAAGGGAAACAAGTAAATAATTTCACATAAAAATAACTACACAGTCGAT
TTCAGAATCATATACTCTATAATCAAATTAATACTTGACAAATATAAAAT
Found at i:503006 original size:2 final size:2
Alignment explanation
Indices: 502999--503036 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
502989 AGTCAAATTA
502999 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
503037 AGTAGAATAA
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):
AT
Found at i:504755 original size:18 final size:18
Alignment explanation
Indices: 504732--504768 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
504722 GATTTTGACC
504732 GTTAACTTTGACAAAAAA
1 GTTAACTTTGACAAAAAA
**
504750 GTTAACTTTTTCAAAAAA
1 GTTAACTTTGACAAAAAA
504768 G
1 G
504769 GTCATATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (18 bp):
GTTAACTTTGACAAAAAA
Found at i:513086 original size:2 final size:2
Alignment explanation
Indices: 513079--513111 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
513069 AATAAAATTA
513079 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
513112 AGCAAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:514432 original size:63 final size:63
Alignment explanation
Indices: 514333--514459 Score: 227
Period size: 63 Copynumber: 2.0 Consensus size: 63
514323 ATTTTTGAAA
*
514333 ACTTTTGAATAAATCCAATTCAAGTCCAAAAACATTTTTCCTTAAATTGTTATATCTAAATAT
1 ACTTTTGAATAAATCCAATTCAAGTCCAAAAACATTTGTCCTTAAATTGTTATATCTAAATAT
* *
514396 ACTTTTGAATAAATTCAATTCAAGTCCAAAAACATTTGTCCTTAAATTTTTATATCTAAATAT
1 ACTTTTGAATAAATCCAATTCAAGTCCAAAAACATTTGTCCTTAAATTGTTATATCTAAATAT
514459 A
1 A
514460 GTTCAACAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.40
Consensus pattern (63 bp):
ACTTTTGAATAAATCCAATTCAAGTCCAAAAACATTTGTCCTTAAATTGTTATATCTAAATAT
Found at i:517420 original size:20 final size:20
Alignment explanation
Indices: 517395--517441 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
517385 GGCCGTTTCT
517395 AGCCGTTAGAGGTATTTTGG
1 AGCCGTTAGAGGTATTTTGG
*
517415 AGCCGTTAGAGGTGTTTTGG
1 AGCCGTTAGAGGTATTTTGG
517435 AGCCGTT
1 AGCCGTT
517442 GGAGATCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.17, C:0.13, G:0.36, T:0.34
Consensus pattern (20 bp):
AGCCGTTAGAGGTATTTTGG
Found at i:518760 original size:311 final size:311
Alignment explanation
Indices: 518177--519094 Score: 1201
Period size: 312 Copynumber: 3.0 Consensus size: 311
518167 TGTTGGTAAT
* * * *
518177 ATGAATATATTTCATAATCGTATTCTTATAGCTAATCTTATATTCATGAACCAAATGCATCCAAG
1 ATGAATATATTGCATAATCGTATTCTTATAGTTAATCTTATATTCATGAACCAAACGTATCCAAG
* * *
518242 AGACGTGGTATAAACAAATCTAAAAATAACCTCATTATACTCTT-AA-AAAGAATATATGTTCAA
66 AGATGT-GTATAAACAAATCTAAAAATAACTTCATTATACTATTAAATAAAGAATATATGTTCAA
* * * * *
518305 ACCATGAAACGAGATTATTGAGAG-AATAGCCACGAAGCTGGTAAATGACATGTCTGAAATTCCA
130 ACCTTGAAACGAGATTATTGAGAGAAATATCCATGAAGCTGGTAAATGAAAGGTCTGAAATTCCA
518369 ATCAAGATTAAATATAGAGAAAAGGGAAATAATTAAATAATTTCATATAAAAATAATTGCATAGT
195 ATCAAGATTAAATATAGAGAAAAGGGAAATAATTAAATAATTTCATATAAAAATAATTGCATAGT
* * *
518434 CAATTTCAGAATCATATACTCTACAATCAAATTAATACTC-AAAAATATAAA
260 CGATTTTAAAATCATATACTCTACAATCAAATTAATACTCAAAAAATATAAA
* * *
518485 ATGAATGTATTGCATAATCGTATTCTTATAATTAATCTTATATTCATGAAACAAACGTATCCAAG
1 ATGAATATATTGCATAATCGTATTCTTATAGTTAATCTTATATTCATGAACCAAACGTATCCAAG
*
518550 AGATGTAGTATAAACAAATCTAAAAACAACTTCATTATACTATTAAATAAAGAATATATGTTCAA
66 AGATGT-GTATAAACAAATCTAAAAATAACTTCATTATACTATTAAATAAAGAATATATGTTCAA
* * *
518615 ACCTTGGAACGAGATTATTGAGAGAAATATCCATAAAGATGGTAAATGAAAGGTCTGAAATTCCA
130 ACCTTGAAACGAGATTATTGAGAGAAATATCCATGAAGCTGGTAAATGAAAGGTCTGAAATTCCA
*
518680 ATCAATATTAAATATAGAGAAAAGGGAAATAATTAAATAATTTCATATAAAAATAATTGCATAGT
195 ATCAAGATTAAATATAGAGAAAAGGGAAATAATTAAATAATTTCATATAAAAATAATTGCATAGT
518745 CGATTTTAAAATCATATACTCTACAATCAAATTAATACTCAAAAAATATAAA
260 CGATTTTAAAATCATATACTCTACAATCAAATTAATACTCAAAAAATATAAA
* * *
518797 ATGAATATATTGCATAATCGTATTCTTATAGTTAATCATAAATCCATGAACCAAACGTATCCGAT
1 ATGAATATATTGCATAATCGTATTCTTATAGTTAATCTTATATTCATGAACCAAACGTATCC-A-
* * ** *** * *** * *
518862 AGACATG-GCATACTCGGGTCTAAAAATAACTTCATTATACTATTAAATAAACAACCCACGCTCA
64 AGAGATGTGTATAAACAAATCTAAAAATAACTTCATTATACTATTAAATAAAGAATATATGTTCA
* * * * * *
518926 AACATTGAAACTAGATTATAT-AGAGAAATATCCATGAAGCTAGTAAATAAAAGGTCTACAAAGT
129 AACCTTGAAACGAGATTAT-TGAGAGAAATATCCATGAAGCTGGTAAATGAAAGGTCT-GAAATT
* *
518990 CCAATCAAGATTAAATATTA-ACG-AAAGGG-AATCAATAAAATAATTTCATATAAAAATTATTG
192 CCAATCAAGATTAAATA-TAGA-GAAAAGGGAAAT-AATTAAATAATTTCATATAAAAATAATTG
* * * *
519052 TATAGTTGA-TTTAAGAAT-ATTATACTCTATAATAAAATTAATA
254 CATAGTCGATTTTAA-AATCA-TATACTCTACAATCAAATTAATA
519095 TATATATATA
Statistics
Matches: 537, Mismatches: 60, Indels: 21
0.87 0.10 0.03
Matches are distributed among these distances:
308 97 0.18
309 2 0.00
310 39 0.07
311 135 0.25
312 168 0.31
313 87 0.16
314 9 0.02
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (311 bp):
ATGAATATATTGCATAATCGTATTCTTATAGTTAATCTTATATTCATGAACCAAACGTATCCAAG
AGATGTGTATAAACAAATCTAAAAATAACTTCATTATACTATTAAATAAAGAATATATGTTCAAA
CCTTGAAACGAGATTATTGAGAGAAATATCCATGAAGCTGGTAAATGAAAGGTCTGAAATTCCAA
TCAAGATTAAATATAGAGAAAAGGGAAATAATTAAATAATTTCATATAAAAATAATTGCATAGTC
GATTTTAAAATCATATACTCTACAATCAAATTAATACTCAAAAAATATAAA
Found at i:522642 original size:24 final size:24
Alignment explanation
Indices: 522612--522684 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
522602 ATACATAACC
*
522612 TGAATTCTGTTATGATTTCTAATA
1 TGAATTCTGTTATGATTTCTGATA
* * * *
522636 TGGATTCTGTTATAATATCTGATC
1 TGAATTCTGTTATGATTTCTGATA
*
522660 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTATGATTTCTGATA
522684 T
1 T
522685 CTCTGTTTAC
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.51
Consensus pattern (24 bp):
TGAATTCTGTTATGATTTCTGATA
Found at i:524861 original size:13 final size:14
Alignment explanation
Indices: 524835--524864 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
524825 TTGACCTGAC
524835 CCGTTGACTATTGA
1 CCGTTGACTATTGA
524849 CCGTTGACT-TTGA
1 CCGTTGACTATTGA
524862 CCG
1 CCG
524865 AAAAAGTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.17, C:0.27, G:0.23, T:0.33
Consensus pattern (14 bp):
CCGTTGACTATTGA
Found at i:527203 original size:24 final size:24
Alignment explanation
Indices: 527168--527240 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
527158 ATTACTGACT
*
527168 TGAATTATGTTCTGATTTTTGATA
1 TGAATTATGTTCTGATTTCTGATA
* * *
527192 TGGATTATGTTCTGATATCTGATC
1 TGAATTATGTTCTGATTTCTGATA
*
527216 TGAATTATGTTTTGATTTCTGATA
1 TGAATTATGTTCTGATTTCTGATA
527240 T
1 T
527241 CTCCGTTTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.23, C:0.07, G:0.18, T:0.52
Consensus pattern (24 bp):
TGAATTATGTTCTGATTTCTGATA
Found at i:527443 original size:19 final size:19
Alignment explanation
Indices: 527399--527444 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
527389 ATGGGGGTTC
*
527399 ATGTTTTAAAAATATTTAT
1 ATGTTTTAAAAATATGTAT
*
527418 ATGTTTTAAAAGATCTGTAT
1 ATGTTTTAAAA-ATATGTAT
527438 AT-TTTTA
1 ATGTTTTA
527445 CTAGTTTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (19 bp):
ATGTTTTAAAAATATGTAT
Found at i:532664 original size:39 final size:39
Alignment explanation
Indices: 532605--532778 Score: 170
Period size: 39 Copynumber: 4.5 Consensus size: 39
532595 CCGGTACACC
* * * *
532605 CAGTAAGGGCTTA-CCTTGTGCAAAAAGCAGAGGAGCTTG
1 CAGTAAGGACTTATCC-TGAGCACAAAGCAGAGGAGCCTG
* * * * *
532644 CAATAAGGTCTTATCCTGTGCACAAAGAAGAGGAGCCTA
1 CAGTAAGGACTTATCCTGAGCACAAAGCAGAGGAGCCTG
* *
532683 CAGTAAGGACTTATCCTGAGCTCAAAGCTGAGGAGCCTG
1 CAGTAAGGACTTATCCTGAGCACAAAGCAGAGGAGCCTG
* * * *
532722 CAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAACTTG
1 CAGTAAGGACTTATCCTGAGCACAAAGCAGAGGAGCCTG
* * *
532761 CAGCAATGACTTACCCTG
1 CAGTAAGGACTTATCCTG
532779 CTCATAATGC
Statistics
Matches: 115, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 113 0.98
40 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (39 bp):
CAGTAAGGACTTATCCTGAGCACAAAGCAGAGGAGCCTG
Found at i:532791 original size:39 final size:37
Alignment explanation
Indices: 532628--532800 Score: 121
Period size: 39 Copynumber: 4.5 Consensus size: 37
532618 CCTTGTGCAA
* ** * * *
532628 AAAGCAGAGGAGCTTGCAATAAGGTCTTATCCTGTGCAC
1 AAAGCTGAGGAGCTTGCAGCAAGGACTTA-CC-CTGCTC
** * * * *
532667 AAAGAAGAGGAGCCTACAGTAAGGACTTATCCTGAGCTC
1 AAAGCTGAGGAGCTTGCAGCAAGGACTTACCCT--GCTC
* * *
532706 AAAGCTGAGGAGCCTGCAGTAAGGACTTACCCTGAGCAC
1 AAAGCTGAGGAGCTTGCAGCAAGGACTTACCCT--GCTC
* *
532745 AAAGCTGAGGAACTTGCAGCAATGACTTACCCTGCTC
1 AAAGCTGAGGAGCTTGCAGCAAGGACTTACCCTGCTC
532782 ATAATGCTGAGGAGCTTGC
1 A-AA-GCTGAGGAGCTTGC
532801 GGTAGGGTCT
Statistics
Matches: 111, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
37 5 0.05
38 3 0.03
39 103 0.93
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (37 bp):
AAAGCTGAGGAGCTTGCAGCAAGGACTTACCCTGCTC
Found at i:532813 original size:78 final size:77
Alignment explanation
Indices: 532628--532813 Score: 194
Period size: 78 Copynumber: 2.4 Consensus size: 77
532618 CCTTGTGCAA
* * * * * *
532628 AAAGCAGAGGAGCTTGCAATAAGGTCTTATCCTGTGCACAAAGAAGAGGAGCCTACAGTAAGGAC
1 AAAGCTGAGGAGCTTGCAGTAAGGTCTTACCCTGAGCACAAAGAAGAGGAACCTACAGCAAGGAC
*
532693 TTATCCTGAGCTC
66 TTACCCT-AGCTC
* * ** * * *
532706 AAAGCTGAGGAGCCTGCAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAACTTGCAGCAATGAC
1 AAAGCTGAGGAGCTTGCAGTAAGGTCTTACCCTGAGCACAAAGAAGAGGAACCTACAGCAAGGAC
532771 TTACCCT-GCTC
66 TTACCCTAGCTC
* *
532782 ATAATGCTGAGGAGCTTGCGGTAGGGTCTTAC
1 A-AA-GCTGAGGAGCTTGCAGTAAGGTCTTAC
532814 AAGTCATAGA
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
76 5 0.06
77 2 0.02
78 81 0.92
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (77 bp):
AAAGCTGAGGAGCTTGCAGTAAGGTCTTACCCTGAGCACAAAGAAGAGGAACCTACAGCAAGGAC
TTACCCTAGCTC
Found at i:538729 original size:39 final size:39
Alignment explanation
Indices: 538524--538716 Score: 242
Period size: 39 Copynumber: 4.9 Consensus size: 39
538514 TGTACACCAG
* * * *
538524 TAAGGGCTTACCCTGTGCACAAAGAAGAGGAGCCTGCAG
1 TAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTGCAA
* * * * *
538563 TAAGGTCTTATCTTGTGAACAAAGCAGAGGAGCCTGCAA
1 TAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTGCAA
* *
538602 TAAGGACTTACCCTGAGTACAAAGCCGAGGAGCCTGCAA
1 TAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTGCAA
**
538641 TAAGGACTTACCCTGAGCACAAAGCTTAGGAGCCTGCAA
1 TAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTGCAA
* * *
538680 TAAGGACTTACCTTGAGCACAAACCTGAGGAGCCTGC
1 TAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTGC
538717 GGTAAGGTCT
Statistics
Matches: 136, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 136 1.00
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (39 bp):
TAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTGCAA
Found at i:540103 original size:29 final size:29
Alignment explanation
Indices: 540047--540108 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
540037 AATTTGGATA
* * *
540047 CGAATTTAATCAAAATTCACTTTGGTCCC
1 CGAATTAAATCAAAATTCAATTTAGTCCC
* *
540076 CGAATTAAATCAAAATTTAATTTAGTCCT
1 CGAATTAAATCAAAATTCAATTTAGTCCC
540105 CGAA
1 CGAA
540109 AAATCTGATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (29 bp):
CGAATTAAATCAAAATTCAATTTAGTCCC
Found at i:545679 original size:2 final size:2
Alignment explanation
Indices: 545672--545744 Score: 139
Period size: 2 Copynumber: 37.0 Consensus size: 2
545662 AATAAAATTA
545672 AT AT AT AT AT AT AT AT AT AT AT AT A- 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
545713 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
545745 TCATGAACTG
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 69 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:548895 original size:25 final size:25
Alignment explanation
Indices: 548861--548918 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
548851 TCCAAAATTT
548861 TCCAACTTATCAAGGCCATTCACAA
1 TCCAACTTATCAAGGCCATTCACAA
548886 TCCAACTTATCAAGGCCATTCACAA
1 TCCAACTTATCAAGGCCATTCACAA
548911 TCCAACTT
1 TCCAACTT
548919 TCTCAAGAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.34, C:0.33, G:0.07, T:0.26
Consensus pattern (25 bp):
TCCAACTTATCAAGGCCATTCACAA
Found at i:550271 original size:312 final size:312
Alignment explanation
Indices: 549697--550564 Score: 1229
Period size: 312 Copynumber: 2.8 Consensus size: 312
549687 TCTTCGAAAT
* * * * * * *
549697 ATGAACATTTTGCATAATTGTATTCTTATAGTTAATCTTATATTCATGAACCAAACTCTTCCGAG
1 ATGAATATATTGCATAATTGAATTCTTATAGTTAATCTTATATCCATGTACCAAACTCATCTGAG
* *
549762 AGATGTGGTATACACAAATCTAAAAATAACTACATTATACTCTTAAATAAAGAATCAATTTTCAA
66 AGATGTGGCATACACGAATCTAAAAATAACTACATTATACTCTTAAATAAAGAATCAATTTTCAA
*
549827 ACCTTGGAACGAGATTATTGGGAGAAATATCGAT-GAAGTTGGTAAATGCAAGGTCTGAAATTCC
131 ACCTTGGAACGAGATTATTGAGAGAAATATCG-TCGAAGTTGGTAAATGCAAGGTCTGAAATTCC
* * * *
549891 AAACAATAATAAATATAAAAGAAAAGGAAATAATAAAATAATATCATATACAAATAATTGCATAG
195 AAACAAAAATAAATATAGAAGAAAAAGAAATAATAAAATAATATCATATAAAAATAATTGCATAG
* * *
549956 TCGATTTCAGAATCATATACTCTATGATCAAATTAATACTCTATAAATATAAA
260 TCGATTTCAGAATCACATACTCTATAATCAAATTAATACTATATAAATATAAA
550009 ATGAATATATTGCATAATTGAATTCTTATAGTTAATCTTATATCCATGTACCAAACGT-ATCTGA
1 ATGAATATATTGCATAATTGAATTCTTATAGTTAATCTTATATCCATGTACCAAAC-TCATCTGA
*
550073 GAGATGTGGCATACACGAATCTAAAAATAACTACATTATACTCTTAAATAAATAATCAATTTTCA
65 GAGATGTGGCATACACGAATCTAAAAATAACTACATTATACTCTTAAATAAAGAATCAATTTTCA
*
550138 AACCTTGGAACGAGATTATTGAGATAAATATCGTCGAAGTTGGTAAATGCAAGGTCTGAAATTCC
130 AACCTTGGAACGAGATTATTGAGAGAAATATCGTCGAAGTTGGTAAATGCAAGGTCTGAAATTCC
**
550203 AAACAAAAATAAATATAGAAGAAATTGAAATAATAAAATAATATCATATAAAAATAATTGCATAG
195 AAACAAAAATAAATATAGAAGAAAAAGAAATAATAAAATAATATCATATAAAAATAATTGCATAG
* *
550268 TCGATTTCAGTATCACATACTCTATAATCAGATTAATACTATATAAATATAAA
260 TCGATTTCAGAATCACATACTCTATAATCAAATTAATACTATATAAATATAAA
* * *
550321 ATAAATATATTGGATAATTGCATTCTTATAGTTAATCTTATATCCATGTACCAAACTCAT-TCGA
1 ATGAATATATTGCATAATTGAATTCTTATAGTTAATCTTATATCCATGTACCAAACTCATCT-GA
* * * * * *
550385 GAGATGTGGCATGCACGAATCTAAAAATAACTAAATTATAATTTTAAATAAAGAATCCATGTTCA
65 GAGATGTGGCATACACGAATCTAAAAATAACTACATTATACTCTTAAATAAAGAATCAATTTTCA
** * * * ** * * * **
550450 AACCTTTAAACAATATTATTAAGAGAAATATCCACGAAGCTGGTAAATGAAATGTCTAGAAAAAC
130 AACCTTGGAACGAGATTATTGAGAGAAATATCGTCGAAGTTGGTAAATGCAAGGTCT-GAAATTC
* * * * * *
550515 CAATCAAGATTAAATATAGAAGAAAGAGAAACAATAAAATAATTTCATAT
194 CAAACAAAAATAAATATAGAAGAAAAAGAAATAATAAAATAATATCATAT
550565 GTTAAATTTG
Statistics
Matches: 499, Mismatches: 52, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
311 3 0.01
312 447 0.90
313 49 0.10
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.31
Consensus pattern (312 bp):
ATGAATATATTGCATAATTGAATTCTTATAGTTAATCTTATATCCATGTACCAAACTCATCTGAG
AGATGTGGCATACACGAATCTAAAAATAACTACATTATACTCTTAAATAAAGAATCAATTTTCAA
ACCTTGGAACGAGATTATTGAGAGAAATATCGTCGAAGTTGGTAAATGCAAGGTCTGAAATTCCA
AACAAAAATAAATATAGAAGAAAAAGAAATAATAAAATAATATCATATAAAAATAATTGCATAGT
CGATTTCAGAATCACATACTCTATAATCAAATTAATACTATATAAATATAAA
Found at i:552935 original size:39 final size:38
Alignment explanation
Indices: 552873--553077 Score: 216
Period size: 39 Copynumber: 5.3 Consensus size: 38
552863 ACACATAGCA
* * *
552873 TAAGGACTTA-CTCTGTGCGCAAAGCAGAGGAGCCTGTGG
1 TAAGGACTTACCT-TGAGCACAAAGC-GAGGAGCCTGCGG
* * * *
552912 TAAAGACTTACCTTGAGCACAAAGTCGAGGAACATGTGG
1 TAAGGACTTACCTTGAGCACAAAG-CGAGGAGCCTGCGG
* *
552951 GAAGGACTTACCCTGAGCACAAAGCCGAGGAG-CTGCGG
1 TAAGGACTTACCTTGAGCACAAAG-CGAGGAGCCTGCGG
* * *
552989 TAAGGACTTACCATGAGCACAAAGTCGAGAAGCCTACGG
1 TAAGGACTTACCTTGAGCACAAAG-CGAGGAGCCTGCGG
* *
553028 TAAGGACTTATCTTGTGCACAAAGCCGAGGAGCCTGCGG
1 TAAGGACTTACCTTGAGCACAAAG-CGAGGAGCCTGCGG
553067 TAAGGACTTAC
1 TAAGGACTTAC
553078 AAGTCATAGA
Statistics
Matches: 139, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
38 32 0.23
39 104 0.75
40 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.29, T:0.18
Consensus pattern (38 bp):
TAAGGACTTACCTTGAGCACAAAGCGAGGAGCCTGCGG
Found at i:553011 original size:77 final size:78
Alignment explanation
Indices: 552874--553077 Score: 268
Period size: 77 Copynumber: 2.6 Consensus size: 78
552864 CACATAGCAT
* * * * * *
552874 AAGGACTTACTCTGTGCGCAAAGCAGAGGAGCCTGTGGTAAAGACTTACCTTGAGCACAAAGTCG
1 AAGGACTTACCCTGTGCACAAAGCCGAGGAGCCTGCGGTAAGGACTTACCATGAGCACAAAGTCG
**
552939 AGGAA-CATGTGGG
66 A-GAAGCATACGGG
*
552952 AAGGACTTACCCTGAGCACAAAGCCGAGGAG-CTGCGGTAAGGACTTACCATGAGCACAAAGTCG
1 AAGGACTTACCCTGTGCACAAAGCCGAGGAGCCTGCGGTAAGGACTTACCATGAGCACAAAGTCG
* *
553016 AGAAGCCTACGGT
66 AGAAGCATACGGG
* *
553029 AAGGACTTATCTTGTGCACAAAGCCGAGGAGCCTGCGGTAAGGACTTAC
1 AAGGACTTACCCTGTGCACAAAGCCGAGGAGCCTGCGGTAAGGACTTAC
553078 AAGTCATAGA
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
76 3 0.03
77 63 0.57
78 44 0.40
ACGTcount: A:0.31, C:0.22, G:0.29, T:0.18
Consensus pattern (78 bp):
AAGGACTTACCCTGTGCACAAAGCCGAGGAGCCTGCGGTAAGGACTTACCATGAGCACAAAGTCG
AGAAGCATACGGG
Found at i:559495 original size:24 final size:24
Alignment explanation
Indices: 559468--559558 Score: 103
Period size: 24 Copynumber: 3.8 Consensus size: 24
559458 TCAAATTTGA
* * *
559468 ATTCTGTTATGATACCTAACCTGG
1 ATTCTGATATGATACATGACCTGG
* *
559492 ATTCTGATATGATA-TTGACATGG
1 ATTCTGATATGATACATGACCTGG
* *
559515 ATTATGATCTGATACATGACCTGG
1 ATTCTGATATGATACATGACCTGG
*
559539 ATTCTGATATGATACTTGAC
1 ATTCTGATATGATACATGAC
559559 TTGAATTATG
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
23 18 0.33
24 37 0.67
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (24 bp):
ATTCTGATATGATACATGACCTGG
Found at i:559537 original size:47 final size:48
Alignment explanation
Indices: 559477--559568 Score: 141
Period size: 47 Copynumber: 1.9 Consensus size: 48
559467 AATTCTGTTA
* *
559477 TGATACCTAACCTGGATTCTGATATGATA-TTGACATGGATTATGATC
1 TGATACATAACCTGGATTCTGATATGATACTTGACATGAATTATGATC
* *
559524 TGATACATGACCTGGATTCTGATATGATACTTGACTTGAATTATG
1 TGATACATAACCTGGATTCTGATATGATACTTGACATGAATTATG
559569 TTTTGATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 27 0.68
48 13 0.32
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (48 bp):
TGATACATAACCTGGATTCTGATATGATACTTGACATGAATTATGATC
Found at i:562164 original size:20 final size:21
Alignment explanation
Indices: 562139--562186 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
562129 AGTTTTCATG
562139 AAAACAAC-ATAATT-AAATCA
1 AAAACAACAAT-ATTAAAATCA
*
562159 AAAACAACAATTTTAAAATCA
1 AAAACAACAATATTAAAATCA
562180 AAAACAA
1 AAAACAA
562187 TTTTTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.19
Consensus pattern (21 bp):
AAAACAACAATATTAAAATCA
Found at i:571549 original size:39 final size:39
Alignment explanation
Indices: 571395--571533 Score: 154
Period size: 39 Copynumber: 3.6 Consensus size: 39
571385 CATAAGGACT
* * * ***
571395 TGCGGTAAGGACTTACCCTGTGTAGAAAATAGAGGAG-C
1 TGCGGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGTC
* * *
571433 ATGCGGTAAGGACTTACACTAAGCACAAAGCCGAGGAGCC
1 -TGCGGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGTC
* * *
571473 TGCGATAAAGACTTACCCTGAGCACAAAGCGGAGGAGTC
1 TGCGGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGTC
571512 TGCGGTAAGGACTTACCCTGAG
1 TGCGGTAAGGACTTACCCTGAG
571534 AACCAAGCTT
Statistics
Matches: 83, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 82 0.99
40 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.29, T:0.17
Consensus pattern (39 bp):
TGCGGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGTC
Found at i:571561 original size:39 final size:39
Alignment explanation
Indices: 571399--571566 Score: 115
Period size: 39 Copynumber: 4.3 Consensus size: 39
571389 AGGACTTGCG
* * * *** * *
571399 GTAAGGACTTACCCTGTGTAGAAAATAGAGGAGCATGCG
1 GTAAGGACTTACCCTGAGAACAAAGCGGAGGAGTATGCA
* * * * **
571438 GTAAGGACTTACACTAAGCACAAAGCCGAGGAGCCTGC-
1 GTAAGGACTTACCCTGAGAACAAAGCGGAGGAGTATGCA
* * * *
571476 GATAAAGACTTACCCTGAGCACAAAGCGGAGGAGTCTGCG
1 G-TAAGGACTTACCCTGAGAACAAAGCGGAGGAGTATGCA
* **
571516 GTAAGGACTTACCCTGAGAACCAAGCTTAGGAGTATGCAA
1 GTAAGGACTTACCCTGAGAACAAAGCGGAGGAGTATGC-A
571556 G-AAGGACTTAC
1 GTAAGGACTTAC
571567 AAGTCATAGA
Statistics
Matches: 105, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
38 1 0.01
39 102 0.97
40 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.28, T:0.17
Consensus pattern (39 bp):
GTAAGGACTTACCCTGAGAACAAAGCGGAGGAGTATGCA
Found at i:578241 original size:18 final size:18
Alignment explanation
Indices: 578220--578258 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
578210 ATATATTATC
*
578220 ATTGATTTTACTCTATTT
1 ATTGATTTTAATCTATTT
*
578238 ATTGATTTTAATTTATTT
1 ATTGATTTTAATCTATTT
578256 ATT
1 ATT
578259 ATTATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (18 bp):
ATTGATTTTAATCTATTT
Found at i:580740 original size:45 final size:45
Alignment explanation
Indices: 580617--581088 Score: 564
Period size: 45 Copynumber: 10.6 Consensus size: 45
580607 GAGCCTAAGG
* * * * *
580617 AAAACTATAAGGTCTTAACCTTGCACACAATAAAAGAA-CTGAGA
1 AAAACTGTAAGGTCTTACCCTTGCACACAACAAAGGAACCTGGGA
* * *
580661 AAAACTGTAAAGTCTTA-CTTTGCACACAACAAAGGAATCTGGGA
1 AAAACTGTAAGGTCTTACCCTTGCACACAACAAAGGAACCTGGGA
* *
580705 AAAACTATAAGGTCTTACCCTTGCATACAACAAAGGAACCTAGGGA
1 AAAACTGTAAGGTCTTACCCTTGCACACAACAAAGGAACCT-GGGA
* * *
580751 AAAA-TATAAGGTCTTACCCTTACACACAACAAAGGAACCTGGGG
1 AAAACTGTAAGGTCTTACCCTTGCACACAACAAAGGAACCTGGGA
* * *
580795 CAAACTGTAAGGTCTTATCCTTGCACACAACAAAGGAACCTGGGG
1 AAAACTGTAAGGTCTTACCCTTGCACACAACAAAGGAACCTGGGA
* * *
580840 AAAATTGTAAGGTCTTACCTTTGCACACAACAAAGGAACCTGGGG
1 AAAACTGTAAGGTCTTACCCTTGCACACAACAAAGGAACCTGGGA
* *
580885 CAAACTGTAAGGTCTTACCCTTGCACACAACAAAGGAACCTAAGG-
1 AAAACTGTAAGGTCTTACCCTTGCACACAACAAAGGAACCT-GGGA
* *
580930 AAAACTGTAAGGTCTTACCTTTGCACACAACAAAGAAACCTGGG-
1 AAAACTGTAAGGTCTTACCCTTGCACACAACAAAGGAACCTGGGA
* * *
580974 GAAACTGTAAGGTCTTACCTTTGCACACAACAAAGGAACATGGGA
1 AAAACTGTAAGGTCTTACCCTTGCACACAACAAAGGAACCTGGGA
* * * * * *
581019 AAAACTATAAGGTCTTACCCTTGCACATAGCAGAGGAGCCTAGG-
1 AAAACTGTAAGGTCTTACCCTTGCACACAACAAAGGAACCTGGGA
*
581063 -AAAC-GATAAGGACTTACCCTTGCACA
1 AAAACTG-TAAGGTCTTACCCTTGCACA
581089 TAGCAGAGGA
Statistics
Matches: 377, Mismatches: 44, Indels: 15
0.86 0.10 0.03
Matches are distributed among these distances:
43 40 0.11
44 84 0.22
45 243 0.64
46 10 0.03
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (45 bp):
AAAACTGTAAGGTCTTACCCTTGCACACAACAAAGGAACCTGGGA
Found at i:581082 original size:43 final size:43
Alignment explanation
Indices: 581020--581102 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
581010 AACATGGGAA
* *
581020 AAACTATAAGGTCTTACCCTTGCACATAGCAGAGGAGCCTAGG
1 AAACGATAAGGACTTACCCTTGCACATAGCAGAGGAGCCTAGG
581063 AAACGATAAGGACTTACCCTTGCACATAGCAGAGGAGCCT
1 AAACGATAAGGACTTACCCTTGCACATAGCAGAGGAGCCT
581103 CCGGTAACGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (43 bp):
AAACGATAAGGACTTACCCTTGCACATAGCAGAGGAGCCTAGG
Found at i:592383 original size:24 final size:24
Alignment explanation
Indices: 592287--592388 Score: 82
Period size: 24 Copynumber: 4.2 Consensus size: 24
592277 GAATATTTTA
* *
592287 TCTGATTTCTGATTTGAATTCTGT
1 TCTGATATCTGATCTGAATTCTGT
* * * *
592311 TTTGACATCTGATATGAAATCTGT
1 TCTGATATCTGATCTGAATTCTGT
* *
592335 TCTGAT-TCCTAACCT-ATATTCTGT
1 TCTGATAT-CTGATCTGA-ATTCTGT
*
592359 TCTGATATCTGATCTGAATTATGT
1 TCTGATATCTGATCTGAATTCTGT
*
592383 TTTGAT
1 TCTGAT
592389 TTCCGATATC
Statistics
Matches: 59, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
23 2 0.03
24 55 0.93
25 2 0.03
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.48
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTCTGT
Found at i:595805 original size:18 final size:18
Alignment explanation
Indices: 595779--595814 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
595769 TCGAAAGGAC
*
595779 TGAAATAAATGATAAGAT
1 TGAAATAAATAATAAGAT
*
595797 TGAATTAAATAATAAGAT
1 TGAAATAAATAATAAGAT
595815 AGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.14, T:0.31
Consensus pattern (18 bp):
TGAAATAAATAATAAGAT
Found at i:595930 original size:26 final size:26
Alignment explanation
Indices: 595892--595944 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
595882 TGACCCAAGA
*
595892 ATATCATCAAGCT-TAGAAATGATTGG
1 ATATCATCAAGCTCT-GAAATGAATGG
* *
595918 ATATCCTCGAGCTCTGAAATGAATGG
1 ATATCATCAAGCTCTGAAATGAATGG
595944 A
1 A
595945 ATAAAGCTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (26 bp):
ATATCATCAAGCTCTGAAATGAATGG
Found at i:597125 original size:24 final size:24
Alignment explanation
Indices: 597033--597134 Score: 80
Period size: 24 Copynumber: 4.2 Consensus size: 24
597023 CAATATTTTA
* * *
597033 TCTGATTTCTGATTTGAATTCTGT
1 TCTGATATCTGATCTGAATTATGT
* * * * *
597057 TTTGACATCTGATATGAAATCTGT
1 TCTGATATCTGATCTGAATTATGT
* * *
597081 TCTGAT-TCCTAACCTGGATTATGT
1 TCTGATAT-CTGATCTGAATTATGT
597105 TCTGATATCTGATCTGAATTATGT
1 TCTGATATCTGATCTGAATTATGT
*
597129 TTTGAT
1 TCTGAT
597135 TTCCGATTTC
Statistics
Matches: 59, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
23 1 0.02
24 57 0.97
25 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.47
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTATGT
Found at i:598521 original size:13 final size:13
Alignment explanation
Indices: 598500--598538 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
598490 GAGTCAACCT
*
598500 GTTGTCTTTGACA
1 GTTGACTTTGACA
598513 GTTGACTTTGACCA
1 GTTGACTTTGA-CA
598527 -TTGACTTTGACA
1 GTTGACTTTGACA
598539 AAAAAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 2 0.08
13 20 0.83
14 2 0.08
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (13 bp):
GTTGACTTTGACA
Found at i:605929 original size:29 final size:30
Alignment explanation
Indices: 605868--605941 Score: 141
Period size: 29 Copynumber: 2.5 Consensus size: 30
605858 TTTGGATATG
605868 AATTTAATCAAAATTTAACTTTAGTCCCTA
1 AATTTAATCAAAATTTAACTTTAGTCCCTA
605898 AATTTAATCAAAATTTAA-TTTAGTCCCTA
1 AATTTAATCAAAATTTAACTTTAGTCCCTA
605927 AATTTAATCAAAATT
1 AATTTAATCAAAATT
605942 AAAATGAGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 26 0.59
30 18 0.41
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.41
Consensus pattern (30 bp):
AATTTAATCAAAATTTAACTTTAGTCCCTA
Found at i:606876 original size:2 final size:2
Alignment explanation
Indices: 606865--606906 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
606855 TCGTTTATTC
606865 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
606905 TA
1 TA
606907 AGTACAATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:607397 original size:13 final size:13
Alignment explanation
Indices: 607379--607406 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
607369 TTAAGTAATT
607379 ATTTTTTAAAATA
1 ATTTTTTAAAATA
607392 ATTTTTTAAAATA
1 ATTTTTTAAAATA
607405 AT
1 AT
607407 GATAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTTTTAAAATA
Found at i:609650 original size:310 final size:310
Alignment explanation
Indices: 609051--609654 Score: 759
Period size: 309 Copynumber: 1.9 Consensus size: 310
609041 TTGTAATATG
* *
609051 AATATATTGCATAATCATATTCTTATAGTTAATCTTATATTCATGAACCAAACACATCCAAGAGA
1 AATATATTCCATAATCATATTCTTATAGTTAATC-TATATCCATGAACCAAACACATCCAAGAGA
** * * * * **
609116 TGTGGCATACACGAATCTAAAAATAACTACAATATACACTTAAATAAAGATTCTATGTTCAAACC
65 CATGACATACACAAATCTAAAAATAACTACAATATACACTTAAATAAAGATACCACATTCAAACC
* * * * * * *
609181 TTAAAACGAGATTATTGTGAGAAATATCCATGAAGCTGGTAAATGAAAGGTCTGAAATTCCAATC
130 TTAAAACGAGATTATTGAGAGAAATAGCCACGAAGCTAGTAAATAAAAGGTCTAAAAGTCCAATC
* * * *
609246 ATGAATAAATATAGAGAAAAGGGAAACAATTAAATAATTGCATATAGAAATAATTGCATAGTCGA
195 AAGAATAAATATAGAGAAAAGGGAAACAATAAAATAATTGCATATAAAAATAATTGCACAGTCGA
609311 TTTCAGAATCATATACTCTATAATCAAATTAATACTCGATAAATATAAAAT
260 TTTCAGAATCATATACTCTATAATCAAATTAATACTCGATAAATATAAAAT
* * *
609362 AATATATTCCATAATCATATTCTTATAGTTAGTC-ATATCCATGAACCAAACATAT-TAGAGAGA
1 AATATATTCCATAATCATATTCTTATAGTTAATCTATATCCATGAACCAAACACATCCA-AGAGA
** ** *
609425 CATGACATACACAAATCTAAAAATAACTACTTTATACTTTTAAATAAAGA-ACGCACATTCTAAC
65 CATGACATACACAAATCTAAAAATAACTACAATATACACTTAAATAAAGATAC-CACATTCAAAC
* * **
609489 CTTGAAACTATTTTATTGAGAGAAATAGCCACGAAGCTAGTAAATAAAAGGTCTAAAAAGTCCAA
129 CTTAAAACGAGATTATTGAGAGAAATAGCCACGAAGCTAGTAAATAAAAGGTCT-AAAAGTCCAA
* * * * *
609554 TCAAGATTAAATATTA-A-ATAAAGGGAAATAATAAAATAATTTCATATAAAAATTATTGTACAG
193 TCAAGAATAAATA-TAGAGA-AAAGGGAAACAATAAAATAATTGCATATAAAAATAATTGCACAG
* *
609617 TCGATTTCATAATCATATACTCTATAGTCAAATTAATA
256 TCGATTTCAGAATCATATACTCTATAATCAAATTAATA
609655 TATATATATA
Statistics
Matches: 248, Mismatches: 40, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
308 2 0.01
309 119 0.48
310 93 0.38
311 34 0.14
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (310 bp):
AATATATTCCATAATCATATTCTTATAGTTAATCTATATCCATGAACCAAACACATCCAAGAGAC
ATGACATACACAAATCTAAAAATAACTACAATATACACTTAAATAAAGATACCACATTCAAACCT
TAAAACGAGATTATTGAGAGAAATAGCCACGAAGCTAGTAAATAAAAGGTCTAAAAGTCCAATCA
AGAATAAATATAGAGAAAAGGGAAACAATAAAATAATTGCATATAAAAATAATTGCACAGTCGAT
TTCAGAATCATATACTCTATAATCAAATTAATACTCGATAAATATAAAAT
Found at i:611980 original size:26 final size:28
Alignment explanation
Indices: 611932--612004 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 28
611922 GTTGGATAAG
*
611932 AAATTACCAAAAATAACAC-TATG-GGT-A
1 AAATTA-CAAAAAT-ACCCTTATGAGGTAA
611959 AAATTACAAAAATACCCTTATGAGGTAA
1 AAATTACAAAAATACCCTTATGAGGTAA
*
611987 AAATGAC-AAAATACCCTT
1 AAATTACAAAAATACCCTT
612005 GAAGTGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
25 3 0.07
26 11 0.27
27 20 0.49
28 7 0.17
ACGTcount: A:0.51, C:0.16, G:0.10, T:0.23
Consensus pattern (28 bp):
AAATTACAAAAATACCCTTATGAGGTAA
Found at i:616282 original size:312 final size:310
Alignment explanation
Indices: 615652--616255 Score: 710
Period size: 312 Copynumber: 2.0 Consensus size: 310
615642 TCTTCGAAAT
* * *
615652 ATGAATATATTGCATAATCGTATTCTCGTAGTTAATCTTATATTCATGAAAAAAACGCATCCAAG
1 ATGAATATATTGAATAATCGTATTCTC-TAGTTAATCTAATATCCATGAAAAAAACGCATCCAAG
* * * *
615717 AGATGTTGTATACACAAATCTAAAAATAACTACGTTATACTCTTAAATAAAGAATCAATTATCAA
65 AGATGTGGCATACACAAATCTAAAAATAACTACATTATACTCATAAATAAAGAATCAATTATCAA
* * * * * **
615782 AAACTTAAAACAAGATTATTGAGAGAAATATCGATGAAGTTGGTAAATCAAAGGTCTGAAATTCC
130 AAACTTAAAACAAGAATATTGAGAAAAATATCCACGAAGTCGGTAAATCAAAGGTCTGAAAGACC
*
615847 AAACAAGATTAAATATAGAAGAGAAGGAAACAATAAAATAATATCATATAAAAATAATTGCATAG
195 AAACAAGATTAAATATAGAAGAAAAGGAAACAAT-AAAT-ATATCATATAAAAATAATTGCATAG
* *
615912 TAGATTTCAGAATCATATATTCTATAATAAAATTAATACTCTATAAATATAAA
258 TAGATTTCAGAATCATATACTCTATAATAAAATTAATAATCTATAAATATAAA
* *** **
615965 ATGAATATATTGAATAATTGTATTCT-TAAGTTAATCTAATATCCAAT-AACCGAACGCATCTGA
1 ATGAATATATTGAATAATCGTATTCTCT-AGTTAATCTAATATCC-ATGAAAAAAACGCATCCAA
* *
616028 GAGATGTGGCATACACAAATCTATAAATAACTACATTATACTCATAAATAAAGAATCCATGT-TC
64 GAGATGTGGCATACACAAATCTAAAAATAACTACATTATACTCATAAATAAAGAATCAAT-TATC
* * ** * *
616092 -AAACCTTGAAATGAGAATATTGAGAAAAATATCCACGAAG-CGGTAAATGAAATGTCTAGAAAG
128 AAAAACTTAAAACAAGAATATTGAGAAAAATATCCACGAAGTCGGTAAATCAAAGGTCT-GAAAG
* * *
616155 ACCAATCAAGATTAAATATAGAAGAAAGAGGAAA-AAT-AAT-T-TCATATAAAAA-ATTTTGTA
192 ACCAAACAAGATTAAATATAGAAGAAA-AGGAAACAATAAATATATCATATAAAAATA-ATTGCA
*
616215 TAGTTA-ATTTCATAATCATATACTCTATAA-ACAAATTAATA
255 TAG-TAGATTTCAGAATCATATACTCTATAATA-AAATTAATA
616256 TATACATATA
Statistics
Matches: 249, Mismatches: 34, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
305 2 0.01
306 49 0.20
307 3 0.01
309 3 0.01
310 14 0.06
311 64 0.26
312 87 0.35
313 27 0.11
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (310 bp):
ATGAATATATTGAATAATCGTATTCTCTAGTTAATCTAATATCCATGAAAAAAACGCATCCAAGA
GATGTGGCATACACAAATCTAAAAATAACTACATTATACTCATAAATAAAGAATCAATTATCAAA
AACTTAAAACAAGAATATTGAGAAAAATATCCACGAAGTCGGTAAATCAAAGGTCTGAAAGACCA
AACAAGATTAAATATAGAAGAAAAGGAAACAATAAATATATCATATAAAAATAATTGCATAGTAG
ATTTCAGAATCATATACTCTATAATAAAATTAATAATCTATAAATATAAA
Found at i:617386 original size:278 final size:276
Alignment explanation
Indices: 616888--617417 Score: 690
Period size: 278 Copynumber: 1.9 Consensus size: 276
616878 TCTTCGTAAT
* * * *
616888 ATGAATATATTGAATAATTGTATTCTTATAGTTAATCTTATATTCATGAACCAAACGCATCCATG
1 ATGAATATATTGAATAATTCTATTCTTATAGGTAATCATATATCCATGAACCAAACGCATCCATG
** * * *
616953 AGATGTGGTATAAACAAATCTAAAAATAACTTCATTATACTCTTAAATAAAGAATCTATGTTCAA
66 AGACATGGCATAAACAAATCTAAAAATAACTACATTATACTCTTAAATAAACAATC--TGTTCAA
* * ** * *
617018 ACCATAAACAAGATTATTGAGAGAAATATATACGAAGCTCGTAAATGTAAGGTCTGAAATTCCAA
129 ACCATAAACAAGATTATTGAGAGAAATATACACGAAGCTAGTAAATAAAAGGTCTAAAAGTCCAA
* *
617083 TCAAGATTAAAAATAGAGAAAAGGGAAACAATTAAATAATTTCATATAAAAATAATTGCATAATT
194 TCAAGATTAAAAATAAAGAAAAGGG-AACAATAAAATAATTTCATATAAAAATAATTGCATAATT
617148 AATACTCAACAAATATAAA
258 AATACTCAACAAATATAAA
* * *
617167 ATGAATATATTGCATAATTCTATTCTTATAGGTATATCATATATCCATGAACCAAATGTATCCCA
1 ATGAATATATTGAATAATTCTATTCTTATAGGTA-ATCATATATCCATGAACCAAACGCAT-CCA
* * * *
617232 -GAGACATGGCATACACGAATCTAAAAATAACTACATTATACTCTTTAATAACCCAA-C-GTTCA
64 TGAGACATGGCATAAACAAATCTAAAAATAACTACATTATACTCTTAAATAA-ACAATCTGTTCA
* * * *
617294 AACCTTGAAACTAGATTATTGAGAGAAATATCCACGAAGCTAGTAAATAAAATGTCTAAAAGTCC
128 AACCAT-AAACAAGATTATTGAGAGAAATATACACGAAGCTAGTAAATAAAAGGTCTAAAAGTCC
* *
617359 AATCAAGATTAAATATTAAAG-AAAGGGAACAATAAAATAATTTCATATAAAAATTATTG
192 AATCAAGATTAAA-AATAAAGAAAAGGGAACAATAAAATAATTTCATATAAAAATAATTG
617418 TACAGTCGAT
Statistics
Matches: 216, Mismatches: 30, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
277 40 0.19
278 68 0.31
279 36 0.17
280 67 0.31
281 5 0.02
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (276 bp):
ATGAATATATTGAATAATTCTATTCTTATAGGTAATCATATATCCATGAACCAAACGCATCCATG
AGACATGGCATAAACAAATCTAAAAATAACTACATTATACTCTTAAATAAACAATCTGTTCAAAC
CATAAACAAGATTATTGAGAGAAATATACACGAAGCTAGTAAATAAAAGGTCTAAAAGTCCAATC
AAGATTAAAAATAAAGAAAAGGGAACAATAAAATAATTTCATATAAAAATAATTGCATAATTAAT
ACTCAACAAATATAAA
Found at i:618767 original size:31 final size:31
Alignment explanation
Indices: 618693--618780 Score: 74
Period size: 31 Copynumber: 2.8 Consensus size: 31
618683 CCCTAAGGGA
*
618693 ACATCTTAGGGCCTGAGAGCCTACCCAAGAT
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGAC
* * * *
618724 AGAT-TTCGGGGCCTG-GGGCCTACCTAAGAAC
1 ACATCTT-AGGGCCTGAGAGCCTACCCAAG-AC
*
618755 ACATCTTAGGGCC-GCAGGGCCTACCC
1 ACATCTTAGGGCCTG-AGAGCCTACCC
618781 GAGAATAATC
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
30 14 0.32
31 19 0.43
32 11 0.25
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.18
Consensus pattern (31 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGAC
Found at i:618777 original size:32 final size:31
Alignment explanation
Indices: 618739--618815 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
618729 TCGGGGCCTG
*
618739 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAACA-ATCTCAGGGCCGCA
** *
618771 GGGCCTACCCGAGAATAATCTCAGGGCCGCA
1 GGGCCTACCTAAGAACAATCTCAGGGCCGCA
**
618802 GAACCTACCTAAGA
1 GGGCCTACCTAAGA
618816 GTCACATTAG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 23 0.62
32 14 0.38
ACGTcount: A:0.30, C:0.31, G:0.25, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAACAATCTCAGGGCCGCA
Found at i:619697 original size:7 final size:7
Alignment explanation
Indices: 619685--619722 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
619675 GTCAAAGAAA
619685 GTCAACG
1 GTCAACG
619692 GTCAACG
1 GTCAACG
619699 GTCAACG
1 GTCAACG
*
619706 ATCAACG
1 GTCAACG
619713 GTCAACG
1 GTCAACG
619720 GTC
1 GTC
619723 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:619740 original size:22 final size:22
Alignment explanation
Indices: 619712--619754 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
619702 AACGATCAAC
619712 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
619734 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
619755 AGACCGGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:619769 original size:9 final size:9
Alignment explanation
Indices: 619751--619849 Score: 72
Period size: 9 Copynumber: 10.3 Consensus size: 9
619741 GGTCGGGTCG
*
619751 GGTCAGACC
1 GGTCAAACC
619760 GGTCAAACC
1 GGTCAAACC
* * *
619769 GATTTAGACC
1 G-GTCAAACC
*
619779 GATCAAACC
1 GGTCAAACC
*
619788 GGTTCGAACC
1 GG-TCAAACC
*
619798 GGTTGAAACC
1 GG-TCAAACC
619808 GGTCAAACC
1 GGTCAAACC
619817 GGTCAGAACC
1 GGTCA-AACC
*
619827 GGTTGAAAACC
1 GG-T-CAAACC
619838 GGTCAAACC
1 GGTCAAACC
619847 GGT
1 GGT
619850 TTCCAGCAGC
Statistics
Matches: 71, Mismatches: 14, Indels: 10
0.75 0.15 0.11
Matches are distributed among these distances:
9 34 0.48
10 29 0.41
11 7 0.10
12 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.26, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:619808 original size:29 final size:31
Alignment explanation
Indices: 619776--619850 Score: 120
Period size: 29 Copynumber: 2.5 Consensus size: 31
619766 ACCGATTTAG
*
619776 ACCGATCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
619805 ACCGGTCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
619835 ACCGGTCAAACCGGTT
1 ACCGGTCAAACCGGTT
619851 TCCAGCAGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 2 0.05
29 23 0.55
30 16 0.38
31 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.25, T:0.16
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:619838 original size:21 final size:20
Alignment explanation
Indices: 619812--619850 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
619802 GAAACCGGTC
619812 AAACCGGTCAGAACCGGTTGA
1 AAACCGGTCA-AACCGGTTGA
619833 AAACCGGTCAAACCGGTT
1 AAACCGGTCAAACCGGTT
619851 TCCAGCAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.26, G:0.26, T:0.15
Consensus pattern (20 bp):
AAACCGGTCAAACCGGTTGA
Found at i:626121 original size:63 final size:63
Alignment explanation
Indices: 626031--626154 Score: 162
Period size: 63 Copynumber: 2.0 Consensus size: 63
626021 CCCTAAGGGA
* * ** *
626031 ACATCTTAGGGCCTGAGAGCCTACCCAAG-ATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGAATA-ATCTCAGGGCCGCAGAGCCTACCTAAGAAC
*
626094 ACATCTTAGGGCC-GCAGGGCCTACCCAAGAATAATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGAATAATCTCAGGGCCGCAGAGCCTACCTAAGA
626155 GTCACATTAG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
62 1 0.02
63 49 0.92
64 3 0.06
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGAATAATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:626139 original size:31 final size:32
Alignment explanation
Indices: 626031--626154 Score: 110
Period size: 31 Copynumber: 3.9 Consensus size: 32
626021 CCCTAAGGGA
* *
626031 ACATCTTAGGGCCTG-AGAGCCTACCCAAG-AT
1 ACATCTCAGGGCC-GCAGGGCCTACCCAAGAAT
* * * ** * *
626062 AGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTCAGGGCCGCAGGGCCTACCCAAGAAT
*
626094 ACATCTTAGGGCCGCAGGGCCTACCCAAGAAT
1 ACATCTCAGGGCCGCAGGGCCTACCCAAGAAT
* *
626126 A-ATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTCAGGGCCGCAGGGCCTACCCAAGA
626155 GTCACATTAG
Statistics
Matches: 72, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
30 1 0.01
31 45 0.62
32 26 0.36
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (32 bp):
ACATCTCAGGGCCGCAGGGCCTACCCAAGAAT
Found at i:627036 original size:7 final size:7
Alignment explanation
Indices: 627024--627075 Score: 95
Period size: 7 Copynumber: 7.4 Consensus size: 7
627014 GTCAAAGAAA
627024 GTCAACG
1 GTCAACG
627031 GTCAACG
1 GTCAACG
627038 GTCAACG
1 GTCAACG
*
627045 GTCAAAG
1 GTCAACG
627052 GTCAACG
1 GTCAACG
627059 GTCAACG
1 GTCAACG
627066 GTCAACG
1 GTCAACG
627073 GTC
1 GTC
627076 GGGTCGGGTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.29, C:0.27, G:0.29, T:0.15
Consensus pattern (7 bp):
GTCAACG
Found at i:627091 original size:22 final size:22
Alignment explanation
Indices: 627065--627129 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
627055 AACGGTCAAC
*
627065 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGAGTCG
627087 GGTCAACGGTCGGGTCGAGTCG
1 GGTCAACGGTCGGGTCGAGTCG
627109 GGTCAACGGTCGGGTCGAGTC
1 GGTCAACGGTCGGGTCGAGTC
627130 AGACCGGTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.12, C:0.23, G:0.46, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGAGTCG
Found at i:627144 original size:9 final size:9
Alignment explanation
Indices: 627127--627224 Score: 70
Period size: 9 Copynumber: 10.2 Consensus size: 9
627117 GTCGGGTCGA
*
627127 GTCAGACCG
1 GTCAAACCG
627136 GTCAAACCG
1 GTCAAACCG
* * *
627145 ATTTAGACCG
1 -GTCAAACCG
627155 GTCAAACCG
1 GTCAAACCG
*
627164 GTTCGAACCG
1 G-TCAAACCG
* *
627174 GTTGAAACTG
1 G-TCAAACCG
627184 GTCAAACCG
1 GTCAAACCG
627193 GTCAGAACCG
1 GTCA-AACCG
*
627203 GTTGAAAACCG
1 G-T-CAAACCG
627214 GTCAAACCG
1 GTCAAACCG
627223 GT
1 GT
627225 TTCCAGCAGC
Statistics
Matches: 69, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
9 33 0.48
10 28 0.41
11 7 0.10
12 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.17
Consensus pattern (9 bp):
GTCAAACCG
Found at i:627173 original size:19 final size:18
Alignment explanation
Indices: 627132--627225 Score: 80
Period size: 19 Copynumber: 4.9 Consensus size: 18
627122 GTCGAGTCAG
* *
627132 ACCGGTCAAACCGATTTA
1 ACCGGTCAAACCGGTTGA
627150 GACCGGTCAAACCGGTTCGA
1 -ACCGGTCAAACCGGTT-GA
* * **
627170 ACCGGTTGAAACTGGTCAA
1 ACCGG-TCAAACCGGTTGA
627189 ACCGGTCAGAACCGGTTGAAA
1 ACCGGTCA-AACCGGTTG--A
627210 ACCGGTCAAACCGGTT
1 ACCGGTCAAACCGGTT
627226 TCCAGCAGCC
Statistics
Matches: 60, Mismatches: 10, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
18 2 0.03
19 32 0.53
20 17 0.28
21 9 0.15
ACGTcount: A:0.30, C:0.27, G:0.26, T:0.18
Consensus pattern (18 bp):
ACCGGTCAAACCGGTTGA
Found at i:627186 original size:29 final size:31
Alignment explanation
Indices: 627151--627225 Score: 120
Period size: 29 Copynumber: 2.5 Consensus size: 31
627141 ACCGATTTAG
627151 ACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
*
627180 ACTGGTCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
627210 ACCGGTCAAACCGGTT
1 ACCGGTCAAACCGGTT
627226 TCCAGCAGCC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 2 0.05
29 23 0.56
30 15 0.37
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:629500 original size:311 final size:312
Alignment explanation
Indices: 628913--629520 Score: 805
Period size: 311 Copynumber: 2.0 Consensus size: 312
628903 TCTTCGAAAT
* * * * *
628913 ATGAATATATTGCGTAATCGTATTCTTATAGTTAATCTTATTCTCATGAACCAAACGCATCTGAG
1 ATGAATATATTGCATAATCGTATTCTTATAATTAATCTTAATCTCATAAACCAAACGCATCCGAG
* * ** * * * *
628978 AGATGTGGTATACACAAATCTAGTAATAACTACATTATACTCTTAAATAGATAATCAATTTTCAT
66 AGATATGGCATACACAAATCTAAAAATAACTACATTATACTCTTAAATAAAGAATCAATGTTCAA
* * * * * * **
629043 ACCTTGAAACGTGATTATTAAGAGAGATATCGATGAAGTTGGTAAAAGAAAGATCTGAAATTCCA
131 ACCTTGAAACGCGAATATTAAGAGAAATATCCACGAAGCTGGTAAAAGAAAGATCTGAAAGACCA
629108 AACAAAATTAAATATAGAAGAAAAGGAAACAATAAAATAATTTCATATAAAAATAATTGCATACT
196 AACAAAATTAAATATAGAAGAAAAGGAAACAATAAAATAATTTCATATAAAAATAATTGCATACT
* *
629173 AGATTTCGGAATCATATACTTTATAATCAAATTAATACTCTATAAATATAAA
261 AGATTTCGGAATCATATACTCTATAAACAAATTAATACTCTATAAATATAAA
*
629225 ATGAATATATTGCATAATTGTATTCTTA-AATTAATCTTACATC-CATAAACCAAACGCATCCGA
1 ATGAATATATTGCATAATCGTATTCTTATAATTAATCTTA-ATCTCATAAACCAAACGCATCCGA
*
629288 GAGATATGGCATACACAAATCTAAAAATAACTACATTATACTCTTAAATAAAGAATCCATGTTCA
65 GAGATATGGCATACACAAATCTAAAAATAACTACATTATACTCTTAAATAAAGAATCAATGTTCA
* * * *
629353 AATCTTGAAACGCGAATATTGAGAGAAATATCCACGAAGCTGGTAAATGAAATG-TGTAGAAAGA
130 AACCTTGAAACGCGAATATTAAGAGAAATATCCACGAAGCTGGTAAAAGAAA-GATCT-GAAAGA
* * * * *
629417 CGAATCAAGATTAAGTATAGAAG-AAAGAGAAACAATAAAATAATTTCATATAAAAAT-ATTGTA
193 CCAAACAAAATTAAATATAGAAGAAAAG-GAAACAATAAAATAATTTCATATAAAAATAATTGCA
* *
629480 TAGTTGATTTCAGG-ATCATATACTCTATAAACAAATTAATA
257 TACTAGATTTC-GGAATCATATACTCTATAAACAAATTAATA
629521 TATACATATA
Statistics
Matches: 255, Mismatches: 36, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
311 172 0.67
312 83 0.33
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (312 bp):
ATGAATATATTGCATAATCGTATTCTTATAATTAATCTTAATCTCATAAACCAAACGCATCCGAG
AGATATGGCATACACAAATCTAAAAATAACTACATTATACTCTTAAATAAAGAATCAATGTTCAA
ACCTTGAAACGCGAATATTAAGAGAAATATCCACGAAGCTGGTAAAAGAAAGATCTGAAAGACCA
AACAAAATTAAATATAGAAGAAAAGGAAACAATAAAATAATTTCATATAAAAATAATTGCATACT
AGATTTCGGAATCATATACTCTATAAACAAATTAATACTCTATAAATATAAA
Found at i:630686 original size:312 final size:312
Alignment explanation
Indices: 630106--630716 Score: 818
Period size: 312 Copynumber: 2.0 Consensus size: 312
630096 AATATTCTTC
* * * *
630106 ATAATATGAATATATTGCATAATCGTATTCTTATAGTTAATCTTATATTCATGAAACAAACGTAT
1 ATAAAATGAATATATTGCATAATCATATTCTTATAGTTAATCATATATCCATGAAACAAACGTAT
* * * * *
630171 CCAAGAGATGTGGTATAAACAAATCTAAAAACAACTTCATTATACTATTAAATAAAGAATATATG
66 ACAAGAGATATGGCATAAACAAATCTAAAAACAACTTCATTATACTATTAAATAAAGAACATACG
* * * * *
630236 TTCAAACCTTGAAACGAGATTATTGAGAGAAATATCCATAAAGCTGGTAAATGAAAGGTCTGAAA
131 TTCAAACATTGAAACGAGATTATTGAGAGAAATATCCACAAAGCTAGTAAATAAAAGGTCTAAAA
* * * * * * *
630301 TTCCAATCAATATTAGATATAGAGAAAAGGGAAACAATTATATAATTTTATATAAAAATAATTGC
196 GTCCAATCAAGATTAAATATAAAGAAAAGGGAAACAATAAAATAATTTCATATAAAAATAATTGC
* *
630366 ATAGTCGATTTTATAATCATATACTCTACAATCAAATTAATACTCGACAAAT
261 ACAGTCGATTTTAGAATCATATACTCTACAATCAAATTAATACTCGACAAAT
* *
630418 ATAAAATGAATATATTGCATAATCATATTCTTATAGTTAATCATATATCCATGAACCAAATGTAT
1 ATAAAATGAATATATTGCATAATCATATTCTTATAGTTAATCATATATCCATGAAACAAACGTAT
** * * * *
630483 ATGAGAGATATGGCATACACAAATTTAAAAATAACTTCATTATACTCTTAAATAAAGAACCA-AC
66 ACAAGAGATATGGCATAAACAAATCTAAAAACAACTTCATTATACTATTAAATAAAGAA-CATAC
*
630547 GTTC-AACATTGAAA-GTAGATTATAT-AGAGAAATATCCACGAAGCTAGTAAATAAAAGGTCTA
130 GTTCAAACATTGAAACG-AGATTAT-TGAGAGAAATATCCACAAAGCTAGTAAATAAAAGGTCT-
*
630609 AAAAGTCCAATCAAGATTAAATATTAAAG-AAAGGGAAACAATAAAATAATTTCATATAAAAATT
192 AAAAGTCCAATCAAGATTAAATA-TAAAGAAAAGGGAAACAATAAAATAATTTCATATAAAAATA
* * *
630673 ATTGTACAGTCGATTTTAGAATCGTATACTCTATAATCAAATTA
256 ATTGCACAGTCGATTTTAGAATCATATACTCTACAATCAAATTA
630717 TTATATATAT
Statistics
Matches: 258, Mismatches: 36, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
310 1 0.00
311 48 0.19
312 204 0.79
313 5 0.02
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.31
Consensus pattern (312 bp):
ATAAAATGAATATATTGCATAATCATATTCTTATAGTTAATCATATATCCATGAAACAAACGTAT
ACAAGAGATATGGCATAAACAAATCTAAAAACAACTTCATTATACTATTAAATAAAGAACATACG
TTCAAACATTGAAACGAGATTATTGAGAGAAATATCCACAAAGCTAGTAAATAAAAGGTCTAAAA
GTCCAATCAAGATTAAATATAAAGAAAAGGGAAACAATAAAATAATTTCATATAAAAATAATTGC
ACAGTCGATTTTAGAATCATATACTCTACAATCAAATTAATACTCGACAAAT
Found at i:630725 original size:2 final size:2
Alignment explanation
Indices: 630718--630747 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
630708 ATCAAATTAT
630718 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
630748 GTAATAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:630912 original size:35 final size:35
Alignment explanation
Indices: 630866--630936 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
630856 ATAATTGGCC
630866 CATGCAGGTATCGAGCGACCATCACATTATTAGCA
1 CATGCAGGTATCGAGCGACCATCACATTATTAGCA
*
630901 CATGCAGGTATCGAGCGACCATCGCATTATTAGCA
1 CATGCAGGTATCGAGCGACCATCACATTATTAGCA
630936 C
1 C
630937 GACGCTCTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (35 bp):
CATGCAGGTATCGAGCGACCATCACATTATTAGCA
Found at i:633316 original size:20 final size:19
Alignment explanation
Indices: 633276--633323 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
633266 TATAAATCAC
633276 TTTTCAAAATTTCATTTTGA
1 TTTTCAAAA-TTCATTTTGA
633296 TTTTCAAAA-TCAATTTATGA
1 TTTTCAAAATTC-ATTT-TGA
633316 -TTTCAAAA
1 TTTTCAAAA
633324 CCAAATCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 2 0.08
19 12 0.46
20 12 0.46
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (19 bp):
TTTTCAAAATTCATTTTGA
Found at i:636824 original size:39 final size:39
Alignment explanation
Indices: 636766--636954 Score: 195
Period size: 39 Copynumber: 4.8 Consensus size: 39
636756 GTACACCCAG
* * * *
636766 TAAGGGCTTACCCTATGCACAAAGTAGATGAGCGTGCAA
1 TAAGGACTTACCCTAAGCACAAAGTAGAGGAGCCTGCAA
* * ** * *
636805 TAAGGTCTTATCCTGTGCACAAAGCAGAGGAGCCTGCAG
1 TAAGGACTTACCCTAAGCACAAAGTAGAGGAGCCTGCAA
*
636844 TAAGGACTTACCCTGAGCACAAAGCT-GAGGAGCCTGCAA
1 TAAGGACTTACCCTAAGCACAAAG-TAGAGGAGCCTGCAA
*
636883 TAAGGACTTACCCTAAGCACAAAGCT-GAGGAACCTGCAA
1 TAAGGACTTACCCTAAGCACAAAG-TAGAGGAGCCTGCAA
* * *
636922 CAAGGACTTACCCTGAGCATAAAGCT-GAGGAGC
1 TAAGGACTTACCCTAAGCACAAAG-TAGAGGAGC
636955 TTGCGGTCAG
Statistics
Matches: 131, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
39 131 1.00
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.17
Consensus pattern (39 bp):
TAAGGACTTACCCTAAGCACAAAGTAGAGGAGCCTGCAA
Found at i:636903 original size:78 final size:78
Alignment explanation
Indices: 636763--636954 Score: 244
Period size: 78 Copynumber: 2.5 Consensus size: 78
636753 CTTGTACACC
* * * * * **
636763 CAGTAAGGGCTTACCCT-ATGCACAAAG-TAGATGAGCGTGCAATAAGGTCTTATCCTGTGCACA
1 CAGTAAGGACTTACCCTGA-GCACAAAGCT-GAGGAGCCTGCAATAAGGACTTACCCTAAGCACA
*
636826 AAGCAGAGGAGCCTG
64 AAGCAGAGGAACCTG
636841 CAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTGCAATAAGGACTTACCCTAAGCACAAA
1 CAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTGCAATAAGGACTTACCCTAAGCACAAA
*
636906 GCTGAGGAACCTG
66 GCAGAGGAACCTG
** *
636919 CAACAAGGACTTACCCTGAGCATAAAGCTGAGGAGC
1 CAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAGC
636955 TTGCGGTCAG
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
78 98 0.98
79 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.17
Consensus pattern (78 bp):
CAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTGCAATAAGGACTTACCCTAAGCACAAA
GCAGAGGAACCTG
Found at i:638349 original size:29 final size:29
Alignment explanation
Indices: 638311--638366 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
638301 AATTGGATCT
* * *
638311 AAATTTAATCAAAATTCACTTTGGTCCCC
1 AAATTAAATCAAAATTCAATTTAGTCCCC
638340 AAATTAAATCAAAATTCAATTTAGTCC
1 AAATTAAATCAAAATTCAATTTAGTCC
638367 TTGAAAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (29 bp):
AAATTAAATCAAAATTCAATTTAGTCCCC
Found at i:642785 original size:39 final size:39
Alignment explanation
Indices: 642729--642917 Score: 216
Period size: 39 Copynumber: 4.8 Consensus size: 39
642719 TGTACACCAG
* * *
642729 TAAGGGCTTACCCTGTGCACAAAGCTGAGGAGCCTACAA
1 TAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTGCAA
* * * * * * ***
642768 TAAGGTCTTATCGTGTGCACAAAGCAGATGATATTGCAA
1 TAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTGCAA
* * * * *
642807 TAAGGACTTACCCTGAGAAGAAATCTAAGGAGCCTGCAG
1 TAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTGCAA
642846 TAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTGCAA
1 TAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTGCAA
*
642885 TAAGGACTTACCCTGAGCACAAACCTGAGGAGC
1 TAAGGACTTACCCTGAGCACAAAGCTGAGGAGC
642918 TTGCGGTAAG
Statistics
Matches: 121, Mismatches: 29, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 121 1.00
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (39 bp):
TAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTGCAA
Found at i:644284 original size:29 final size:29
Alignment explanation
Indices: 644252--644312 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
644242 ATTTGGATCT
* * *
644252 GAATTTAATCAATATTCAATTTGGTCCTC
1 GAATTAAATCAAAATTCAATTTAGTCCTC
*
644281 GAATTAAATCAAAATTTAATTTAGTCCTC
1 GAATTAAATCAAAATTCAATTTAGTCCTC
644310 GAA
1 GAA
644313 AAATCTGATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (29 bp):
GAATTAAATCAAAATTCAATTTAGTCCTC
Found at i:646391 original size:29 final size:28
Alignment explanation
Indices: 646349--646423 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
646339 GTCAAACATT
*
646349 TTACACAAATAGCACCCTTTTTAAAATAA
1 TTAC-CAAATAGCACCATTTTTAAAATAA
* *
646378 TTACCAATATAGCACCATTTTTGAATTAA
1 TTACCAA-ATAGCACCATTTTTAAAATAA
*
646407 TTTCCAAAATAGCACCA
1 TTACC-AAATAGCACCA
646424 AAACCAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 3 0.08
29 35 0.88
30 2 0.05
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.32
Consensus pattern (28 bp):
TTACCAAATAGCACCATTTTTAAAATAA
Found at i:646485 original size:17 final size:18
Alignment explanation
Indices: 646475--646521 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
646465 GGTCAACGGT
*
646475 CGGGTCGGGTCTGGTCAA
1 CGGGTCGGGTCGGGTCAA
* *
646493 C-GGTCAGGTTGGGTCAA
1 CGGGTCGGGTCGGGTCAA
646510 CGGGTCGGGTCG
1 CGGGTCGGGTCG
646522 TGATCGGTCA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.11, C:0.21, G:0.47, T:0.21
Consensus pattern (18 bp):
CGGGTCGGGTCGGGTCAA
Found at i:646485 original size:22 final size:22
Alignment explanation
Indices: 646459--646508 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
646449 ACCGGTCAAG
*
646459 GGGTCAGGTCAACGGTCGGGTC
1 GGGTCAGGTCAACGGTCAGGTC
* *
646481 GGGTCTGGTCAACGGTCAGGTT
1 GGGTCAGGTCAACGGTCAGGTC
646503 GGGTCA
1 GGGTCA
646509 ACGGGTCGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.14, C:0.20, G:0.44, T:0.22
Consensus pattern (22 bp):
GGGTCAGGTCAACGGTCAGGTC
Found at i:653603 original size:29 final size:28
Alignment explanation
Indices: 653561--653634 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
653551 TGTCAAACAT
*
653561 TTACACAAATAGCACCCTTTTTAAAATAA
1 TTAC-CAAATAGCACCCTTTTCAAAATAA
* *
653590 TTACCAATATAGCACCCTTTTCGAATTAA
1 TTACCAA-ATAGCACCCTTTTCAAAATAA
*
653619 TTCCCAAAATAGCACC
1 TTACC-AAATAGCACC
653635 AAAACCAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 3 0.08
29 34 0.87
30 2 0.05
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.30
Consensus pattern (28 bp):
TTACCAAATAGCACCCTTTTCAAAATAA
Found at i:653682 original size:13 final size:13
Alignment explanation
Indices: 653664--653715 Score: 76
Period size: 13 Copynumber: 4.3 Consensus size: 13
653654 GAATAGCATC
653664 GGTCAACGGGTCG
1 GGTCAACGGGTCG
653677 GGTCAAC-GGTCG
1 GGTCAACGGGTCG
653689 GGT---CGGGTCG
1 GGTCAACGGGTCG
653699 GGTCAACGGGTCG
1 GGTCAACGGGTCG
653712 GGTC
1 GGTC
653716 GTTACCGGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
9 1 0.03
10 8 0.23
12 8 0.23
13 18 0.51
ACGTcount: A:0.12, C:0.23, G:0.48, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:653696 original size:22 final size:23
Alignment explanation
Indices: 653670--653716 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
653660 CATCGGTCAA
653670 CGGGTCGGGTCAAC-GGTCGGGT
1 CGGGTCGGGTCAACGGGTCGGGT
653692 CGGGTCGGGTCAACGGGTCGGGT
1 CGGGTCGGGTCAACGGGTCGGGT
653715 CG
1 CG
653717 TTACCGGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.09, C:0.23, G:0.51, T:0.17
Consensus pattern (23 bp):
CGGGTCGGGTCAACGGGTCGGGT
Found at i:653750 original size:10 final size:10
Alignment explanation
Indices: 653719--653782 Score: 71
Period size: 9 Copynumber: 6.6 Consensus size: 10
653709 TCGGGTCGTT
653719 ACCGGTC-AA
1 ACCGGTCAAA
653728 ACCGGTC-AA
1 ACCGGTCAAA
653737 ACCGGTCAAA
1 ACCGGTCAAA
653747 ACCGGTTCAAA
1 ACCGG-TCAAA
* *
653758 ACCGAT-TAA
1 ACCGGTCAAA
*
653767 ACCCGTCAAA
1 ACCGGTCAAA
653777 ACCGGT
1 ACCGGT
653783 TTCCAGCGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
9 22 0.48
10 15 0.33
11 9 0.20
ACGTcount: A:0.36, C:0.31, G:0.19, T:0.14
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:655580 original size:313 final size:313
Alignment explanation
Indices: 655003--655599 Score: 716
Period size: 313 Copynumber: 1.9 Consensus size: 313
654993 TTTTCGTAAT
* * * *
655003 ATGAATATATTGCATAATCGTATTCTTATAGTTAATCTTATATTCATGAACCAAACACATCCAAG
1 ATGAATATATTGCATAATCGTATTCTTATACTTAATCATATATCCATGAACCAAACACAACCAAG
* * * * * *
655068 AGACATGGTATAAACAAATCTAAAAAAAAACTTCGTTATACTCTTAAATAAAGAATATATGTTCA
66 AGACAAGGCATAAACAAATCTAAAAAAAAACTTCATTATACTCTTAAATAAAGAACACACGTTCA
* * * * * *
655133 AACTTTGAAACGAGCTTATTGAGAGAAATATCCATCAAACTGGAAAATGAAAGATATGAAATTCC
131 AACCTTGAAACGAGATTATTGAGAGAAATATCCATCAAACTAGAAAATAAAAGATATAAAAGTCC
* * * * * *
655198 AATCAATATTAAATATAGAGAAAAGGGAAACAATTAAATAATTTCATATAAAAATAATTGAATAG
196 AATCAAGATTAAATATAAAGAAAAGGGAAACAATAAAATAACTTCATATAAAAATAAGTGAACAG
*
655263 TCGATTTTAGAATCATATACTCTACAATCAAATTAATACCCGAAAAATATAAA
261 TCGATTTCAGAATCATATACTCTACAATCAAATTAATACCCGAAAAATATAAA
* ** **
655316 ATGAATATATTGCGTAATCGTATTCTTATACTTAATCATATATCCATGAACCAAACGTAACTGAG
1 ATGAATATATTGCATAATCGTATTCTTATACTTAATCATATATCCATGAACCAAACACAACCAAG
* ** * * *
655381 AGACAAGGCATACACGGATCT-AAAAATAACTTCATTATACTCTTAAATAAATAACCCACGTTCA
66 AGACAAGGCATAAACAAATCTAAAAAAAAACTTCATTATACTCTTAAATAAAGAACACACGTTCA
* * * * *
655445 AACCTTGAAACTAGATTGTTGAGAGAAATATCCA-CGAAGCTAGTAAATAAAAGGCCTA-AAAAG
131 AACCTTGAAACGAGATTATTGAGAGAAATATCCATC-AAACTAGAAAATAAAA-G-ATATAAAAG
* * * * *
655508 TCCAATCAAGATTAAATATTAAAG-ATAGTGAAACAATAAAATAGCTTCATATAAAAATTAGTGT
193 TCCAATCAAGATTAAATA-TAAAGAAAAGGGAAACAATAAAATAACTTCATATAAAAATAAGTGA
**
655572 ACAGTCGATTTCAGAATGGTATACTCTA
257 ACAGTCGATTTCAGAATCATATACTCTA
655600 TAACAATAAC
Statistics
Matches: 234, Mismatches: 46, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
311 1 0.00
312 78 0.33
313 149 0.64
314 6 0.03
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (313 bp):
ATGAATATATTGCATAATCGTATTCTTATACTTAATCATATATCCATGAACCAAACACAACCAAG
AGACAAGGCATAAACAAATCTAAAAAAAAACTTCATTATACTCTTAAATAAAGAACACACGTTCA
AACCTTGAAACGAGATTATTGAGAGAAATATCCATCAAACTAGAAAATAAAAGATATAAAAGTCC
AATCAAGATTAAATATAAAGAAAAGGGAAACAATAAAATAACTTCATATAAAAATAAGTGAACAG
TCGATTTCAGAATCATATACTCTACAATCAAATTAATACCCGAAAAATATAAA
Found at i:656660 original size:306 final size:307
Alignment explanation
Indices: 656082--657219 Score: 803
Period size: 298 Copynumber: 3.8 Consensus size: 307
656072 TCGTAATATC
* * *
656082 AATATATTGCACAATCATATTATTATAGTTAATCTTATATTCATGAACCAAATACATCCAAGAGA
1 AATATATTGCACAATCATATTATTATAGTTAATCTTATAATCATGAACCAAACACATACAAGAGA
*
656147 TGTGGCATACACGAATCTAAAAATAACAACAATATACACTTAAATAAAGAATCTATGTTCAAACC
66 TATGGCATACACGAATCTAAAAAT----A-AATATACACTTAAATAAAGAATCTATGTTCAAACC
* * **
656212 TTGAAACTAGATTATTGAGAGAAATATGCACGAAGCTGATATATGAAAGGTCTGAAATTCCAATC
126 TTGAAACGAGATTATTGAGAGAAATATGCACGAAGCTGATAAATGAAAGGTCTGAAAGACCAATC
* * *
656277 AAGATTAAATATCGAGGAAAGGGATAGAATAAAATAATTTAAAATAAAAATAATTGCATAGTCGA
191 AAGATTAAATATAGAGAAAAGGGATACAATAAAATAATTTAAAATAAAAATAATTGCATAGTCGA
* * *
656342 TTTCATAATCATATACTGTATAATCAAATTATTAATCTGTAAATATAAAATG
256 TTTCAGAATCATATACTCTACAATCAAATTATTAATCTGTAAATATAAAATG
* * * * **
656394 AATATATTGCATAATCTTATTCTTATAGTTAATCTT-TAATCTATGAACCAAACGCATATGAGAG
1 AATATATTGCACAATCATATTATTATAGTTAATCTTATAATC-ATGAACCAAACACATACAAGAG
* * * * * *
656458 ATATGTCATACACGTATCTAAAAAT-ATTATACTA-TTAAATAAAGAATCTCTGTTTAAATCTTG
65 ATATGGCATACACGAATCTAAAAATAAATATAC-ACTTAAATAAAGAATCTATGTTCAAACCTTG
* * * *
656521 AAACGAGATTATTGAGAGAAATATTCACGAAGCTGGTAAATGAAAGGTCTAGAAAGACTAATCTA
129 AAACGAGATTATTGAGAGAAATATGCACGAAGCTGATAAATGAAAGGTCT-GAAAGACCAATCAA
* ** * * * *
656586 GATTAAATATAGA-AAAAGGGA-ATCATTAAAATAATTTCTTAA-AAAATTTATTGTATAGTCTA
193 GATTAAATATAGAGAAAAGGGATA-CAATAAAATAATTT-AAAATAAAAATAATTGCATAGTCGA
* *
656648 TTTTAGAATCATATACTCTACAATC-AA--ATTAA----T--ATAT-ATAT-
256 TTTCAGAATCATATACTCTACAATCAAATTATTAATCTGTAAATATAAAATG
* * * ** *
656689 -ATATA-T--A-TAT-ATA-TA-TATA--T-AT-ATATATTCATGAACCAAATGCATTCAAGAGA
1 AATATATTGCACAATCATATTATTATAGTTAATCTTATAATCATGAACCAAACACATACAAGAGA
* * * * * * * *
656742 TGTGGTATACACAAATCTAAAAATAACTACATTATACTCTTAAATATATAATCAATTTTCAAACC
66 TATGGCATACACGAATCTAAAAAT-A--A-A-TATACACTTAAATAAAGAATCTATGTTCAAACC
* * * * * **
656807 ATGAAATGAGATTATTGAGCA-AAATAT-CGATGAAGTTGGTAAATGAAAGGTCTGAAATTCCAA
126 TTGAAACGAGATTATTGAG-AGAAATATGC-ACGAAGCTGATAAATGAAAGGTCTGAAAGACCAA
* ** * *
656870 ACAAGATTAAATATCA-A-AAAA---A-A-AAGGAAACAA--T---A-AAAAA-AACTGCATAGT
189 TCAAGATTAAATAT-AGAGAAAAGGGATACAATAAAATAATTTAAAATAAAAATAATTGCATAGT
* * * * ** * * * *
656921 CGATTTCATAATCATATACTTTATAATCAAATTAATGCTTTATAAATATAAAGTA
253 CGATTTCAGAATCATATACTCTACAATCAAATTATTAATCTGTAAATATAAAATG
* ** * * * *
656976 AATATATTGCTTC-ATTGTATTCTTA-AGTTAATCTTAT-ATCCATGAACGAAACACATCCGAGA
1 AATATATTGC-ACAATCATATTATTATAGTTAATCTTATAAT-CATGAACCAAACACATACAAGA
* * * * *
657038 GATGTGGCATACACAAATCTAAAAATAACTACATTATACTCTTAAATTAAGAATCCATGTTCAAA
64 GATATGGCATACACGAATCTAAAAAT-A--A-A-TATACACTTAAATAAAGAATCTATGTTCAAA
* * * *
657103 CCTTGAAACAAGATTATTGAGAGAAATATCCACGAAGCTGGTAAATG-AATG-CATAGAAAGACC
124 CCTTGAAACGAGATTATTGAGAGAAATATGCACGAAGCTGATAAATGAAAGGTC-T-GAAAGACC
* * * * *
657166 AATCAAGATTAAATATAG-GAGAAAGAGAAACAACAAAATAATTTCATATAAAAA
187 AATCAAGATTAAATATAGAGA-AAAGGGATACAATAAAATAATTTAAAATAAAAA
657220 GTGTCACACC
Statistics
Matches: 650, Mismatches: 117, Indels: 120
0.73 0.13 0.14
Matches are distributed among these distances:
276 31 0.05
277 7 0.01
279 2 0.00
281 1 0.00
283 46 0.07
284 6 0.01
285 7 0.01
286 2 0.00
287 5 0.01
288 31 0.05
289 73 0.11
290 3 0.00
291 1 0.00
292 2 0.00
293 3 0.00
294 7 0.01
295 2 0.00
296 5 0.01
297 13 0.02
298 139 0.21
299 5 0.01
302 1 0.00
303 6 0.01
304 7 0.01
305 3 0.00
306 135 0.21
307 25 0.04
309 1 0.00
310 5 0.01
311 4 0.01
312 72 0.11
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (307 bp):
AATATATTGCACAATCATATTATTATAGTTAATCTTATAATCATGAACCAAACACATACAAGAGA
TATGGCATACACGAATCTAAAAATAAATATACACTTAAATAAAGAATCTATGTTCAAACCTTGAA
ACGAGATTATTGAGAGAAATATGCACGAAGCTGATAAATGAAAGGTCTGAAAGACCAATCAAGAT
TAAATATAGAGAAAAGGGATACAATAAAATAATTTAAAATAAAAATAATTGCATAGTCGATTTCA
GAATCATATACTCTACAATCAAATTATTAATCTGTAAATATAAAATG
Found at i:656686 original size:2 final size:2
Alignment explanation
Indices: 656679--656716 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
656669 AATCAAATTA
656679 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
656717 TCATGAACCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:659011 original size:18 final size:18
Alignment explanation
Indices: 658985--659019 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
658975 TCAAAGCCGA
658985 TCAACGGTCGGTCAACGG
1 TCAACGGTCGGTCAACGG
* *
659003 TCAATGGTCGGTTAACG
1 TCAACGGTCGGTCAACG
659020 ATTAACGGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (18 bp):
TCAACGGTCGGTCAACGG
Found at i:663370 original size:21 final size:21
Alignment explanation
Indices: 663346--663386 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
663336 TGAATATGTG
663346 ATTTGAATGTTGAAATTTAAT
1 ATTTGAATGTTGAAATTTAAT
* *
663367 ATTTGGATGTTGAATTTTAA
1 ATTTGAATGTTGAAATTTAA
663387 GTTAAAAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (21 bp):
ATTTGAATGTTGAAATTTAAT
Found at i:666674 original size:18 final size:18
Alignment explanation
Indices: 666629--666668 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
666619 GTGTACCCGA
*
666629 CCCGACCTAACCCGTCTG
1 CCCGACCCAACCCGTCTG
*
666647 CCCGACCCAACCCGTCTT
1 CCCGACCCAACCCGTCTG
666665 CCCG
1 CCCG
666669 GTCCAATCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.55, G:0.15, T:0.15
Consensus pattern (18 bp):
CCCGACCCAACCCGTCTG
Found at i:673877 original size:27 final size:26
Alignment explanation
Indices: 673826--673877 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
673816 GGTTGTATTT
* *
673826 TATTTTTATATCTGAGTCTGGAAAAC
1 TATTTTTATATCTGAATCTGAAAAAC
*
673852 TATTTTTATTTCTGAATACTGAAAAA
1 TATTTTTATATCTGAAT-CTGAAAAA
673878 TTTTACTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.44
Consensus pattern (26 bp):
TATTTTTATATCTGAATCTGAAAAAC
Found at i:675694 original size:30 final size:30
Alignment explanation
Indices: 675629--675697 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
675619 TATGAGATGA
* **
675629 AAATGAATGATACATGCTTCGAAATGAATT
1 AAATGAATGATACATACTTCGAAACAAATT
* *
675659 TAATGAATGATACGTACTAT-GAAACAAATT
1 AAATGAATGATACATACT-TCGAAACAAATT
675689 AAATGAATG
1 AAATGAATG
675698 GAACATGCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.29
Consensus pattern (30 bp):
AAATGAATGATACATACTTCGAAACAAATT
Found at i:675720 original size:5 final size:5
Alignment explanation
Indices: 675712--675751 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
675702 ATGCTATGCT
* *
675712 ATGAA ATGAT ATGAT A-GAA ATGAA ATGAA ATGAA ATGAA A
1 ATGAA ATGAA ATGAA ATGAA ATGAA ATGAA ATGAA ATGAA A
675752 AGCTTATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 3 0.09
5 29 0.91
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (5 bp):
ATGAA
Found at i:681558 original size:20 final size:20
Alignment explanation
Indices: 681533--681704 Score: 73
Period size: 20 Copynumber: 7.7 Consensus size: 20
681523 TTCATTTATG
681533 GCATCCTTTCATGCCATAAT
1 GCATCCTTTCATGCCATAAT
681553 GCATCCTTTCATG-CATTTTATTTAT
1 GCATCCTTTCATGCCA---TA---AT
*
681578 GGCATCCTTTCATAACC-TAAT
1 -GCATCCTTTCAT-GCCATAAT
*
681599 GCATCCTTCCATG-CATTTTATTTAT
1 GCATCCTTTCATGCCA---TA---AT
* *
681624 AGCATCCTTTCATGCCTTAAG
1 -GCATCCTTTCATGCCATAAT
681645 GCATCCTTTCATG-CATTTTATTTAT
1 GCATCCTTTCATGCCA---TA---AT
*
681670 GGCATCCTTTCATGCCATAAC
1 -GCATCCTTTCATGCCATAAT
681691 GCATCCTTTCATGC
1 GCATCCTTTCATGC
681705 ATTTTATCTA
Statistics
Matches: 117, Mismatches: 9, Indels: 52
0.66 0.05 0.29
Matches are distributed among these distances:
18 1 0.01
19 3 0.03
20 51 0.44
21 4 0.03
22 6 0.05
24 6 0.05
25 5 0.04
26 37 0.32
27 3 0.03
28 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.10, T:0.41
Consensus pattern (20 bp):
GCATCCTTTCATGCCATAAT
Found at i:681581 original size:46 final size:46
Alignment explanation
Indices: 681520--681993 Score: 727
Period size: 46 Copynumber: 10.3 Consensus size: 46
681510 ATTATTCATT
*
681520 ATTTTCATTTATGGCATCCTTTCATGCCATAATGCATCCTTTCATGC
1 ATTTT-ATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
681567 ATTTTATTTATGGCATCCTTTCATAACC-TAATGCATCCTTCCATGC
1 ATTTTATTTATGGCATCCTTTCAT-GCCTTAATGCATCCTTTCATGC
* *
681613 ATTTTATTTATAGCATCCTTTCATGCCTTAAGGCATCCTTTCATGC
1 ATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
681659 ATTTTATTTATGGCATCCTTTCATGCCATAACGCATCCTTTCATGC
1 ATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* ** * * *
681705 ATTTTATCTATAACATCATTTCATGCCTTAATACATCCTTTCATAC
1 ATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
681751 ATTTTATTTATGGCATCCTTTCATGCCGTAATGCATCCTTTCAGGC
1 ATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* **
681797 ATTTTATTTATGGTATCCTTTCATGCCTTAATGCATATTTTCATGC
1 ATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
681843 ATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
681889 ATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
681935 ATTTTATTTACT-GCATCTTTTCAAGCCTTAATGCATCCTTTCATGC
1 ATTTTATTTA-TGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
681981 ATTTTATTTATGG
1 ATTTTATTTATGG
681994 ATTCGTTTTA
Statistics
Matches: 388, Mismatches: 35, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
45 3 0.01
46 377 0.97
47 8 0.02
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.45
Consensus pattern (46 bp):
ATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
Found at i:681746 original size:20 final size:20
Alignment explanation
Indices: 681718--681980 Score: 121
Period size: 20 Copynumber: 11.7 Consensus size: 20
681708 TTATCTATAA
* *
681718 CATCATTTCATGCCTTAATA
1 CATCCTTTCATGCCTTAATG
* *
681738 CATCCTTTCATACATTTTATTTATG
1 CATCCTTTCATGC--CTTA---ATG
*
681763 GCATCCTTTCATGCCGTAATG
1 -CATCCTTTCATGCCTTAATG
* *
681784 CATCCTTTCAGGCATTTTATTTATGG
1 CATCCTTTCATGC--CTTA---AT-G
*
681810 TATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
** *
681830 CATATTTTCATGCATTTTATTTATGG
1 CATCCTTTCATGC--CTTA---AT-G
681856 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
681876 CATCCTTTCATGCATTTTATTTATGG
1 CATCCTTTCATGC--CTTA---AT-G
681902 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
681922 CATCCTTTCATGCATTTTATTTACTG
1 CATCCTTTCATGC--CTTA---A-TG
* *
681948 CATCTTTTCAAGCCTTAATG
1 CATCCTTTCATGCCTTAATG
681968 CATCCTTTCATGC
1 CATCCTTTCATGC
681981 ATTTTATTTA
Statistics
Matches: 185, Mismatches: 28, Indels: 60
0.68 0.10 0.22
Matches are distributed among these distances:
20 75 0.41
21 10 0.05
22 14 0.08
24 14 0.08
25 9 0.05
26 63 0.34
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.45
Consensus pattern (20 bp):
CATCCTTTCATGCCTTAATG
Found at i:688868 original size:20 final size:20
Alignment explanation
Indices: 688843--688985 Score: 72
Period size: 20 Copynumber: 6.5 Consensus size: 20
688833 TTTATTTATA
*
688843 GCATCCTTT-AATTCCTTAAT
1 GCATCCTTTCAA-GCCTTAAT
*
688863 GCATCCTTTCAAGCCTTATT
1 GCATCCTTTCAAGCCTTAAT
** *
688883 GCATCCTTTCATGTATTTTCTTTAT
1 GCATCCTTTCA---A--GCCTTAAT
*
688908 GCCATCCTTTCATGCCTTAAT
1 G-CATCCTTTCAAGCCTTAAT
* * *
688929 GCATCATTTCATGCATTTTATTTAT
1 GCATCCTTTCAAGC--CTTA---AT
*
688954 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCAAGCCTTAAT
688975 GCATCCTTTCA
1 GCATCCTTTCA
688986 TGCATTTTAT
Statistics
Matches: 96, Mismatches: 14, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
20 49 0.51
21 10 0.10
22 3 0.03
23 1 0.01
24 3 0.03
25 7 0.07
26 23 0.24
ACGTcount: A:0.20, C:0.26, G:0.09, T:0.45
Consensus pattern (20 bp):
GCATCCTTTCAAGCCTTAAT
Found at i:688868 original size:112 final size:112
Alignment explanation
Indices: 688751--688988 Score: 377
Period size: 112 Copynumber: 2.1 Consensus size: 112
688741 TATATTTATG
*
688751 GCATCCTTTCATGCCTTAATGCATCATTCCATGCATTTTATTTATGGCATCCTTTCATCCCTTAA
1 GCATCCTTTCATGCCTTAATGCATCATTCCATGCATTTTATTTATGCCATCCTTTCATCCCTTAA
*
688816 TGCATCATTTCATGCATTTTATTTATAGCATCCTTTAATTCCTTAAT
66 TGCATCATTTCATGCATTTTATTTATAGCATCCTTTAATGCCTTAAT
* * * * * * *
688863 GCATCCTTTCAAGCCTTATTGCATCCTTTCATGTATTTTCTTTATGCCATCCTTTCATGCCTTAA
1 GCATCCTTTCATGCCTTAATGCATCATTCCATGCATTTTATTTATGCCATCCTTTCATCCCTTAA
* *
688928 TGCATCATTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAAT
66 TGCATCATTTCATGCATTTTATTTATAGCATCCTTTAATGCCTTAAT
688975 GCATCCTTTCATGC
1 GCATCCTTTCATGC
688989 ATTTTATTTA
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
112 114 1.00
ACGTcount: A:0.21, C:0.25, G:0.09, T:0.45
Consensus pattern (112 bp):
GCATCCTTTCATGCCTTAATGCATCATTCCATGCATTTTATTTATGCCATCCTTTCATCCCTTAA
TGCATCATTTCATGCATTTTATTTATAGCATCCTTTAATGCCTTAAT
Found at i:688871 original size:66 final size:66
Alignment explanation
Indices: 688797--689078 Score: 200
Period size: 66 Copynumber: 4.2 Consensus size: 66
688787 TTTATTTATG
*
688797 GCATCCTTTCATCCCTTAATGCATCATTTCATGCATTTTATTTATAG-CATCCTTTAATTCCTTA
1 GCATCCTTTCATCCCTTAATGCATCATTTCATGCATTTTATTTAT-GCCATCCTTTAATGCCTTA
688861 AT
65 AT
** * * * * *
688863 GCATCCTTTCAAGCCTTATTGCATCCTTTCATGTATTTTCTTTATGCCATCCTTTCATGCCTTAA
1 GCATCCTTTCATCCCTTAATGCATCATTTCATGCATTTTATTTATGCCATCCTTTAATGCCTTAA
688928 T
66 T
* ** * * *
688929 GCATCATTTCATGCATTTTATTTATGGCATCCTTTCATGC--CTTA---ATG-CATCCTTTCATG
1 GCATCCTTTCAT-C-CCTTA---AT-GCATCATTTCATGCATTTTATTTATGCCATCCTTTAATG
*
688988 CATTTTATTTAT
60 C--CTTA---AT
* * * * * *
689000 GGCATCCTTTCATGCCTTAATCCATCATTTCATGCATTCTATTTATGGCATCCTTTCATGCGTTA
1 -GCATCCTTTCATCCCTTAATGCATCATTTCATGCATTTTATTTATGCCATCCTTTAATGCCTTA
689065 AT
65 AT
*
689067 GCATCATTTCAT
1 GCATCCTTTCAT
689079 TCATTATATT
Statistics
Matches: 169, Mismatches: 28, Indels: 38
0.72 0.12 0.16
Matches are distributed among these distances:
65 1 0.01
66 102 0.60
67 7 0.04
68 8 0.05
70 8 0.05
71 6 0.04
72 37 0.22
ACGTcount: A:0.21, C:0.24, G:0.09, T:0.45
Consensus pattern (66 bp):
GCATCCTTTCATCCCTTAATGCATCATTTCATGCATTTTATTTATGCCATCCTTTAATGCCTTAA
T
Found at i:688873 original size:46 final size:46
Alignment explanation
Indices: 688743--688873 Score: 208
Period size: 46 Copynumber: 2.8 Consensus size: 46
688733 TCATTAATTA
* *
688743 TATTTATGGCATCCTTTCATGCCTTAATGCATCATTCCATGCATTT
1 TATTTATGGCATCCTTTCATCCCTTAATGCATCATTTCATGCATTT
688789 TATTTATGGCATCCTTTCATCCCTTAATGCATCATTTCATGCATTT
1 TATTTATGGCATCCTTTCATCCCTTAATGCATCATTTCATGCATTT
* * * *
688835 TATTTATAGCATCCTTTAATTCCTTAATGCATCCTTTCA
1 TATTTATGGCATCCTTTCATCCCTTAATGCATCATTTCA
688874 AGCCTTATTG
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.23, C:0.24, G:0.08, T:0.45
Consensus pattern (46 bp):
TATTTATGGCATCCTTTCATCCCTTAATGCATCATTTCATGCATTT
Found at i:688907 original size:26 final size:25
Alignment explanation
Indices: 688878--689013 Score: 78
Period size: 26 Copynumber: 5.7 Consensus size: 25
688868 CTTTCAAGCC
688878 TTATTGCATCCTTTCATGTATTTTCT
1 TTATTGCATCCTTTCATG-ATTTTCT
*
688904 TTA-TGCCATCCTTTCATG-----CC
1 TTATTG-CATCCTTTCATGATTTTCT
* * *
688924 TTAATGCATCATTTCATGCATTTTAT
1 TTATTGCATCCTTTCATG-ATTTTCT
* *
688950 TTATGGCATCCTTTCATG-----CC
1 TTATTGCATCCTTTCATGATTTTCT
* *
688970 TTAATGCATCCTTTCATGCATTTTAT
1 TTATTGCATCCTTTCATG-ATTTTCT
*
688996 TTATGGCATCCTTTCATG
1 TTATTGCATCCTTTCATG
689014 CCTTAATCCA
Statistics
Matches: 81, Mismatches: 15, Indels: 28
0.65 0.12 0.23
Matches are distributed among these distances:
20 31 0.38
21 2 0.02
25 2 0.02
26 46 0.57
ACGTcount: A:0.19, C:0.23, G:0.10, T:0.48
Consensus pattern (25 bp):
TTATTGCATCCTTTCATGATTTTCT
Found at i:688977 original size:158 final size:158
Alignment explanation
Indices: 688745--689031 Score: 493
Period size: 158 Copynumber: 1.8 Consensus size: 158
688735 ATTAATTATA
*
688745 TTTATGGCATCCTTTCATGCCTTAATGCATCATTCCATGCATTTTATTTATGGCATCCTTTCATC
1 TTTATGCCATCCTTTCATGCCTTAATGCATCATTCCATGCATTTTATTTATGGCATCCTTTCATC
* * *
688810 CCTTAATGCATCATTTCATGCATTTTATTTATAGCATCCTTTAATTCCTTAATGCATCCTTTCAA
66 CCTTAATGCATCATTTCATGCATTTTATTTATAGCATCCTTTAATGCCTTAATCCATCATTTCAA
688875 GCCTTATTGCATCCTTTCATGTATTTTC
131 GCCTTATTGCATCCTTTCATGTATTTTC
* *
688903 TTTATGCCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTATTTATGGCATCCTTTCATG
1 TTTATGCCATCCTTTCATGCCTTAATGCATCATTCCATGCATTTTATTTATGGCATCCTTTCATC
* * *
688968 CCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATCCATCATTTCA
66 CCTTAATGCATCATTTCATGCATTTTATTTATAGCATCCTTTAATGCCTTAATCCATCATTTCA
689032 TGCATTCTAT
Statistics
Matches: 120, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
158 120 1.00
ACGTcount: A:0.21, C:0.24, G:0.09, T:0.45
Consensus pattern (158 bp):
TTTATGCCATCCTTTCATGCCTTAATGCATCATTCCATGCATTTTATTTATGGCATCCTTTCATC
CCTTAATGCATCATTTCATGCATTTTATTTATAGCATCCTTTAATGCCTTAATCCATCATTTCAA
GCCTTATTGCATCCTTTCATGTATTTTC
Found at i:689140 original size:46 final size:46
Alignment explanation
Indices: 688863--689139 Score: 401
Period size: 46 Copynumber: 6.0 Consensus size: 46
688853 ATTCCTTAAT
* * * * *
688863 GCATCCTTTCAAGCCTTATTGCATCCTTTCATGTATTTTCTTTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTATTTATG
*
688909 CCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTATTTATG
*
688955 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTATTTATG
* *
689001 GCATCCTTTCATGCCTTAATCCATCATTTCATGCATTCTATTTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTATTTATG
* * *
689047 GCATCCTTTCATGCGTTAATGCATCATTTCATTCATTATATTTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTATTTATG
* * * * *
689093 GAATCCTTTAATGCCTTAATGAATCTTTTCATGCATTTGATTTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTATTTATG
689139 G
1 G
689140 ATTCATTTTA
Statistics
Matches: 208, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 208 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.45
Consensus pattern (46 bp):
GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTATTTATG
Found at i:708933 original size:30 final size:29
Alignment explanation
Indices: 708880--708947 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
708870 ATGAGATGAA
* *
708880 AATGAATGATACATGCTTCGAAATGAATTT
1 AATGAATGATACATACTTCGAAAT-AAATT
*
708910 AATGAATGATACGTACTAT-GAAATAAATT
1 AATGAATGATACATACT-TCGAAATAAATT
708939 AAGTGAATG
1 AA-TGAATG
708948 GAACATGCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 6 0.18
30 26 0.79
31 1 0.03
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.31
Consensus pattern (29 bp):
AATGAATGATACATACTTCGAAATAAATT
Found at i:712988 original size:46 final size:46
Alignment explanation
Indices: 712409--712978 Score: 719
Period size: 46 Copynumber: 12.4 Consensus size: 46
712399 TAATATACCA
* ** * *
712409 TTATGTATTTTCATTCGTGGCATCCTTTCATGTCGATTATGCACCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
* *
712455 TTGTGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACTG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
* * ** *
712501 TTATGCATTTTCATTTATGACATCATTTCATGATGATAATGCACCA
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
* * *
712547 TTATGCATTTTCGTTTATAGCATCCCTTCATGCCGATAATGCACCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
* *
712593 TTATGTATTTTCATTTATGGCATCCTTTCATGCCGAAAATGCACCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
* * * *
712639 TTATGCATTTTCATTTATGACATTCTTTCATCCCGATAATGTACCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
* * *
712685 TTATGCATTTTTAGTTATGGCATCCTTTCATGCCGATAATGCACCA
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
* * * **
712731 TTAAGCATTTTAATTTATGGCATCCTTTTATGTTGATAATGCACCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
* *** * **
712777 TTATGCATTTTCATTTATGGAATCCTTTCATGTTTATAATACATTG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
* *
712823 TTATGCATTTTTCATTTATGGCATCCTTT-ATGTCGATAATGCATCG
1 TTATGCA-TTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
*
712869 TTATGCATTTTCAGTTATGGCATCCTTTCATGCCGATAATGCACCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
* * **
712915 TTATGCATTTTCATTTATGTCATCATTTCATGCCGATAATGCACTA
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
**
712961 TTACACATTTTCATTTAT
1 TTATGCATTTTCATTTAT
712979 TCCTTCATTT
Statistics
Matches: 452, Mismatches: 70, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
45 20 0.04
46 412 0.91
47 20 0.04
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (46 bp):
TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
Found at i:714856 original size:19 final size:20
Alignment explanation
Indices: 714834--714872 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
714824 AAAGAAAATA
714834 TTTTTCTCATGATCCCTTATT
1 TTTTTCTCATGATCCCTTA-T
714855 TTTTTCTCATGATCCCTT
1 TTTTTCTCATGATCCCTT
714873 GAAATCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.13, C:0.26, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTTTCTCATGATCCCTTAT
Found at i:716954 original size:194 final size:194
Alignment explanation
Indices: 716728--717102 Score: 678
Period size: 194 Copynumber: 1.9 Consensus size: 194
716718 ATATATATAT
* *
716728 ATATATATATGTATCTTTCTGACATAATTTTCTTTACAATCATTGTTGATATCACCTTGAACGAT
1 ATATATATATGTATATTTCTAACATAATTTTCTTTACAATCATTGTTGATATCACCTTGAACGAT
* *
716793 GATTTTACTTTCTCTCCAAAAACTATAATTTTCGTATCCTCTGCATCTTTCTGAACTAATCGTCT
66 GATTTTACTTTCTCTCCAAAAACTATAATTTCCATATCCTCTGCATCTTTCTGAACTAATCGTCT
*
716858 CTGGAGACAAATAACCTATACCCAATATGATCTTAACTCATCAAATGATAACTCGTCAAAAAAG
131 CTGGAGACAAACAACCTATACCCAATATGATCTTAACTCATCAAATGATAACTCGTCAAAAAAG
* * *
716922 ATATATATATGTATATTTCTAACATCATTTTCTTTACAATTATTGTTTATATCACCTTGAACGAT
1 ATATATATATGTATATTTCTAACATAATTTTCTTTACAATCATTGTTGATATCACCTTGAACGAT
716987 GATTTTACTTTCTCTCCAAAAACTATAATTTCCATATCCTCTGCATCTTTCTGAACTAATCGTCT
66 GATTTTACTTTCTCTCCAAAAACTATAATTTCCATATCCTCTGCATCTTTCTGAACTAATCGTCT
717052 CTGGAGACAAACAACCTATACCCAATATGATCTTAACTCATCAAATGATAA
131 CTGGAGACAAACAACCTATACCCAATATGATCTTAACTCATCAAATGATAA
717103 TTCCATCAGG
Statistics
Matches: 173, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
194 173 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (194 bp):
ATATATATATGTATATTTCTAACATAATTTTCTTTACAATCATTGTTGATATCACCTTGAACGAT
GATTTTACTTTCTCTCCAAAAACTATAATTTCCATATCCTCTGCATCTTTCTGAACTAATCGTCT
CTGGAGACAAACAACCTATACCCAATATGATCTTAACTCATCAAATGATAACTCGTCAAAAAAG
Found at i:718792 original size:46 final size:46
Alignment explanation
Indices: 718721--719293 Score: 657
Period size: 46 Copynumber: 12.5 Consensus size: 46
718711 TTGTTAATAT
* * * * *
718721 ACCGTTATGTATTTTCATTTGTGGCATCTTTTCATGTCGATTATGC
1 ACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGC
* * * *
718767 ACCGTTATACATTTTCATTTATGGCATTCTATT-ATGCCAATAATGT
1 ACCGTTATGCATTTTCATTTATGGCATCCT-TTCATGCCGATAATGC
** * ** *
718813 ACTATTATGCATTTTCATTTATGACATCCTTTCATTTCAATAATGC
1 ACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGC
* * *
718859 ACTGTTATGCATTTTCATTTATGACATCCTTTCATGCCGAAAATGC
1 ACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGC
* * * *
718905 ACCTTTATGTATTTTCATTTATGGCATCCTTTAATGTCGATAATGC
1 ACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGC
* * *
718951 ACCGCTATGCATTTTCATTTATGCCATCCTTTCATACCGATAATGC
1 ACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGC
* *
718997 ACCGTTATGCATTTTCAGTTATGGTATCCTTTCATGCCGATAATGC
1 ACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGC
* * * * * *
719043 ACCATTAAGAATTTTAATGTATGGCACCCTTTCATGCCGATAATGC
1 ACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGC
** * *
719089 AGTGTTATGCATTTTCATTTATGGCATCCTTCCATGCCGATAATTC
1 ACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGC
* *
719135 ACTGTTATGCATTTTCATTTATCGCATCCTTTCATGCCGATAATGC
1 ACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGC
* * ** **
719181 ACCATTATGCAATTTCCA-TTATGATATCCTTTCATGTTGATAATGC
1 ACCGTTATGC-ATTTTCATTTATGGCATCCTTTCATGCCGATAATGC
* *
719227 ACCGTTATGCATTTTCATTTATGGTATCCTTTCAT-TCGATAATGC
1 ACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGC
* **
719272 ACCATTACACATTTTCATTTAT
1 ACCGTTATGCATTTTCATTTAT
719294 TCCTTCATTT
Statistics
Matches: 445, Mismatches: 78, Indels: 9
0.84 0.15 0.02
Matches are distributed among these distances:
45 36 0.08
46 401 0.90
47 8 0.02
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.42
Consensus pattern (46 bp):
ACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGC
Found at i:724017 original size:15 final size:15
Alignment explanation
Indices: 723997--724026 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
723987 GTGTTGTCGA
723997 TCTCCACCCTAACAC
1 TCTCCACCCTAACAC
724012 TCTCCACCCTAACAC
1 TCTCCACCCTAACAC
724027 GTAAATAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.53, G:0.00, T:0.20
Consensus pattern (15 bp):
TCTCCACCCTAACAC
Found at i:727023 original size:51 final size:51
Alignment explanation
Indices: 726951--727054 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
726941 GCTCTCACTG
*
726951 AGATAAACAATTACATAGTAATGATGCTAAACATTTGGAAACATACATCTC
1 AGATAAACAATCACATAGTAATGATGCTAAACATTTGGAAACATACATCTC
*
727002 AGATAAACAATCACATGGTAATGATGCTAAACATTTGGAAACATACATCTC
1 AGATAAACAATCACATAGTAATGATGCTAAACATTTGGAAACATACATCTC
727053 AG
1 AG
727055 CATGCATTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.26
Consensus pattern (51 bp):
AGATAAACAATCACATAGTAATGATGCTAAACATTTGGAAACATACATCTC
Found at i:731447 original size:21 final size:21
Alignment explanation
Indices: 731375--731439 Score: 121
Period size: 21 Copynumber: 3.1 Consensus size: 21
731365 TAATGTTGCT
731375 GCTCAGCTCCAATGACGTGCG
1 GCTCAGCTCCAATGACGTGCG
*
731396 GCTCAGCTCCAATGATGTGCG
1 GCTCAGCTCCAATGACGTGCG
731417 GCTCAGCTCCAATGACGTGCG
1 GCTCAGCTCCAATGACGTGCG
731438 GC
1 GC
731440 ATTTCTCCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.18, C:0.32, G:0.29, T:0.20
Consensus pattern (21 bp):
GCTCAGCTCCAATGACGTGCG
Found at i:735798 original size:16 final size:16
Alignment explanation
Indices: 735745--735800 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 16
735735 ATTTAAACAT
735745 ATAAAATTAAAATATAA
1 ATAAAATTAAAAT-TAA
735762 ATAAACAATGAGTAAAA-TAA
1 AT-AA-AAT---TAAAATTAA
735782 ATAAAATTAAAATTAA
1 ATAAAATTAAAATTAA
735798 ATA
1 ATA
735801 TAAAAAGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
15 5 0.15
16 6 0.18
17 2 0.06
18 5 0.15
19 5 0.15
20 5 0.15
22 5 0.15
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAATTAA
Found at i:735815 original size:37 final size:37
Alignment explanation
Indices: 735745--735815 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
735735 ATTTAAACAT
* *
735745 ATAAAATTAAAATATAAATAAACAATGAGTAAAATAA
1 ATAAAATTAAAATATAAATAAAAAATGAATAAAATAA
735782 ATAAAATTAAAAT-TAAATATAAAAA-GTAATAAAA
1 ATAAAATTAAAATATAAATA-AAAAATG-AATAAAA
735816 CTTATAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.77
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.25
Consensus pattern (37 bp):
ATAAAATTAAAATATAAATAAAAAATGAATAAAATAA
Found at i:737044 original size:3 final size:3
Alignment explanation
Indices: 737038--737083 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
737028 TATTTTTTAG
* * *
737038 TAA TAA TAA TAA TTA TTA TTA TAA TAA TAA -AA TAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
737084 AATCGGGATA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:737047 original size:21 final size:21
Alignment explanation
Indices: 737021--737067 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
737011 CCTGTTTGTA
737021 AATAATATATT-TT-TTAGTAAT
1 AATAATA-ATTATTATTA-TAAT
737042 AATAATAATTATTATTATAAT
1 AATAATAATTATTATTATAAT
737063 AATAA
1 AATAA
737068 AATAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.12
21 18 0.75
22 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
AATAATAATTATTATTATAAT
Found at i:737073 original size:8 final size:8
Alignment explanation
Indices: 737060--737086 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
737050 TTATTATTAT
737060 AATAATAA
1 AATAATAA
737068 AATAATAA
1 AATAATAA
737076 AATAATAA
1 AATAATAA
737084 AAT
1 AAT
737087 CGGGATAAAA
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AATAATAA
Found at i:737448 original size:123 final size:125
Alignment explanation
Indices: 737262--737596 Score: 346
Period size: 113 Copynumber: 2.8 Consensus size: 125
737252 ATGTCAATTC
* *
737262 ATCTCCTTCTGTGATGTAATCTAGCAAAAAGTTTGAACAAGTTCTTCTCATTATAAACTTCTTCT
1 ATCTCCTTCTGTGATGTAATCTAGCAAAAAGGTTGAACAAGCTCTTCTCATTATAAACTTCTTCT
* *
737327 TC-GTCTTCATATGAGTTCTTCTCATTATGAACTTTCTTTGGAAAAGTTGATGTTGATCT
66 TCTGTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGTTGATCT
** *
737386 ATCTCCTTCTGTGATAG-AATC-ATGC-AAAAGGTTGGGCAAGCTCTTCTCATTATGAACTTCTT
1 ATCTCCTTCTGTGAT-GTAATCTA-GCAAAAAGGTTGAACAAGCTCTTCTCATTATAAACTTCTT
* * * *
737448 CTTCTTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGG--CA----ATGTTGATCC
64 CTTCTGTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGTTGATCT
** * * * * *
737504 A--T-C--AAGTGATG-AATTTAAACAAAAA-GTTGAACAGGTTCTTCTCATTATGAACTTCTTC
1 ATCTCCTTCTGTGATGTAATCT-AGCAAAAAGGTTGAACAAGCTCTTCTCATTATAAACTTCTTC
737562 TTCCT-TCTTCAGATGAGTTCTTCTCATTATGAACT
65 TT-CTGTCTTCAGATGAGTTCTTCTCATTATGAACT
737597 CGACCTGGTA
Statistics
Matches: 184, Mismatches: 20, Indels: 25
0.80 0.09 0.11
Matches are distributed among these distances:
112 4 0.02
113 66 0.36
114 7 0.04
115 1 0.01
116 1 0.01
118 10 0.05
122 1 0.01
123 37 0.20
124 56 0.30
125 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (125 bp):
ATCTCCTTCTGTGATGTAATCTAGCAAAAAGGTTGAACAAGCTCTTCTCATTATAAACTTCTTCT
TCTGTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGTTGATCT
Done.