Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 286 of 438
Found at i:89529484 original size:46 final size:45
Alignment explanation
Indices: 89529310--89529484 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
89529300 GTAACCCGCC
* * * * *
89529310 CATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATC
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTC-CATT
* * *
89529356 CATGAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCTAGTT
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCC-A-TT
*
89529401 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCTCATT
1 -CA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTC-CATT
* *
89529449 CATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
89529485 TGCCCAAACA
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 61 0.57
47 30 0.28
48 4 0.04
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCCATT
Found at i:89529503 original size:46 final size:45
Alignment explanation
Indices: 89529360--89529503 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
89529350 CGCATCCATG
*
89529360 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATCT
* * * * *
89529407 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCTCATTCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCT
* *
89529453 AGTGAACTTGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACAT-CT
89529499 AGTGA
1 AGTGA
89529504 GATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
44 8 0.10
45 1 0.01
46 32 0.41
47 32 0.41
48 1 0.01
49 4 0.05
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCT
Found at i:89531901 original size:15 final size:15
Alignment explanation
Indices: 89531877--89531953 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
89531867 AGGAAACCGA
89531877 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
89531892 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
89531906 AATAAAG-AATCC-AG
1 -ATAAAGAAATCCAAG
* *
89531920 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
89531936 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
89531951 ATA
1 ATA
89531954 TGATACTATG
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
14 16 0.31
15 35 0.67
16 1 0.02
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:89531932 original size:29 final size:29
Alignment explanation
Indices: 89531875--89531953 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
89531865 CAAGGAAACC
*
89531875 GAATAAAGAAATCCAAGATAGAGAAATCCA
1 GAATAAAG-AATCCAAGATAAAGAAATCCA
*
89531905 GAATAAAGAATCC-AGAATAAAGAGATCCA
1 GAATAAAGAATCCAAG-ATAAAGAAATCCA
* *
89531934 GGATAAAGAAACCCAAGATA
1 GAATAAAG-AATCCAAGATA
89531954 TGATACTATG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
28 2 0.05
29 23 0.55
30 15 0.36
31 2 0.05
ACGTcount: A:0.56, C:0.14, G:0.18, T:0.13
Consensus pattern (29 bp):
GAATAAAGAATCCAAGATAAAGAAATCCA
Found at i:89537320 original size:26 final size:26
Alignment explanation
Indices: 89537291--89537341 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
89537281 ATTCAACACC
* * *
89537291 TAGGGGTATTTTGGTCATTTTTCCCA
1 TAGGGGTATTTCGATAATTTTTCCCA
89537317 TAGGGGTATTTCGATAATTTTTCCC
1 TAGGGGTATTTCGATAATTTTTCCC
89537342 TAATTACGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.45
Consensus pattern (26 bp):
TAGGGGTATTTCGATAATTTTTCCCA
Found at i:89537676 original size:29 final size:28
Alignment explanation
Indices: 89537602--89537716 Score: 106
Period size: 29 Copynumber: 4.0 Consensus size: 28
89537592 TACATACATA
*
89537602 CATATGGCCCACTAGGCCCAATCTTATT
1 CATATGGCCCACTAGGCCCAATCATATT
* *
89537630 CAAATGGCCCATCT-GGCCCAGTTCATATT
1 CATATGGCCCA-CTAGGCCCA-ATCATATT
* * * **
89537659 CTTATGGCCTACTAGGCCGAATTCACCTT
1 CATATGGCCCACTAGGCCCAA-TCATATT
*
89537688 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCACTAGGCCC-AATCATATT
89537717 ATAATCATGC
Statistics
Matches: 66, Mismatches: 16, Indels: 9
0.73 0.18 0.10
Matches are distributed among these distances:
28 18 0.27
29 46 0.70
30 2 0.03
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (28 bp):
CATATGGCCCACTAGGCCCAATCATATT
Found at i:89537968 original size:8 final size:8
Alignment explanation
Indices: 89537932--89537999 Score: 68
Period size: 8 Copynumber: 8.6 Consensus size: 8
89537922 CGTAGCCCAA
89537932 CTTTT-GG
1 CTTTTCGG
89537939 CTTTTCGG
1 CTTTTCGG
89537947 CATTTT-GG
1 C-TTTTCGG
* *
89537955 CATTTCGA
1 CTTTTCGG
89537963 CTTTTCGG
1 CTTTTCGG
* **
89537971 CATTTCAT
1 CTTTTCGG
89537979 CTTTTCGG
1 CTTTTCGG
89537987 CTTTTCGG
1 CTTTTCGG
89537995 CTTTT
1 CTTTT
89538000 GCCGATTCAT
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
7 8 0.17
8 36 0.75
9 4 0.08
ACGTcount: A:0.07, C:0.22, G:0.19, T:0.51
Consensus pattern (8 bp):
CTTTTCGG
Found at i:89545447 original size:27 final size:27
Alignment explanation
Indices: 89545417--89545549 Score: 151
Period size: 27 Copynumber: 4.9 Consensus size: 27
89545407 TGCCCTCGAC
*
89545417 TTGTAAAATCACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
* *
89545444 TTGTAAAATTACTAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
** *
89545471 TTACAAAATTACCAAAATACCCATGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
* *
89545498 TTGCAAAATTACTAAAATACCCCT-GT
1 TTGTAAAATTACCAAAATACCCCTGGT
** *
89545524 AGGGTAAAATTACCGAAATACCCCTG
1 -TTGTAAAATTACCAAAATACCCCTG
89545550 TAGGGTAGAA
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.02
27 87 0.98
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGGT
Found at i:89545550 original size:27 final size:27
Alignment explanation
Indices: 89545419--89545565 Score: 106
Period size: 27 Copynumber: 5.4 Consensus size: 27
89545409 CCCTCGACTT
* **
89545419 GTAAAATCACCAAAATACCCCTGGT-TT
1 GTAAAATTACCAAAATACCCCT-GTAGG
*
89545446 GTAAAATTACTAAAATA-CCCT-T-GG
1 GTAAAATTACCAAAATACCCCTGTAGG
* * **
89545470 TTTACAAAATTACCAAAATACCCATGGT-TT
1 -GT--AAAATTACCAAAATACCCCT-GTAGG
* *
89545500 GCAAAATTACTAAAATACCCCTGTAGG
1 GTAAAATTACCAAAATACCCCTGTAGG
*
89545527 GTAAAATTACCGAAATACCCCTGTAGG
1 GTAAAATTACCAAAATACCCCTGTAGG
*
89545554 GTAGAATTACCA
1 GTAAAATTACCA
89545566 TTTTGCCCCT
Statistics
Matches: 93, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
24 1 0.01
25 1 0.01
26 6 0.06
27 81 0.87
28 3 0.03
30 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCTGTAGG
Found at i:89546246 original size:28 final size:27
Alignment explanation
Indices: 89546187--89546279 Score: 143
Period size: 27 Copynumber: 3.4 Consensus size: 27
89546177 TAGAACACGA
*
89546187 AATTACCCTTAAAGAGCAAAATTACCG
1 AATTACCCCTAAAGAGCAAAATTACCG
89546214 AATTACCCCTAAAGAGCAAAATTACCG
1 AATTACCCCTAAAGAGCAAAATTACCG
*
89546241 AAATTACCCCTAAGGAGCAAAATTACC-
1 -AATTACCCCTAAAGAGCAAAATTACCG
89546268 AATATACCCCTA
1 AAT-TACCCCTA
89546280 GGGTTTAAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
26 3 0.05
27 34 0.55
28 25 0.40
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.20
Consensus pattern (27 bp):
AATTACCCCTAAAGAGCAAAATTACCG
Found at i:89547541 original size:43 final size:43
Alignment explanation
Indices: 89547441--89547533 Score: 168
Period size: 43 Copynumber: 2.2 Consensus size: 43
89547431 TCTAATTTAG
*
89547441 TGTAAGAACCTGTCTGGGATAGTGGCTTCGATGTTTGATTACA
1 TGTAAGAACCTGTCTGGGATAGTGGCATCGATGTTTGATTACA
*
89547484 TGTAAGACCCTGTCTGGGATAGTGGCATCGATGTTTGATTACA
1 TGTAAGAACCTGTCTGGGATAGTGGCATCGATGTTTGATTACA
89547527 TGTAAGA
1 TGTAAGA
89547534 TCATGTCTAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (43 bp):
TGTAAGAACCTGTCTGGGATAGTGGCATCGATGTTTGATTACA
Found at i:89547556 original size:43 final size:43
Alignment explanation
Indices: 89547441--89547545 Score: 149
Period size: 43 Copynumber: 2.4 Consensus size: 43
89547431 TCTAATTTAG
* *
89547441 TGTAAGAACC-TGTCTGGGATAGTGGCTTCGATGTTTGATTACA
1 TGTAAG-ACCATGTCTAGGATAGTGGCATCGATGTTTGATTACA
* *
89547484 TGTAAGACCCTGTCTGGGATAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCATGTCTAGGATAGTGGCATCGATGTTTGATTACA
*
89547527 TGTAAGATCATGTCTAGGA
1 TGTAAGACCATGTCTAGGA
89547546 CGTTGGCATC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
42 3 0.05
43 54 0.95
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGATAGTGGCATCGATGTTTGATTACA
Found at i:89560048 original size:88 final size:88
Alignment explanation
Indices: 89559897--89560086 Score: 290
Period size: 88 Copynumber: 2.2 Consensus size: 88
89559887 GTGCAGGGCT
* *
89559897 CACACGCCCGTGTGTTCCAAGGGACACACCTGTGCTAGAGGCCGTGTTCGACCCCGTGGAACTCT
1 CACACGCCCGTGTGGTCCAAGGGACACACCTGTGCTAGAGACCGTGTTCGACCCCGTGGAACTCT
89559962 CTGACTTGAACACACGGCAATGC
66 CTGACTTGAACACACGGCAATGC
* * * * *
89559985 CACACGCCCGTGTGGTCTAAGGGACACGCCTGTTCTAGAGACTGTGTTCGACCCCGTGTAACTCT
1 CACACGCCCGTGTGGTCCAAGGGACACACCTGTGCTAGAGACCGTGTTCGACCCCGTGGAACTCT
*
89560050 CTGACTTGAACACACGGCCATGC
66 CTGACTTGAACACACGGCAATGC
* *
89560073 CATACGCCCATGTG
1 CACACGCCCGTGTG
89560087 CAAGCCCATG
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 92 1.00
ACGTcount: A:0.21, C:0.33, G:0.25, T:0.21
Consensus pattern (88 bp):
CACACGCCCGTGTGGTCCAAGGGACACACCTGTGCTAGAGACCGTGTTCGACCCCGTGGAACTCT
CTGACTTGAACACACGGCAATGC
Found at i:89564244 original size:94 final size:92
Alignment explanation
Indices: 89564078--89564392 Score: 340
Period size: 94 Copynumber: 3.4 Consensus size: 92
89564068 TTGTGTGTGG
* *
89564078 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGATGAGTGCTAGTGTAAGACATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACATGT
*
89564143 CTAGGACATGCATCGGCTACATTATGAGA
66 CTGGGACATGCATCGGCT-C-TTATGAGA
* *
89564172 GCCAGTGTAAGACCATGTCTAGGACATGGCATTGGCATTGAGACGAGTGCTAGTGTAAGACATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACATGT
*
89564237 TTGGGACATGCATCGGC-CTTGAGTCGTA-A
66 CTGGGACATGCATCGGCTCTT-A-T-G-AGA
*
89564266 GCCTGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TATGAGACGA-TAG-TCAGTGTAAGACC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGACGAGT-GCT-AGTGTAAGA-C
* * * *
89564326 ATGTCTGGGTCATGGCATCGACT-TGCGATGTGA
62 ATGTCTGGGACAT-GCATCGGCTCT--TATGAGA
* *
89564359 GCCAGTGTAAGACCATGTCTGGGATATAGCATCG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
89564393 ACACCTTACC
Statistics
Matches: 190, Mismatches: 16, Indels: 29
0.81 0.07 0.12
Matches are distributed among these distances:
91 5 0.03
92 27 0.14
93 39 0.21
94 111 0.58
95 8 0.04
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (92 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACATGT
CTGGGACATGCATCGGCTCTTATGAGA
Found at i:89564365 original size:47 final size:46
Alignment explanation
Indices: 89564073--89564394 Score: 251
Period size: 47 Copynumber: 6.9 Consensus size: 46
89564063 GTCATTTGTG
*
89564073 TGTGGGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTA-TTGAGA
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATC-G-ACTTGAGA
* * * * * ** *
89564121 TGAGTGCTAGTGTAAGA-CATGTCTAGGACATGCATCGGCTACATTA
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACTTGA-GA
* * * *
89564167 TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATTGGCATTGAGA
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGAC-TTGAGA
* * * * * *
89564215 CGAGTGCTAGTGTAAGA-CATGTTTGGGACATGCATCGGCCTTGAG-
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACATGCATC-GACTTGAGA
* * *
89564260 TCGTAAGCCTGTGTAAGA-CATGTCTGGGACATGCATCGGCTATGAGA
1 T-GTGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACT-TGAGA
* * * *
89564307 CGAT-AGTCAGTGTAAGACCATGTCTGGGTCATGGCATCGACTTGCGA
1 TG-TGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGACTTGAGA
*
89564354 TGTGAGCCAGTGTAAGACCATGTCTGGGATATAGCATCGAC
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGAC
89564395 ACCTTACCCA
Statistics
Matches: 221, Mismatches: 40, Indels: 27
0.77 0.14 0.09
Matches are distributed among these distances:
45 6 0.03
46 76 0.34
47 93 0.42
48 44 0.20
49 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (46 bp):
TGTGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACTTGAGA
Found at i:89564376 original size:140 final size:142
Alignment explanation
Indices: 89564073--89564392 Score: 357
Period size: 140 Copynumber: 2.3 Consensus size: 142
89564063 GTCATTTGTG
* * * *
89564073 TGTGGGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGATGAGTGCTAGTGTAAGA
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGCATTGAGATGAGTCCTAGTGTAAGA
* *
89564138 CATGTCTAGGACATGCATCGGCTACATTATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCA
66 CATGTCTAGGACATGCATCGGCTACATGACGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCA
* *
89564203 TTGGCATTGAGA
131 TCGACATTGAGA
* * * * * *
89564215 CGAGTGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTTGAG-TCGTAAG-CCT-GTGTA
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGCATTGAGAT-G--AGTCCTAGTGTA
* * * * * *
89564275 AGACATGTCTGGGACATGCATCGGCTATGA-GACGATAGTCAGTGTAAGACCATGTCTGGGTCAT
63 AGACATGTCTAGGACATGCATCGGCTA-CATGACGAGAGCCAGTGTAAGACCATGTCTAGGACAT
*
89564339 GGCATCGAC-TTGCGA
127 GGCATCGACATTGAGA
*
89564354 TGTGAGCCAGTGTAAGACCATGTCTGGGATATAGCATCG
1 TGTGAGCCAGTGTAAGACCATGTCTGGGACATAGCATCG
89564393 ACACCTTACC
Statistics
Matches: 147, Mismatches: 25, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
139 19 0.13
140 91 0.62
141 22 0.15
142 15 0.10
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (142 bp):
TGTGAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGCATTGAGATGAGTCCTAGTGTAAGA
CATGTCTAGGACATGCATCGGCTACATGACGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCA
TCGACATTGAGA
Found at i:89573063 original size:49 final size:47
Alignment explanation
Indices: 89572884--89573155 Score: 373
Period size: 49 Copynumber: 5.7 Consensus size: 47
89572874 CCCTTCGGGA
* * * * * *
89572884 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
89572931 CCTATCACATATATACACTTTCACATCCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89572978 CTTATCACATATATACACTTTCACATTCATCTCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89573025 CTTATCACATACGTATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATA--TATACACTTTCACATTCATCACATCGGCCATTAGGC
89573074 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89573123 CTTATCTCATATTTATACACATTCACATTCATC
1 CTTATCACATA--TATACACTTTCACATTCATC
89573156 GCGTAGAATC
Statistics
Matches: 205, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
47 99 0.48
49 103 0.50
51 3 0.01
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89576832 original size:40 final size:40
Alignment explanation
Indices: 89576766--89576956 Score: 339
Period size: 40 Copynumber: 4.8 Consensus size: 40
89576756 CCAGCATGAT
* *
89576766 TGCTCTTCGG-ACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
89576805 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
89576845 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
89576885 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
89576925 TGCTCTTCGGAACTTAGTCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
89576957 CTCAATTCTC
Statistics
Matches: 147, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
39 10 0.07
40 137 0.93
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:89578843 original size:40 final size:39
Alignment explanation
Indices: 89578788--89579004 Score: 240
Period size: 40 Copynumber: 5.5 Consensus size: 39
89578778 GCTCGATTGT
* *
89578788 CTTCGGGACA-TAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGA-ATTAGCCCGGTT-TAGTAACTCGCACAAATGC
89578828 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
89578868 CTTCAGGACTTAACCCGGTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGGTTTAGTAACTCGCACAAATGC
* * *
89578907 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
89578947 CTTCGGGAATT-GACCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGAATTAGCCCGG-TTTAGTAAC-TCGCACAAATGC
*
89578987 CTTCGGGACTTAGCCCGG
1 CTTCGGGAATTAGCCCGG
89579005 ACATCATTCG
Statistics
Matches: 155, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 49 0.32
40 99 0.64
41 7 0.05
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CTTCGGGAATTAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:89578908 original size:79 final size:79
Alignment explanation
Indices: 89578801--89579005 Score: 259
Period size: 79 Copynumber: 2.6 Consensus size: 79
89578791 CGGGACATAG
* * *
89578801 CCCGGTTATAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAAT
1 CCCGGTT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAAT
*
89578866 GCCTTCAGGACTTAA
65 GCCTTCAGGAATTAA
* * * *
89578881 CCCGGTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATG
1 CCCGGTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
* *
89578946 CCTTCGGGAATTGA
66 CCTTCAGGAATTAA
* * *
89578960 -CCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 CCCGG-TTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
89579006 CATCATTCGA
Statistics
Matches: 107, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
78 4 0.04
79 69 0.64
80 34 0.32
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (79 bp):
CCCGGTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
CCTTCAGGAATTAA
Found at i:89578981 original size:119 final size:119
Alignment explanation
Indices: 89578788--89579004 Score: 310
Period size: 119 Copynumber: 1.8 Consensus size: 119
89578778 GCTCGATTGT
* * * *
89578788 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAGACCGGATTTAGT
* *
89578853 AACTCGCACAAATGCCTTCAGGACTTAACCCGGTTTGGTAACTCGCACAAATGC
66 AACTAGCACAAAAGCCTTCAGGACTTAACCCGGTTTGGTAACTCGCACAAATGC
* * *
89578907 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATT-GACCGGATTTAGT
1 CTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAGACCGGATTTAGT
* * *
89578971 CACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
66 AAC-TAGCACAAAAGCCTTCAGGACTTAACCCGG
89579005 ACATCATTCG
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
118 14 0.16
119 71 0.84
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (119 bp):
CTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAGACCGGATTTAGT
AACTAGCACAAAAGCCTTCAGGACTTAACCCGGTTTGGTAACTCGCACAAATGC
Found at i:89583534 original size:40 final size:40
Alignment explanation
Indices: 89583485--89583675 Score: 330
Period size: 40 Copynumber: 4.8 Consensus size: 40
89583475 CCAGTATGAT
* * *
89583485 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
89583525 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
89583565 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
89583605 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
89583645 TGCTCTTC-GAACTTAGTCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
89583676 CTCAATTCTC
Statistics
Matches: 147, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
39 22 0.15
40 125 0.85
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:89585880 original size:25 final size:25
Alignment explanation
Indices: 89585852--89585930 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
89585842 ACTCGGCCCT
89585852 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
*** *** *
89585877 ATCACAT-TGGCCA-TTAGGCCTT-
1 ATCACATATATACACTTTCACATTC
89585899 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
89585924 ATCACAT
1 ATCACAT
89585931 CGGCCATTAG
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:89585979 original size:49 final size:48
Alignment explanation
Indices: 89585802--89586073 Score: 406
Period size: 49 Copynumber: 5.7 Consensus size: 48
89585792 CCCTTCGGGA
* * * * *
89585802 CTTATCACAT-TTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89585849 CCTATCACATA-TATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
89585896 CTTATCACATA-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89585943 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
89585992 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89586041 CTTATCTCATATTTATACACATTCACATTCATC
1 CTTATCACATA-TTATACACTTTCACATTCATC
89586074 GCGTAGAATC
Statistics
Matches: 209, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
47 97 0.46
49 111 0.53
50 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (48 bp):
CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89596799 original size:93 final size:93
Alignment explanation
Indices: 89596685--89596856 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
89596675 GCCCATAAGT
* * * *
89596685 GAACTCGGACTCAACTCAATGAGCTCGGCCGTTCGCATCCATAAGTGAACTCGGACTCACCTCAA
1 GAACTCGGACTCAACACAATGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
89596750 CGAGCTCGGATGCCTAGTTGCATCTCTC
66 CGAGCTCGGATGCCTAGTTGCATCTCTC
*
89596778 GAACTCGGACTCAACACAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACACAATGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
89596843 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
89596857 CAAACATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACACAATGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTGCATCTCTC
Found at i:89596852 original size:46 final size:46
Alignment explanation
Indices: 89596677--89596852 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
89596667 TGTAACCCGC
* * *
89596677 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGCCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
89596723 CCATAAGTGAACTCGGACTCACCTCAACGAGCTCGGATGCCTAGTT-GCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * * *
89596773 CTC-T---CGAACTCGGACTCAACACAATGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
89596816 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
89596853 TGCCCAAACA
Statistics
Matches: 107, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.07
44 1 0.01
46 61 0.57
47 25 0.23
49 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:89605508 original size:19 final size:21
Alignment explanation
Indices: 89605480--89605522 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
89605470 TTTGTTTTTC
*
89605480 TTTCTTTTCTTC-CTGC-CAA
1 TTTCTATTCTTCTCTGCACAA
89605499 TTTCTATTCTTCTCTGCACAA
1 TTTCTATTCTTCTCTGCACAA
89605520 TTT
1 TTT
89605523 TCTTTGTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 4 0.19
21 6 0.29
ACGTcount: A:0.14, C:0.28, G:0.05, T:0.53
Consensus pattern (21 bp):
TTTCTATTCTTCTCTGCACAA
Found at i:89607751 original size:26 final size:26
Alignment explanation
Indices: 89607722--89607802 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
89607712 TGAGGTCACG
89607722 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
* * * *
89607748 TGTGTACCG-AATAATTG--GTC-GC-A
1 TGTGTA--GTACTAAGTGCAGGCTACTA
*
89607771 TGTGTAGTGCTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
89607797 TGTGTA
1 TGTGTA
89607803 CCCGAAAACT
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
21 1 0.03
22 5 0.13
23 7 0.18
24 3 0.08
25 3 0.08
26 13 0.33
27 6 0.15
28 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:89607794 original size:49 final size:49
Alignment explanation
Indices: 89607722--89607909 Score: 245
Period size: 49 Copynumber: 3.8 Consensus size: 49
89607712 TGAGGTCACG
89607722 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATTGGTCGCA
* * * *
89607771 TGTGTAGTGCTAAGTGCAGGCTACTATGTGTACCCGAA-AACTATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCGAATAA-T-TGGTCGCA
* *
89607822 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGA-ATAATTGGTCGCA
* * *
89607871 TGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAAATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATA
89607910 GCTTCGGCTA
Statistics
Matches: 119, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
49 72 0.61
50 11 0.09
51 36 0.30
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATTGGTCGCA
Found at i:89607894 original size:100 final size:100
Alignment explanation
Indices: 89607717--89607904 Score: 315
Period size: 100 Copynumber: 1.9 Consensus size: 100
89607707 TATTGTGAGG
* *
89607717 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATTGGTCGCATGTGTAGTGCT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCATGTGTAGTACT
* *
89607782 AAGTGCAGGCTACTATGTGTACCCGAAAACTATGA
66 AAGTGCAAGCTACTATGCGTACCCGAAAACTATGA
*
89607817 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AGATTATTGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGA-ATAATTGGTCGCATGTGTAGTAC
89607881 TAAGTGCAAGCTACTATGCGTACC
65 TAAGTGCAAGCTACTATGCGTACC
89607905 AAATAGCTTC
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
99 1 0.01
100 81 0.99
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCATGTGTAGTACT
AAGTGCAAGCTACTATGCGTACCCGAAAACTATGA
Found at i:89609278 original size:29 final size:29
Alignment explanation
Indices: 89609244--89609331 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 29
89609234 CAATATAAAT
89609244 GTGATTTGGGCCTAATGGGCCATATACAG
1 GTGATTTGGGCCTAATGGGCCATATACAG
* *
89609273 GTGATTTGGGCCTAAGGGGCCATATGA-AT
1 GTGATTTGGGCCTAATGGGCCATAT-ACAG
* * **
89609302 ATGA-TTGGGCTTAATGGGCCAGGTACAG
1 GTGATTTGGGCCTAATGGGCCATATACAG
89609330 GT
1 GT
89609332 ATGTGAAATT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
27 1 0.02
28 18 0.38
29 28 0.58
30 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (29 bp):
GTGATTTGGGCCTAATGGGCCATATACAG
Found at i:89611569 original size:5 final size:5
Alignment explanation
Indices: 89611555--89611583 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
89611545 TTTAACTATG
89611555 TAAAA T-AAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
89611584 AGTTCCAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:89618837 original size:48 final size:49
Alignment explanation
Indices: 89618760--89618887 Score: 143
Period size: 48 Copynumber: 2.7 Consensus size: 49
89618750 ATTAATGAGA
* * * *
89618760 GCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCATTGATATGTG-T
1 GCCAGTGTAAGACCATATCTGGGATATGGCATCAGCATCGATATGTGAT
* ** * *
89618808 GCCAGTGTAAGACCATATCTGGGATATGGCGTTGGCCTCGGTATGTGAT
1 GCCAGTGTAAGACCATATCTGGGATATGGCATCAGCATCGATATGTGAT
**
89618857 TTCA-TGTAAGACCATATCTGGGATATGGCAT
1 GCCAGTGTAAGACCATATCTGGGATATGGCAT
89618888 TGATATGAGA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
48 64 0.96
49 3 0.04
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
GCCAGTGTAAGACCATATCTGGGATATGGCATCAGCATCGATATGTGAT
Found at i:89618913 original size:42 final size:42
Alignment explanation
Indices: 89618813--89618931 Score: 139
Period size: 42 Copynumber: 2.7 Consensus size: 42
89618803 TGTGTGCCAG
* * *
89618813 TGTAAGACCATATCTGGGATATGGCGTTGGCCTCGGTATGTGATTTCA
1 TGTAAGACCATATCTGGGATATGGC-AT----T-GATATGAGATTTCA
89618861 TGTAAGACCATATCTGGGATATGGCATTGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATTGATATGAGATTTCA
* *
89618903 TGTAAGACCATGTCTGGGACATGGCATTG
1 TGTAAGACCATATCTGGGATATGGCATTG
89618932 GCACCGACGT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
42 39 0.59
43 1 0.02
47 1 0.02
48 25 0.38
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATTGATATGAGATTTCA
Found at i:89618927 original size:90 final size:90
Alignment explanation
Indices: 89618813--89619022 Score: 226
Period size: 90 Copynumber: 2.3 Consensus size: 90
89618803 TGTGTGCCAG
* * * ** * * *
89618813 TGTAAGACCATATCTGGGATATGGCGTTGGC-CTCGGTATGTGATTTCATGTAAGACCATATCTG
1 TGTAAGACCATGTCTGGGACATGGCATTGGCAC-CGACATGAGATTTCATATAAGACCATATATG
* * **
89618877 GGATATGGCATTGATATG-AGATTTCA
65 GAATATGGCATCGATATGTAGA-CCCA
* *
89618903 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGACGTGAGATTTCGTATAAGACCATATATGG
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGATTTCATATAAGACCATATATGG
89618968 AATATGGCATCGATATGTAGACCCA
66 AATATGGCATCGATATGTAGACCCA
* * * *
89618993 TTTAAAACCATGTCTAGGACATGGCTTTGG
1 TGTAAGACCATGTCTGGGACATGGCATTGG
89619023 AATTCTATGT
Statistics
Matches: 100, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
90 96 0.96
91 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (90 bp):
TGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGATTTCATATAAGACCATATATGG
AATATGGCATCGATATGTAGACCCA
Found at i:89618945 original size:48 final size:46
Alignment explanation
Indices: 89618813--89618977 Score: 169
Period size: 48 Copynumber: 3.6 Consensus size: 46
89618803 TGTGTGCCAG
* *
89618813 TGTAAGACCATATCTGGGATATGGCGTTGGC-CTCGGTATGTGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATTGGCAC-C-G-ATGAGATTTCA
*
89618861 TGTAAGACCATATCTGGGATATGGCATT-G-A--TATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATTGGCACCGATGAGATTTCA
* * *
89618903 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGACGTGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATTGGCACCGA--TGAGATTTCA
* * *
89618951 TATAAGACCATATATGGAATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
89618978 CGATATGTAG
Statistics
Matches: 98, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
42 36 0.37
43 1 0.01
44 1 0.01
46 1 0.01
47 1 0.01
48 58 0.59
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (46 bp):
TGTAAGACCATATCTGGGATATGGCATTGGCACCGATGAGATTTCA
Found at i:89623665 original size:40 final size:40
Alignment explanation
Indices: 89623620--89623787 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
89623610 CGGAATATAA
89623620 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
89623660 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
89623700 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
89623740 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
89623780 CCGGATAT
1 CCGGATAT
89623788 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 105 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:89631641 original size:40 final size:40
Alignment explanation
Indices: 89631596--89631763 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
89631586 CGGAATATAA
89631596 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
89631636 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
89631676 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
89631716 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
89631756 CCGGATAT
1 CCGGATAT
89631764 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 105 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:89635203 original size:31 final size:29
Alignment explanation
Indices: 89635143--89635203 Score: 70
Period size: 31 Copynumber: 2.0 Consensus size: 29
89635133 GGAGTAATTT
*
89635143 GGACTAAATTGAAAAAAGGAGATAGTGTG
1 GGACTAAATTGAAAAAAGGAAATAGTGTG
*
89635172 GGACTAAAATGTGAAATAAATGAAATA-TGTG
1 GGACT-AAAT-TGAAA-AAAGGAAATAGTGTG
89635203 G
1 G
89635204 ACTTGTATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 5 0.19
30 4 0.15
31 10 0.37
32 8 0.30
ACGTcount: A:0.46, C:0.03, G:0.28, T:0.23
Consensus pattern (29 bp):
GGACTAAATTGAAAAAAGGAAATAGTGTG
Found at i:89635832 original size:43 final size:43
Alignment explanation
Indices: 89635687--89635843 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
89635677 TGTGTTTTCG
* * * * **
89635687 TGTAAGATCACGTCTGGGACATTGGCATCGACT-TATGATTTATG
1 TGTAAGACCACGTCTAGGACATTGGCATC-AATATTTGA-TTACA
* * * *
89635731 TGTAAGACCACGTCTGGGACGTTGGCATC-GTATTTGATTTCA
1 TGTAAGACCACGTCTAGGACATTGGCATCAATATTTGATTACA
* *
89635773 TGTAAGACC-CTCTCTAGGACACTGGCATCAATATTTGATTACA
1 TGTAAGACCAC-GTCTAGGACATTGGCATCAATATTTGATTACA
*
89635816 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCACGTCTAGGACATTGGCAT
89635844 TGTACGAGTT
Statistics
Matches: 93, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
41 1 0.01
42 26 0.28
43 38 0.41
44 28 0.30
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTAGGACATTGGCATCAATATTTGATTACA
Found at i:89646355 original size:51 final size:51
Alignment explanation
Indices: 89646243--89646381 Score: 147
Period size: 51 Copynumber: 2.7 Consensus size: 51
89646233 ATGCATACCC
* * * *
89646243 GATAGCTTCGATCACATGTGTGGTATTAAGTGCAGGCCACTATGTGTAAGA
1 GATAGCTTTGATCACAAGTGTGGTACTATGTGCAGGCCACTATGTGTAAGA
* * * * *
89646294 GATGGTTTTGATCACAAGTGTGGTACTATGTGAAGGCCAGTTTGTG-AAGAA
1 GATAGCTTTGATCACAAGTGTGGTACTATGTGCAGGCCACTATGTGTAAG-A
* *
89646345 GGTAGCTTTGA-CTACAAGGGTGGTACTATGTGCAGGC
1 GATAGCTTTGATC-ACAAGTGTGGTACTATGTGCAGGC
89646382 GACCGGGAAT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
50 4 0.06
51 68 0.94
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (51 bp):
GATAGCTTTGATCACAAGTGTGGTACTATGTGCAGGCCACTATGTGTAAGA
Found at i:89673626 original size:17 final size:17
Alignment explanation
Indices: 89673604--89673637 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
89673594 GACCTCTAGT
*
89673604 TTTGATTCTCATAGCTA
1 TTTGATCCTCATAGCTA
*
89673621 TTTGATCCTTATAGCTA
1 TTTGATCCTCATAGCTA
89673638 CTAGAATTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.47
Consensus pattern (17 bp):
TTTGATCCTCATAGCTA
Found at i:89675789 original size:46 final size:46
Alignment explanation
Indices: 89675739--89675914 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
89675729 TGGTTCAGCA
*
89675739 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGTAAATG
* * *
89675785 TCCGAACTCGTTGAGTTGAGTCCGAA-TTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCC-AAGTTCACTTATGGATGTAA--ATG
* * *
89675830 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGTAAATG
* * * * *
89675878 CCCGAGCTCGTTGAGCTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGG
89675915 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 59 0.55
47 28 0.26
48 4 0.04
50 6 0.06
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGTAAATG
Found at i:89675898 original size:93 final size:93
Alignment explanation
Indices: 89675736--89675907 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
89675726 GGATGGTTCA
* * *
89675736 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAGC
89675801 TGAGTCCGAATTCGTGAGATGTAACTAG
66 TGAGTCCGAATTCGTGAGATGTAACTAG
* ** *
89675829 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAATGCCCGAGCTCGTTGAGC
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAGC
*
89675894 TGAGTCCGAGTTCG
66 TGAGTCCGAATTCG
89675908 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAGC
TGAGTCCGAATTCGTGAGATGTAACTAG
Found at i:89678857 original size:14 final size:15
Alignment explanation
Indices: 89678825--89678857 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
89678815 TTATCCTGTA
89678825 TCTTTATTCTGGATT
1 TCTTTATTCTGGATT
*
89678840 TCTTTATTC-GGTTT
1 TCTTTATTCTGGATT
89678854 TCTT
1 TCTT
89678858 GTTATCTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.09, C:0.15, G:0.12, T:0.64
Consensus pattern (15 bp):
TCTTTATTCTGGATT
Found at i:89681288 original size:46 final size:45
Alignment explanation
Indices: 89681238--89681413 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
89681228 TGGTTGAGCA
*
89681238 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AAACG
* * * *
89681284 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AA--A--CG
* *
89681331 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTCATGGATGAGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGA-AACG
* * *
89681377 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
89681414 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.58
47 27 0.25
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAACG
Found at i:89681394 original size:93 final size:93
Alignment explanation
Indices: 89681235--89681406 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
89681225 GGATGGTTGA
* * *
89681235 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAGT
89681300 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
89681328 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTCATGGATG-AGAACGCCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCA-AACGCCCGAACTCATTGAG
89681392 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
89681407 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:89686189 original size:16 final size:17
Alignment explanation
Indices: 89686163--89686195 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
89686153 ATACCAATAC
89686163 CATATCAACATTTATCA
1 CATATCAACATTTATCA
89686180 CATA-CAACATTTATCA
1 CATATCAACATTTATCA
89686196 TGCCATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.33
Consensus pattern (17 bp):
CATATCAACATTTATCA
Found at i:89687821 original size:42 final size:43
Alignment explanation
Indices: 89687720--89687877 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 43
89687710 ATGTGATCTT
* * *
89687720 GTGTAAGACCATGTTTGGGACATTGGCATCGAT-TTGAGATTTAC
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGATATT-TGATTT-C
*
89687764 GTGTAAGACCATGTCTGGGACGTCGGCATC-ATATTTGATTTC
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTTC
* * *
89687806 GTGTAAGACCCTGTCTGGGACAG-TGGCATCGATATCTGATTAC
1 GTGTAAGACCATGTCTGGGAC-GTTGGCATCGATATTTGATTTC
* *
89687849 ATGTAAGACCACT-TCTAGGACGTTGGCAT
1 GTGTAAGACCA-TGTCTGGGACGTTGGCAT
89687878 TGTACGAGTT
Statistics
Matches: 98, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
42 28 0.29
43 40 0.41
44 30 0.31
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTTC
Found at i:89695030 original size:43 final size:42
Alignment explanation
Indices: 89694914--89695030 Score: 117
Period size: 43 Copynumber: 2.8 Consensus size: 42
89694904 GATTTGAGAT
* * * * * *
89694914 TTACATGTAAGACCATGTTTGAGAAATCGACATCGTATTTGA
1 TTACATGTAAGACCATGTCTGGGACATTGGCACCGTATTTGA
* * * * *
89694956 TTTCATGTAAGACCCTGTCTAGAACAGTGGCACCGATATTTGA
1 TTACATGTAAGACCATGTCTGGGACATTGGCACCG-TATTTGA
*
89694999 TTACATGTAAGAGCATGTCTGGGACATTGGCA
1 TTACATGTAAGACCATGTCTGGGACATTGGCA
89695031 TTGTACGAGT
Statistics
Matches: 57, Mismatches: 17, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
42 24 0.42
43 33 0.58
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACATTGGCACCGTATTTGA
Found at i:89696844 original size:43 final size:42
Alignment explanation
Indices: 89696748--89696847 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 42
89696738 GACTTATAAT
* *
89696748 TTACATGTAAGACTATGCCTGGGACATTGGCATCGTATTTGA
1 TTACATGTAAGACCATGCCTGGGACAGTGGCATCGTATTTGA
* * * **
89696790 TTTCGTGTAAGACCCTGTTTGGGACAGTGGCATCGATATTTGA
1 TTACATGTAAGACCATGCCTGGGACAGTGGCATCG-TATTTGA
89696833 TTACATGTAAGACCA
1 TTACATGTAAGACCA
89696848 CATCTAGGAT
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 28 0.60
43 19 0.40
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (42 bp):
TTACATGTAAGACCATGCCTGGGACAGTGGCATCGTATTTGA
Found at i:89700205 original size:43 final size:42
Alignment explanation
Indices: 89700157--89700261 Score: 111
Period size: 43 Copynumber: 2.5 Consensus size: 42
89700147 ATATCCCAGA
89700157 TATGGTCTTACATGAAATCTCATATCGATGCCAATAGCCCAAC
1 TATGGTCTTACATGAAATCTCATATCGATG-CAATAGCCCAAC
* * * * * * *
89700200 TATGGTCTTGCACGAAGTCTCGTATCGATGCTATATCCCAAG
1 TATGGTCTTACATGAAATCTCATATCGATGCAATAGCCCAAC
* * *
89700242 TATGGACTCACATGTAATCT
1 TATGGTCTTACATGAAATCT
89700262 TAGTAACCCT
Statistics
Matches: 49, Mismatches: 13, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
42 23 0.47
43 26 0.53
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (42 bp):
TATGGTCTTACATGAAATCTCATATCGATGCAATAGCCCAAC
Found at i:89701260 original size:28 final size:27
Alignment explanation
Indices: 89701170--89701276 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
89701160 CTGCCAGGAT
* * *
89701170 AGATATTGTGACAGAGTCACCAGATAC
1 AGATATTGTGGCAGAGCCACCAGAAAC
89701197 AGATATTGTGGCAGAGCCACCAG-AAC
1 AGATATTGTGGCAGAGCCACCAGAAAC
*
89701223 AGATATTTGTGGCATAGCCACCAGAAAC
1 AGATA-TTGTGGCAGAGCCACCAGAAAC
* *
89701251 AGATATTTGTGGCATAGCCACAAGAA
1 AGATA-TTGTGGCAGAGCCACCAGAA
89701277 CGCTTCCTCC
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
26 7 0.10
27 38 0.52
28 28 0.38
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (27 bp):
AGATATTGTGGCAGAGCCACCAGAAAC
Found at i:89704231 original size:17 final size:17
Alignment explanation
Indices: 89704209--89704242 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
89704199 TGAGTTCTAG
89704209 TAGCTAT-AAATATCAAA
1 TAGCTATGAAAT-TCAAA
89704226 TAGCTATGAAATTCAAA
1 TAGCTATGAAATTCAAA
89704243 ACTTATGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (17 bp):
TAGCTATGAAATTCAAA
Found at i:89705112 original size:56 final size:56
Alignment explanation
Indices: 89705046--89705152 Score: 205
Period size: 56 Copynumber: 1.9 Consensus size: 56
89705036 GTTAAAACTT
*
89705046 TTATGAGTTTCCTGTTTAGCCTGGATAAGCTTCCTGATACATGGCTCACATAAATC
1 TTATGAGTTTCCTGTTTAGCCCGGATAAGCTTCCTGATACATGGCTCACATAAATC
89705102 TTATGAGTTTCCTGTTTAGCCCGGATAAGCTTCCTGATACATGGCTCACAT
1 TTATGAGTTTCCTGTTTAGCCCGGATAAGCTTCCTGATACATGGCTCACAT
89705153 GAGCATCTTG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (56 bp):
TTATGAGTTTCCTGTTTAGCCCGGATAAGCTTCCTGATACATGGCTCACATAAATC
Found at i:89716092 original size:46 final size:46
Alignment explanation
Indices: 89716000--89716092 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
89715990 ACAATAGGTG
* *
89716000 CCAAATCTAGGTCATGTGTCAAATAATTCTTTTTGTGCGGCTTTAA
1 CCAAATCTAGGTCATGTGTCAAATAATTCTTTTTGTGCGACATTAA
*
89716046 CCAAATGTAGGTCATGTGTCAAATAATTCTTTTTGTGCGACATTAA
1 CCAAATCTAGGTCATGTGTCAAATAATTCTTTTTGTGCGACATTAA
89716092 C
1 C
89716093 TGTCTGGAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (46 bp):
CCAAATCTAGGTCATGTGTCAAATAATTCTTTTTGTGCGACATTAA
Found at i:89717495 original size:72 final size:72
Alignment explanation
Indices: 89717378--89717521 Score: 216
Period size: 72 Copynumber: 2.0 Consensus size: 72
89717368 TGTGTAAAGT
** * * *
89717378 TAGCCAATCCATGCCCAAAATCATGTGAAATTCATCAAACGGTAATAGCATCAAATCAGCCAGAA
1 TAGCCAATCCATGCCCAAAATCATGACAAATTCATCAAACAGTAATAGCATCAAATCAACCAAAA
89717443 AATTGTA
66 AATTGTA
* * *
89717450 TAGCCAATCCATTCCTAAAATCATGACAAATTCATCAAACAGTAATAGCATCAAATTAACCAAAA
1 TAGCCAATCCATGCCCAAAATCATGACAAATTCATCAAACAGTAATAGCATCAAATCAACCAAAA
89717515 AATTGTA
66 AATTGTA
89717522 ACCCCGAGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.24
Consensus pattern (72 bp):
TAGCCAATCCATGCCCAAAATCATGACAAATTCATCAAACAGTAATAGCATCAAATCAACCAAAA
AATTGTA
Found at i:89721213 original size:21 final size:21
Alignment explanation
Indices: 89721187--89721227 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
89721177 TATTACATGA
89721187 TCAACAATATGTTAGAAATGG
1 TCAACAATATGTTAGAAATGG
89721208 TCAACAATATGTTAGAAATG
1 TCAACAATATGTTAGAAATG
89721228 ACATTTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (21 bp):
TCAACAATATGTTAGAAATGG
Found at i:89723732 original size:32 final size:32
Alignment explanation
Indices: 89723695--89723787 Score: 96
Period size: 32 Copynumber: 2.9 Consensus size: 32
89723685 CTAAGCCTTT
89723695 AGTAACGGTATTATAATTGGCACAAAGCCATC
1 AGTAACGGTATTATAATTGGCACAAAGCCATC
* * * ** *
89723727 GGTAACTGTATCATGTTTGGCACATAGCCATC
1 AGTAACGGTATTATAATTGGCACAAAGCCATC
* * * *
89723759 AGTGACGGTAATATAATCGGCACACAGCC
1 AGTAACGGTATTATAATTGGCACAAAGCC
89723788 TTGGGTATAT
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (32 bp):
AGTAACGGTATTATAATTGGCACAAAGCCATC
Found at i:89724261 original size:27 final size:27
Alignment explanation
Indices: 89724231--89724282 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
89724221 TTTTACCCTA
*
89724231 CAGGGGTATTTCGATAATTTTACAACC
1 CAGGGGTATTTCAATAATTTTACAACC
89724258 CAGGGGTATTTCAATAATTTTACAA
1 CAGGGGTATTTCAATAATTTTACAA
89724283 ATAGGGGGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (27 bp):
CAGGGGTATTTCAATAATTTTACAACC
Found at i:89733006 original size:40 final size:40
Alignment explanation
Indices: 89732932--89733153 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
89732922 GACCCAAGTA
** *
89732932 CCTTCGGGGTTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
89732971 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
89733011 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
89733051 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* * *
89733091 CCTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
89733131 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
89733154 CATTCGAATA
Statistics
Matches: 169, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 12 0.07
40 154 0.91
41 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:89740246 original size:40 final size:40
Alignment explanation
Indices: 89740182--89740391 Score: 338
Period size: 40 Copynumber: 5.3 Consensus size: 40
89740172 CCTTCAGGGT
* *
89740182 TTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCAA-TAGCACAAATGCCTTCGGGAC
*
89740221 TTAGCCCGGATATAGTCAATAGCACAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGAC
*
89740261 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGAC
89740301 TTAGCCCGGATATAGTCAATAGCACAAATGCCTT-GGGAC
1 TTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGAC
*
89740340 TTAGCCCGGATATAGTCACTAGCACAAA-GCCTTCGGGAC
1 TTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGAC
89740379 TTAGCCCGGATAT
1 TTAGCCCGGATAT
89740392 TATTCGAATA
Statistics
Matches: 161, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
38 5 0.03
39 54 0.34
40 99 0.61
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGAC
Found at i:89741513 original size:3 final size:3
Alignment explanation
Indices: 89741505--89741551 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
89741495 AATTGGGTAA
89741505 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
89741552 GAGGTTATGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:89743143 original size:31 final size:31
Alignment explanation
Indices: 89743108--89743184 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
89743098 CTAGAATCAA
* * *
89743108 AATCAGAATTAGAATTAGTATCAGGTAACAG
1 AATCAAAATCAGAATCAGTATCAGGTAACAG
89743139 AATCAAAATCAGAATCAGTATCAGGTAACAG
1 AATCAAAATCAGAATCAGTATCAGGTAACAG
89743170 AATCAAAATCAGAAT
1 AATCAAAATCAGAAT
89743185 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.22
Consensus pattern (31 bp):
AATCAAAATCAGAATCAGTATCAGGTAACAG
Found at i:89743154 original size:6 final size:6
Alignment explanation
Indices: 89743091--89743184 Score: 59
Period size: 6 Copynumber: 15.3 Consensus size: 6
89743081 AAGAAACATT
* * * *
89743091 ATCAGA A-CTAGA ATCAAA ATCAGA ATTAGA ATTAGT ATCAGGTA A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * *
89743140 ATCAAA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
89743185 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
5 5 0.07
6 54 0.79
7 7 0.10
8 2 0.03
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:89743359 original size:27 final size:26
Alignment explanation
Indices: 89743317--89743417 Score: 112
Period size: 27 Copynumber: 3.8 Consensus size: 26
89743307 CTCAGTTATT
** *
89743317 AGATATTGTGATAGAGTCACCAGATAC
1 AGATATTGTGGCAGAGCCACCAGA-AC
*
89743344 AAATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
89743370 AGATATTTGTGGCATAGCCACCAGAAAC
1 AGATA-TTGTGGCAGAGCCACCAG-AAC
* *
89743398 AGATAATGTGGCAAAGCCAC
1 AGATATTGTGGCAGAGCCAC
89743418 TTAATAGAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 6 0.09
27 50 0.78
28 8 0.12
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:89743604 original size:22 final size:22
Alignment explanation
Indices: 89743576--89743640 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
89743566 GCAAATACGT
*
89743576 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
89743598 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
89743620 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
89743641 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:89744124 original size:27 final size:27
Alignment explanation
Indices: 89744067--89744396 Score: 437
Period size: 27 Copynumber: 12.3 Consensus size: 27
89744057 AGGGCAAAAT
* * * *
89744067 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
89744093 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
89744120 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
89744147 GGTAATTCTACCCTACAAGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
89744174 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
89744201 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
89744228 GGTAATTCTACCCTGCAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
89744255 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
89744282 AGTAATTCTGCCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
89744309 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
89744336 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* **
89744363 GATAATTCTACCCTACAATGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
89744390 AGTAATT
1 GGTAATT
89744397 TTACAAATCG
Statistics
Matches: 264, Mismatches: 39, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
26 14 0.05
27 250 0.95
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:89744460 original size:25 final size:25
Alignment explanation
Indices: 89744382--89744465 Score: 73
Period size: 25 Copynumber: 3.3 Consensus size: 25
89744372 ACCCTACAAT
** *
89744382 GGTATTTCAGTAATTTTACAAATCGAG
1 GGTATTTGGGTAATTTTACAACT-G-G
* *
89744409 GATATTTGGGTAATTTATA-AACCGG
1 GGTATTTGGGTAATTT-TACAACTGG
89744434 GGTACTTT-GGTAATTTTACAACTGG
1 GGTA-TTTGGGTAATTTTACAACTGG
89744459 GGTATTT
1 GGTATTT
89744466 CAATAATTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
24 5 0.11
25 21 0.45
26 4 0.09
27 15 0.32
28 2 0.04
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (25 bp):
GGTATTTGGGTAATTTTACAACTGG
Found at i:89745723 original size:46 final size:47
Alignment explanation
Indices: 89745561--89745871 Score: 192
Period size: 47 Copynumber: 6.6 Consensus size: 47
89745551 TTATTTGTGT
* * * **
89745561 GCCAGTGTAAGACATGTCTGGGATATGCATCAGCCAC-ATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAGATGAGA
* * * * * *
89745607 GCCAGTGTAAGGCCATGTCTGGAACATGGCATCGGCATTG-AGACGAGT
1 GCCAGTGTAA-GACATGTCTGGGACAT-GCATCGGCCTCGAAGATGAGA
* * *
89745655 GCTAGTGTAAGGCATGTGTGGGACATGCATCGGCCTCGAAGATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAGATGAGA
* * *
89745702 GCCAGTGCAAGACA-GTCTGGGACATGCATCGG-CT--AAGA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAGATG-AGA
* * ** * *
89745745 GCTAGTATAAGACCATGTCTGGGACATGGCATC--AATACGTATATACGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCT-CG-A-AGATGAGA
** * *
89745795 GCTGGTGTAAGACCATGTCTAGGACATGGCATCGGCCTC-AATGATGATA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAA-GATGAGA
*
89745844 GCCAGTGTAAGACCATGTCTGAGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
89745872 GTATCGGCAA
Statistics
Matches: 203, Mismatches: 44, Indels: 34
0.72 0.16 0.12
Matches are distributed among these distances:
42 1 0.00
43 14 0.07
44 2 0.01
45 14 0.07
46 42 0.21
47 43 0.21
48 22 0.11
49 29 0.14
50 33 0.16
51 2 0.01
52 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAGATGAGA
Found at i:89755967 original size:49 final size:49
Alignment explanation
Indices: 89755889--89756121 Score: 197
Period size: 49 Copynumber: 4.8 Consensus size: 49
89755879 GGTTAAGATA
* * * *
89755889 CCGATGCCATTTCCCAAACATGGTCTTACACTGGCTTTCATATAGCGAGG
1 CCGATTCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATATAGCGAGG
* * * * *
89755939 CCGATTCCATGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCAATG
1 CCGATTCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCGAGG
** * * *
89755988 TTGATGCCATGTCCCAGACAGGTCTTACACTGGCT-TGTATATCGCGAGG
1 CCGATTCCATGTCCCAGACAGGTCTTACACTGGCTCT-CATATAGCGAGG
* * * * * * *
89756037 CCGA-TACATGTCCCATACATGTCTTACACTAGCTCTCATCT--CAATG
1 CCGATTCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCGAGG
* * *
89756083 CTGA-TGCATGTCCCAGACATGTCTTACACTGGCTCTCAT
1 CCGATTCCATGTCCCAGACAGGTCTTACACTGGCTCTCAT
89756122 GTTGTGGCTG
Statistics
Matches: 147, Mismatches: 34, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
46 38 0.26
48 29 0.20
49 64 0.44
50 16 0.11
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (49 bp):
CCGATTCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCGAGG
Found at i:89756103 original size:46 final size:46
Alignment explanation
Indices: 89755946--89756158 Score: 203
Period size: 46 Copynumber: 4.5 Consensus size: 46
89755936 AGGCCGATTC
* * *
89755946 CATGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCAATGTTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATC--TCAATGCTGATG
* * * * * * * *
89755994 CCATGTCCCAGACAGGTCTTACACTGGCTTGTATATCGCGAGGCCGATA
1 -CATGTCCCAGACATGTCTTACACTGGC-TCT-CATCTCAATGCTGATG
* *
89756043 CATGTCCCATACATGTCTTACACTAGCTCTCATCTCAATGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAATGCTGATG
* **
89756089 CATGTCCCAGACATGTCTTACACTGGCTCTCATGT-TGTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAT-GCTGATG
* *
89756135 CATGTCCCAGGCATATCTTACACT
1 CATGTCCCAGACATGTCTTACACT
89756159 AGCACACATA
Statistics
Matches: 135, Mismatches: 26, Indels: 9
0.79 0.15 0.05
Matches are distributed among these distances:
45 1 0.01
46 71 0.53
47 2 0.01
48 24 0.18
49 32 0.24
50 2 0.01
51 3 0.02
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAATGCTGATG
Found at i:89763118 original size:9 final size:9
Alignment explanation
Indices: 89763104--89763133 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
89763094 CCTATAGCAA
89763104 AAAAAAAAG
1 AAAAAAAAG
89763113 AAAAAAAAG
1 AAAAAAAAG
89763122 -AAAAAAAG
1 AAAAAAAAG
89763130 AAAA
1 AAAA
89763134 CCATAACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:89765446 original size:3 final size:3
Alignment explanation
Indices: 89765438--89765472 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
89765428 TTTCTTAAAG
89765438 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
89765473 CAGGAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:89767528 original size:4 final size:4
Alignment explanation
Indices: 89767519--89768020 Score: 532
Period size: 4 Copynumber: 129.5 Consensus size: 4
89767509 TTTGTCTCTA
89767519 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
** **
89767567 TATG TATG TATG TATG TATG TGCG TATG TATG TATG TAAA TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
89767615 TATG TATG TATG TACG TATG --TG TGTG TATG TATG TATG TCTG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
89767661 --TG TATG TATA TATG TGTG TATG T-T- TGTG TATG TATG TGTG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
89767705 T-T- TGTG TATG TATG TATG TGTG TGTG TGTG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
89767751 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG --TG TGTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
89767797 TGTG TGTG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
89767845 TATG TATG TATG TATG TATG TATG TATG TA-- TATG TGTG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * * * * *
89767891 TATA TATG TA-- TATG TATA TGTA TATG TATA TGTA TATG TATA TGTA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * *
89767937 TATG TATA TGTA TATG TATA TGTA TATG TATG TATG TATG TATG TAAG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
** * *
89767985 TACA TATG TATG TACG TATG TA-- TATA TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
89768021 AGTACATGCG
Statistics
Matches: 426, Mismatches: 56, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
2 14 0.03
3 4 0.01
4 408 0.96
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:89768021 original size:38 final size:38
Alignment explanation
Indices: 89767973--89768045 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
89767963 TGTATGTATG
* * *
89767973 TATGTATGTAAGTACATATGTATGTACGTATGTATATA
1 TATGTATGTAAGTACATACGTACGTACGTAGGTATATA
*
89768011 TATGTATGTAAGTACATGCGTACGTACGTAGGTAT
1 TATGTATGTAAGTACATACGTACGTACGTAGGTAT
89768046 GTATGTGCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (38 bp):
TATGTATGTAAGTACATACGTACGTACGTAGGTATATA
Found at i:89769064 original size:2 final size:2
Alignment explanation
Indices: 89769052--89769082 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
89769042 GGCCATTTGC
*
89769052 AT AT TT 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 A
89769083 CATCCAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:89771786 original size:23 final size:21
Alignment explanation
Indices: 89771760--89771806 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
89771750 TGAAAATATG
89771760 AAATTGGGACATAGAAATTATTA
1 AAATTGGG--ATAGAAATTATTA
*
89771783 AAA-TGTGATAGAAATTATTA
1 AAATTGGGATAGAAATTATTA
89771803 AAAT
1 AAAT
89771807 ATGATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 16 0.73
22 3 0.14
23 3 0.14
ACGTcount: A:0.51, C:0.02, G:0.15, T:0.32
Consensus pattern (21 bp):
AAATTGGGATAGAAATTATTA
Found at i:89771795 original size:20 final size:20
Alignment explanation
Indices: 89771770--89771811 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
89771760 AAATTGGGAC
*
89771770 ATAGAAATTATTAAAATGTG
1 ATAGAAATTATTAAAATATG
89771790 ATAGAAATTATTAAAATATG
1 ATAGAAATTATTAAAATATG
89771810 AT
1 AT
89771812 TTTATGCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (20 bp):
ATAGAAATTATTAAAATATG
Found at i:89775465 original size:43 final size:41
Alignment explanation
Indices: 89775406--89775551 Score: 114
Period size: 44 Copynumber: 3.4 Consensus size: 41
89775396 TCCTAGACGT
* * *
89775406 GGTCTTACATGTAATCAAACATCAATGCCACTGTCCTAGACAG
1 GGTCTTACACGAAATCAAA-ATCAATGCCA-TGTCCCAGACAG
* * *
89775449 GGTCTTACACGAAATC-AGATACTATGCCGATGTCCCAGACAT
1 GGTCTTACACGAAATCAAAAT-CAATGCC-ATGTCCCAGACAG
* * * ** *
89775491 GGTCTTACACATAAAACAGAAGTTGATGCCAATGTCCCAGACAT
1 GGTCTTACAC-GAAATCA-AAATCAATGCC-ATGTCCCAGACAG
89775535 GGTCTTACACGAAATCA
1 GGTCTTACACGAAATCA
89775552 CATAACGAAA
Statistics
Matches: 83, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
41 2 0.02
42 27 0.33
43 24 0.29
44 28 0.34
45 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (41 bp):
GGTCTTACACGAAATCAAAATCAATGCCATGTCCCAGACAG
Found at i:89775489 original size:42 final size:43
Alignment explanation
Indices: 89775430--89775551 Score: 149
Period size: 44 Copynumber: 2.8 Consensus size: 43
89775420 TCAAACATCA
* * *
89775430 ATGCCACTGTCCTAGACAGGGTCTTACACGAAATCAGATA-CT-
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAGA-AGCTG
* * * *
89775472 ATGCCGATGTCCCAGACATGGTCTTACACATAAAACAGAAGTTG
1 ATGCCAATGTCCCAGACATGGTCTTACAC-GAAATCAGAAGCTG
89775516 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
89775552 CATAACGAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 26 0.39
43 13 0.19
44 28 0.42
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAGAAGCTG
Found at i:89786945 original size:40 final size:39
Alignment explanation
Indices: 89786777--89786947 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
89786767 AGAAATTGAA
* *
89786777 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
89786817 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
89786857 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
89786897 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
89786937 TGATATCCGGG
1 TGATATCCGGG
89786948 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:89791679 original size:40 final size:40
Alignment explanation
Indices: 89791620--89791750 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
89791610 CGGGACTTTA
* * *
89791620 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
89791660 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
89791700 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
89791740 CCCGGATATAA
1 CCCGGATATAA
89791751 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:89791765 original size:40 final size:40
Alignment explanation
Indices: 89791637--89791787 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
89791627 ATCACGATTT
* * * **
89791637 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* *
89791677 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
89791717 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* *
89791757 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
89791788 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 15 0.15
40 80 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
Found at i:89813995 original size:39 final size:40
Alignment explanation
Indices: 89813937--89814037 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
89813927 AAATTGAATG
* *
89813937 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
89813976 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
89814016 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
89814038 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:89814030 original size:40 final size:40
Alignment explanation
Indices: 89813937--89814119 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
89813927 AAATTGAATG
* * * * *
89813937 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
89813976 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
89814016 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
89814056 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
89814096 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
89814120 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:89822024 original size:39 final size:40
Alignment explanation
Indices: 89821966--89822066 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
89821956 AAATTGAATG
* *
89821966 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
89822005 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
89822045 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
89822067 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:89822059 original size:40 final size:40
Alignment explanation
Indices: 89821966--89822148 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
89821956 AAATTGAATG
* * * * *
89821966 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
89822005 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
89822045 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
89822085 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
89822125 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
89822149 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:89827047 original size:27 final size:27
Alignment explanation
Indices: 89827016--89827070 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
89827006 TGATTTCTTC
89827016 AGTAGAAACATATTCATGAGCACACTT
1 AGTAGAAACATATTCATGAGCACACTT
* *
89827043 AGTAGAAACATATTCCTGAGCATACTT
1 AGTAGAAACATATTCATGAGCACACTT
89827070 A
1 A
89827071 CTTAGTCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (27 bp):
AGTAGAAACATATTCATGAGCACACTT
Found at i:89830188 original size:21 final size:20
Alignment explanation
Indices: 89830160--89830198 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
89830150 CAAAACTTGT
89830160 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
89830180 ATAACCTATCATCAAACAT
1 ATAA-CTATCATCAAACAT
89830199 CAAAACATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:89830816 original size:4 final size:4
Alignment explanation
Indices: 89830807--89830858 Score: 104
Period size: 4 Copynumber: 13.0 Consensus size: 4
89830797 GCCTGTTACA
89830807 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
89830855 GTAT
1 GTAT
89830859 ATGTACGTAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:89836770 original size:35 final size:35
Alignment explanation
Indices: 89836703--89836870 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
89836693 TCCTCATTGA
*** *
89836703 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
89836739 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
89836779 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
89836814 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
89836849 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
89836871 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:89836829 original size:75 final size:73
Alignment explanation
Indices: 89836698--89836870 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
89836688 GGTTTTCCTC
*** * * **
89836698 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
89836763 TCAGTATGG
65 TCAGTATGG
*
89836772 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
89836836 ACTCAGTATGG
63 ACTCAGTATGG
89836847 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
89836871 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:89838294 original size:47 final size:48
Alignment explanation
Indices: 89838240--89838543 Score: 225
Period size: 47 Copynumber: 6.4 Consensus size: 48
89838230 GGCCGTTACA
89838240 TCTGGGACATGG-ATCGGCCACATTATGAAAGCCAGTGTAAGACCATG
1 TCTGGGACATGGCATCGGCCACATTATGAAAGCCAGTGTAAGACCATG
** * *
89838287 TCTGGGACATGGCATCGG-CATCAAGATGTAAGCCAATGTAAGA-CATG
1 TCTGGGACATGGCATCGGCCA-CATTATGAAAGCCAGTGTAAGACCATG
* * * ** * *
89838334 GCTGGGACAT-GCATCGG-C-TATGA-GATGTGTCAGTGTAAGACTATG
1 TCTGGGACATGGCATCGGCCACATTATGA-AAGCCAGTGTAAGACCATG
* * * * * * *
89838379 TCTGGGCCATGGCATCAGCAAGGATATGTGAGAGCTAGTGTAAGACCATG
1 TCTGGGACATGGCATCGGCCA-CAT-TATGAAAGCCAGTGTAAGACCATG
* * * * * *
89838429 TCTAGGACATGGCATCGTCCTCGATTTTGATAGTCAGTGTAAGACCATG
1 TCTGGGACATGGCATCGGCCAC-ATTATGAAAGCCAGTGTAAGACCATG
*
89838478 TCTAGGACATGGCATC-G--AC-TTGATGGATAAGCCAGTGTAAGACCATG
1 TCTGGGACATGGCATCGGCCACATT-AT-GA-AAGCCAGTGTAAGACCATG
*
89838525 TTTGGGACATGGCATCGGC
1 TCTGGGACATGGCATCGGC
89838544 ATTATACCCT
Statistics
Matches: 199, Mismatches: 42, Indels: 30
0.73 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 15 0.08
45 12 0.06
46 17 0.09
47 58 0.29
48 24 0.12
49 38 0.19
50 32 0.16
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
TCTGGGACATGGCATCGGCCACATTATGAAAGCCAGTGTAAGACCATG
Found at i:89841422 original size:20 final size:19
Alignment explanation
Indices: 89841393--89841446 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
89841383 ATCCCTAGTG
* **
89841393 GTATCGATATTTTTTCACTA
1 GTATCAATATTTTTT-AAAA
*
89841413 GTATCAATATATTTATAAAA
1 GTATCAATAT-TTTTTAAAA
89841433 GTATCAATATTTTT
1 GTATCAATATTTTT
89841447 AAGTTGGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.11
20 21 0.75
21 4 0.14
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.48
Consensus pattern (19 bp):
GTATCAATATTTTTTAAAA
Found at i:89841473 original size:25 final size:25
Alignment explanation
Indices: 89841439--89841489 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
89841429 AAAAGTATCA
89841439 ATATTTTTAAGTTGGTATCGATACC
1 ATATTTTTAAGTTGGTATCGATACC
89841464 ATATTTTTAAGTTGGTATCGATACC
1 ATATTTTTAAGTTGGTATCGATACC
89841489 A
1 A
89841490 AATTATCATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (25 bp):
ATATTTTTAAGTTGGTATCGATACC
Found at i:89843919 original size:36 final size:37
Alignment explanation
Indices: 89843878--89843954 Score: 120
Period size: 36 Copynumber: 2.1 Consensus size: 37
89843868 CGGGGTTTTA
* *
89843878 ACCCGGATAAAATCTCCACACGTGGTCATC-GGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
*
89843914 ACCCGGACAGAATCTCCACACGTAGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
89843951 ACCC
1 ACCC
89843955 AGAATATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 27 0.73
37 10 0.27
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (37 bp):
ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
Found at i:89844132 original size:48 final size:48
Alignment explanation
Indices: 89844075--89844196 Score: 165
Period size: 48 Copynumber: 2.5 Consensus size: 48
89844065 CACATTTGAT
* * * *
89844075 CATTCGGCTTTACCAAATATACATCTCTCATACATATTTCATATTAGC
1 CATTTGGCTTTACCACATATACATATCTCATACATATCTCATATTAGC
*
89844123 CATTTGGCTTTACCACATATACATATCTCATACATGTCTCATATTAGC
1 CATTTGGCTTTACCACATATACATATCTCATACATATCTCATATTAGC
* *
89844171 CA-TTCGCTTTACACACATATATATAT
1 CATTTGGCTTTAC-CACATATACATAT
89844197 TTACCTTGTA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
47 9 0.14
48 57 0.86
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (48 bp):
CATTTGGCTTTACCACATATACATATCTCATACATATCTCATATTAGC
Found at i:89850020 original size:2 final size:2
Alignment explanation
Indices: 89850013--89850040 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
89850003 AAGTGTTTAG
89850013 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
89850041 TAATAATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89851460 original size:49 final size:49
Alignment explanation
Indices: 89851400--89851804 Score: 751
Period size: 49 Copynumber: 8.3 Consensus size: 49
89851390 GTATGAGATA
89851400 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
89851449 TATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
89851498 TATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
89851547 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
89851596 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
89851645 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
89851694 TATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
89851743 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
89851790 TATAAATGTGATAAG
1 TATATATGTGATAAG
89851805 TCCCGAAGGG
Statistics
Matches: 349, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
47 16 0.05
49 333 0.95
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:89855787 original size:49 final size:49
Alignment explanation
Indices: 89855675--89855850 Score: 148
Period size: 49 Copynumber: 3.6 Consensus size: 49
89855665 TAATACTGAT
* * ** * * *
89855675 GCCATGTCCCAAACATGGTCTTACACTG--GCTCACCCAT-CAAGTCGAT
1 GCCATGT-CCAGACATGGTCTTACACTGACTCTCACATATCCAGGCCGAC
* *
89855722 GCCATGTCCAAGACATGGTCTTACACTGACTTTCGA-A-ATCGAGGCCGAC
1 GCCATGTCC-AGACATGGTCTTACACTGACTCTC-ACATATCCAGGCCGAC
* * *
89855771 GCCATGTCCTAGACATGGTCTTACACT-AGCTCTCACATATCCATGCTGAT
1 GCCATGTCC-AGACATGGTCTTACACTGA-CTCTCACATATCCAGGCCGAC
89855821 GCCATGTCACAGACATGGTCTTACACTGAC
1 GCCATGTC-CAGACATGGTCTTACACTGAC
89855851 ACATCTCGTA
Statistics
Matches: 105, Mismatches: 14, Indels: 17
0.77 0.10 0.12
Matches are distributed among these distances:
46 2 0.02
47 24 0.23
48 4 0.04
49 38 0.36
50 35 0.33
51 2 0.02
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (49 bp):
GCCATGTCCAGACATGGTCTTACACTGACTCTCACATATCCAGGCCGAC
Found at i:89855904 original size:46 final size:48
Alignment explanation
Indices: 89855672--89856031 Score: 255
Period size: 46 Copynumber: 7.6 Consensus size: 48
89855662 GTATAATACT
* * * ** * *
89855672 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACCCATC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTTACATATCGAGGCC
* * *
89855719 GATGCCATGTCCAAGACATGGTCTTACACTGACTTTCGAAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTTAC-ATATCGAGGCC
* * * * *
89855768 GACGCCATGTCCTAGACATGGTCTTACACT-AGCTCTCACATATCCATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CT-T-ACATATCGAGGCC
* *
89855818 GATGCCATGTCACAGACATGGTCTTACACTGAC--ACATCTCGTA-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTTACATATCG-AGGCC
* * *
89855864 GATG-CATGTCCCAGACAT-GTCTTACACTGTCTTACATCTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTTACATATCGAGGCC
* * * * * * *
89855910 GATG-TATGTCCCAAACAT-GTCTTACACT-AGCTCT-CGTCTCAATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CT-TACATATCGAGGCC
* * * *
89855956 GATGCCATGTCCTAGACATGGTCTTATACTGGCTCT-CATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACT-TACAT-ATCGAGGCC
89856004 GATG-CATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
89856032 AGCACACAAA
Statistics
Matches: 251, Mismatches: 46, Indels: 33
0.76 0.14 0.10
Matches are distributed among these distances:
44 12 0.05
45 14 0.06
46 70 0.28
47 58 0.23
48 25 0.10
49 34 0.14
50 36 0.14
51 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTTACATATCGAGGCC
Found at i:89855980 original size:94 final size:94
Alignment explanation
Indices: 89855765--89856039 Score: 276
Period size: 94 Copynumber: 2.9 Consensus size: 94
89855755 CGAAATCGAG
* * * * *
89855765 GCCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCATGCTGATGCCATGTCA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACT-G-TCTTACATATCGAGGCTGATG-CATGTCC
*
89855830 CAGACATGGTCTTACACT-G-ACACATCTCGTA
63 CAGACAT-GTCTTACACTAGCACACATCTCATA
* * * *
89855861 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGTCTTACATCTCGAGGCTGATGTATGTCCCAA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGTCTTACATATCGAGGCTGATGCATGTCCCAG
* * *
89855924 ACATGTCTTACACTAGCTCTCGTCTCA-A
66 ACATGTCTTACACTAGCACACATCTCATA
* * * * *
89855952 TGTCGATGCCATGTCCTAGACATGGTCTTATACTGGCTCT-CATAAT-GTGGCCGATGCATGTCC
1 -GCCGATGCCATGTCCTAGACATGGTCTTACACTGTCT-TACAT-ATCGAGGCTGATGCATGTCC
89856015 CAGACATGTCTTACACTAGCACACA
63 CAGACATGTCTTACACTAGCACACA
89856040 AACATCCCGA
Statistics
Matches: 147, Mismatches: 25, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
90 10 0.07
91 13 0.09
92 29 0.20
93 14 0.10
94 60 0.41
95 15 0.10
96 6 0.04
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (94 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTGTCTTACATATCGAGGCTGATGCATGTCCCAG
ACATGTCTTACACTAGCACACATCTCATA
Found at i:89856007 original size:140 final size:141
Alignment explanation
Indices: 89855670--89856031 Score: 364
Period size: 140 Copynumber: 2.5 Consensus size: 141
89855660 GGGTATAATA
* * *
89855670 CTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACCCATCAAGT--CGATGCCATGTCCAA
1 CTGATGCCATGT-CCAGACATGGTCTTACACTGGCT--CTCAT-AAGTGCCGATG-CATGTCCCA
* * *
89855733 GACATGGTCTTACACTGACTTTCGAAATCGAGGCCGACGCCATGTCCTAGACATGGTCTTACACT
61 GACAT-GTCTTACACTGACTTACGAAATCGAGGCCGACGCCATGTCCCAAACATGGTCTTACACT
*
89855798 AGCTCTCACATATCCATG
125 AGCTCT-ACATATCAATG
* * *
89855816 CTGATGCCATGTCACAGACATGGTCTTACACTGACACATC-T-CGTAGCCGATGCATGTCCCAGA
1 CTGATGCCATGTC-CAGACATGGTCTTACACTGGCTC-TCATAAGT-GCCGATGCATGTCCCAGA
* ** * * *
89855879 CATGTCTTACACTGTCTTAC-ATCTCGAGGCTGATG-TATGTCCCAAACAT-GTCTTACACTAGC
63 CATGTCTTACACTGACTTACGAAATCGAGGCCGACGCCATGTCCCAAACATGGTCTTACACTAGC
* *
89855941 TCT-CGTCTCAATG
128 TCTACATATCAATG
*
89855954 -TCGATGCCATGTCCTAGACATGGTCTTATACTGGCTCTCATAATGTGGCCGATGCATGTCCCAG
1 CT-GATGCCATGTCC-AGACATGGTCTTACACTGGCTCTCATAA-GT-GCCGATGCATGTCCCAG
89856018 ACATGTCTTACACT
62 ACATGTCTTACACT
89856032 AGCACACAAA
Statistics
Matches: 183, Mismatches: 23, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
137 4 0.02
138 38 0.21
140 49 0.27
141 11 0.06
142 13 0.07
143 15 0.08
144 15 0.08
145 7 0.04
146 31 0.17
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (141 bp):
CTGATGCCATGTCCAGACATGGTCTTACACTGGCTCTCATAAGTGCCGATGCATGTCCCAGACAT
GTCTTACACTGACTTACGAAATCGAGGCCGACGCCATGTCCCAAACATGGTCTTACACTAGCTCT
ACATATCAATG
Found at i:89858836 original size:52 final size:52
Alignment explanation
Indices: 89858764--89858992 Score: 240
Period size: 50 Copynumber: 4.5 Consensus size: 52
89858754 TGAGAACATA
* *
89858764 TGTGTAGTACTATGTACAGGCTACTATGTGTTTAAGACAGTT-TTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTTT-AGACAGTTGTTAGGTCACG
* * * *
89858816 TGTGTAGTACTAAGTGCAGGCTACTA--CGTATA-CCAGATTGTTAGGTCGCG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTTTAGACAG-TTGTTAGGTCACG
* *
89858866 TGTGTAGTACTATGTGAAGGCTACTATGTGTTTAAGACAGTT-TTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTTT-AGACAGTTGTTAGGTCACG
* * * * *
89858918 TGTATAGTACTAAGTGCAGGCTACTACGTGTACTAG--A-TTGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGT-TTAGACAGTTGTTAGGTCACG
*
89858968 TGTGTAGTACTAAGTGTAGGCTACT
1 TGTGTAGTACTAAGTGCAGGCTACT
89858993 TTGAGTACTG
Statistics
Matches: 148, Mismatches: 21, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
48 3 0.02
49 5 0.03
50 68 0.46
52 65 0.44
53 4 0.03
54 3 0.02
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (52 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTTTAGACAGTTGTTAGGTCACG
Found at i:89858940 original size:102 final size:102
Alignment explanation
Indices: 89858763--89858992 Score: 390
Period size: 102 Copynumber: 2.3 Consensus size: 102
89858753 TTGAGAACAT
*
89858763 ATGTGTAGTACTATGT-ACAGGCTACTATGTGTTTAAGACAGTTTTAGGTCACGTGTGTAGTACT
1 ATGTGTAGTACTATGTGA-AGGCTACTATGTGTTTAAGACAGTTTTAGGTCACGTGTATAGTACT
89858827 AAGTGCAGGCTACTACGTATACCAGATTGTTAGGTCGC
65 AAGTGCAGGCTACTACGTATACCAGATTGTTAGGTCGC
*
89858865 GTGTGTAGTACTATGTGAAGGCTACTATGTGTTTAAGACAGTTTTAGGTCACGTGTATAGTACTA
1 ATGTGTAGTACTATGTGAAGGCTACTATGTGTTTAAGACAGTTTTAGGTCACGTGTATAGTACTA
* *
89858930 AGTGCAGGCTACTACGTGTACTAGATTGTTAGGTCGC
66 AGTGCAGGCTACTACGTATACCAGATTGTTAGGTCGC
* *
89858967 ATGTGTAGTACTAAGTGTAGGCTACT
1 ATGTGTAGTACTATGTGAAGGCTACT
89858993 TTGAGTACTG
Statistics
Matches: 120, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
102 119 0.99
103 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (102 bp):
ATGTGTAGTACTATGTGAAGGCTACTATGTGTTTAAGACAGTTTTAGGTCACGTGTATAGTACTA
AGTGCAGGCTACTACGTATACCAGATTGTTAGGTCGC
Found at i:89859819 original size:180 final size:180
Alignment explanation
Indices: 89859562--89859888 Score: 519
Period size: 180 Copynumber: 1.8 Consensus size: 180
89859552 ATCCGAGATC
* *
89859562 TGTACCATGAGATAAATATTTTTTAGTGAAGAAAGATTGGAACTATCCAACAGTGAAATAGGGAT
1 TGTACCATGAGATAAATATTTTTTAGTGAAGAAAGATTGGAACTATCCAACAATGAAATAGGGAC
* * * *
89859627 ATATTTAATGAATAAAATGTACTAATTGGCTAAACCAAAAATTTTGAAAATTTTATGGTAAGAAT
66 AAATTTAATGAATAAAATGTACTAATTGACTAAACCAAAAATTCTGAAAATTTTATGATAAGAAT
89859692 ACACGTGAGTCTAGTTTCTATAAAAGTTAGCGGTTCTTAATTTGGAGTCT
131 ACACGTGAGTCTAGTTTCTATAAAAGTTAGCGGTTCTTAATTTGGAGTCT
* * *** *
89859742 TGTACCATGAGATAAATATTTTTTAGTGAAGAGAGTTTGGAACTATTGGACAATGAAATAGGGGC
1 TGTACCATGAGATAAATATTTTTTAGTGAAGAAAGATTGGAACTATCCAACAATGAAATAGGGAC
*
89859807 AAATTTAATGAATAAACTGTACTAATTGACTAAACCAAAAATTCTGAAAATTTTATGATAAGAAT
66 AAATTTAATGAATAAAATGTACTAATTGACTAAACCAAAAATTCTGAAAATTTTATGATAAGAAT
* *
89859872 ATATGTGAGTCTAGTTT
131 ACACGTGAGTCTAGTTT
89859889 TTTGGAAAAT
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
180 132 1.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (180 bp):
TGTACCATGAGATAAATATTTTTTAGTGAAGAAAGATTGGAACTATCCAACAATGAAATAGGGAC
AAATTTAATGAATAAAATGTACTAATTGACTAAACCAAAAATTCTGAAAATTTTATGATAAGAAT
ACACGTGAGTCTAGTTTCTATAAAAGTTAGCGGTTCTTAATTTGGAGTCT
Found at i:89861547 original size:47 final size:46
Alignment explanation
Indices: 89861486--89861654 Score: 193
Period size: 47 Copynumber: 3.6 Consensus size: 46
89861476 ATCCATAAGT
**
89861486 GAACTCGGACTCAACTCAACTCGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGAT-CCTAGTTACATCTCAC
* * *
89861533 GAACTCGGACTCAACTCAACGAGTTCGGA--C--GTTCACATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATCCTAGTT-ACAT-C-TCA-C
*
89861579 GAACTCGGACTCAACTCAACGAGCTCGGATCCCTAGTTACGTCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGAT-CCTAGTTACATCTCAC
*
89861626 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
89861655 CGTTCGCATC
Statistics
Matches: 103, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 2 0.02
45 2 0.02
46 28 0.27
47 54 0.52
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATCCTAGTTACATCTCAC
Found at i:89861598 original size:93 final size:93
Alignment explanation
Indices: 89861439--89861701 Score: 418
Period size: 93 Copynumber: 2.8 Consensus size: 93
89861429 TGCCCATAAG
* * * * *
89861439 CGAACTCGGACTCAACTAAATGAGCTCGGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
** *
89861504 ACTCGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATCCCTAGTTACATCTCA
*
89861532 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
89861597 ACGAGCTCGGATCCCTAGTTACGTCTCA
66 ACGAGCTCGGATCCCTAGTTACATCTCA
*
89861625 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
89861690 ACGAGTTCGGAT
66 ACGAGCTCGGAT
89861702 GCCCAAATAT
Statistics
Matches: 157, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 157 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATCCCTAGTTACATCTCA
Found at i:89861700 original size:46 final size:46
Alignment explanation
Indices: 89861432--89861700 Score: 223
Period size: 46 Copynumber: 5.8 Consensus size: 46
89861422 TGTAACCTGC
* * * *
89861432 CCATAAGCGAACTCGGACTCAACTAAATGAGCTCGGGCGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* ** *
89861478 CCATAAGTGAACTCGGACTCAACTCAACTCGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCGCAT
* * *
89861528 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
89861571 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATCCCTAGTTACG--T
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTT-CGCAT
* *
89861621 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * *
89861664 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
89861701 TGCCCAAATA
Statistics
Matches: 180, Mismatches: 23, Indels: 40
0.74 0.09 0.16
Matches are distributed among these distances:
41 2 0.01
42 6 0.03
43 5 0.03
44 4 0.02
45 4 0.02
46 87 0.48
47 54 0.30
48 4 0.02
49 4 0.02
50 4 0.02
51 5 0.03
52 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:89864141 original size:30 final size:30
Alignment explanation
Indices: 89864106--89864163 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
89864096 AGAAAACTGC
* *
89864106 ATAAAGAAAT-TCAAGATAGAGAAACCCAGA
1 ATAAAGAAATCT-AAAATAAAGAAACCCAGA
89864136 ATAAAGAAATCTAAAATAAAGAAACCCA
1 ATAAAGAAATCTAAAATAAAGAAACCCA
89864164 AGATACGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.60, C:0.14, G:0.12, T:0.14
Consensus pattern (30 bp):
ATAAAGAAATCTAAAATAAAGAAACCCAGA
Found at i:89864143 original size:15 final size:15
Alignment explanation
Indices: 89864106--89864164 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
89864096 AGAAAACTGC
** *
89864106 ATAAAGAAATTCAAG
1 ATAAAGAAACCCAAA
* *
89864121 ATAGAGAAACCCAGA
1 ATAAAGAAACCCAAA
* *
89864136 ATAAAGAAATCTAAA
1 ATAAAGAAACCCAAA
89864151 ATAAAGAAACCCAA
1 ATAAAGAAACCCAA
89864165 GATACGATAC
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.61, C:0.14, G:0.12, T:0.14
Consensus pattern (15 bp):
ATAAAGAAACCCAAA
Found at i:89867165 original size:47 final size:46
Alignment explanation
Indices: 89867104--89867272 Score: 193
Period size: 47 Copynumber: 3.6 Consensus size: 46
89867094 ATCCATAAGT
*
89867104 GAACTCGGGCTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGAT-CCTAGTTACATCTCAC
* * *
89867151 GAACTCGGACTCAACTCAACGAGTTCGGA--C--GTTCACATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATCCTAGTT-ACAT-C-TCA-C
*
89867197 GAACTCGGACTCAACTCAACGAGCTCGGATCCCTAGTTACGTCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGAT-CCTAGTTACATCTCAC
* *
89867244 AAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
89867273 CATTCGCATC
Statistics
Matches: 103, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 2 0.02
45 2 0.02
46 28 0.27
47 54 0.52
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATCCTAGTTACATCTCAC
Found at i:89867215 original size:46 final size:46
Alignment explanation
Indices: 89867050--89867318 Score: 232
Period size: 46 Copynumber: 5.8 Consensus size: 46
89867040 TGTAACCTGC
* * * * * *
89867050 CCATAAGCGAACTCGGACTCAACTAAATGAGCTCGGGCGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
*
89867096 CCATAAGTGAACTCGGGCTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCACAT
* * *
89867146 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
*
89867189 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATCCCTAGTT-ACGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCACAT
* * * *
89867239 CTCA-CA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
*
89867282 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
89867319 TGCCCAAATA
Statistics
Matches: 182, Mismatches: 21, Indels: 40
0.75 0.09 0.16
Matches are distributed among these distances:
42 7 0.04
43 8 0.04
44 3 0.02
45 2 0.01
46 88 0.48
47 54 0.30
48 2 0.01
49 3 0.02
50 8 0.04
51 7 0.04
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACAT
Found at i:89867216 original size:93 final size:93
Alignment explanation
Indices: 89867057--89867322 Score: 424
Period size: 93 Copynumber: 2.9 Consensus size: 93
89867047 TGCCCATAAG
* * * * * *
89867057 CGAACTCGGACTCAACTAAATGAGCTCGGGCGCTCGCATCCATAAGTGAACTCGGGCTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
89867122 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
89867150 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
89867215 ACGAGCTCGGATCCCTAGTTACGTCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
89867243 CAAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
89867308 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
89867323 CAAATATCTG
Statistics
Matches: 159, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 159 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:89869225 original size:49 final size:47
Alignment explanation
Indices: 89869114--89869423 Score: 176
Period size: 46 Copynumber: 6.6 Consensus size: 47
89869104 GATGCCGATC
* * *
89869114 CCATGTCCCAGACATGGTCTTACACTAGCTCATGTCTCAAGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGATCATGTCTCAAGGCGACG
* *
89869161 CCATGTCCCAAACATGGTCTTACA-TTGAAT-ATTGTCATCAAGGCTGACG
1 CCATGTCCCAGACATGGTCTTACACTAG-ATCA-TGTC-TCAAGGC-GACG
* * *
89869210 CCATGTCCCAGACATGGTCTTACACTAGCTCTTG-CAT-ATTAGTGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGATCATGTC-TCA--AG-G-CGACG
* ** * *
89869260 CCATGTCTCAGACATGGTCTTACACT-GA-CACATCTCATAGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGATCATGTCTCA-AGGCGACG
* * * * ** *
89869306 -CATGTCCCTGACAT-GTCTTATACTAGCTTACCT-TACAAGGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGATCATGTCT-CAAGG-CGACG
* ** * * *
89869352 -CATGTCCCAAACA-CATCTTACACTAGCTC-TCGTCTCAATGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGATCAT-GTCTCAA-GGCGACG
89869398 CCATGTCCCAGACATGGTCTTACACT
1 CCATGTCCCAGACATGGTCTTACACT
89869424 GGCTCTCATA
Statistics
Matches: 207, Mismatches: 34, Indels: 43
0.73 0.12 0.15
Matches are distributed among these distances:
44 9 0.04
45 16 0.08
46 50 0.24
47 43 0.21
48 23 0.11
49 34 0.16
50 31 0.15
51 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTAGATCATGTCTCAAGGCGACG
Found at i:89874106 original size:20 final size:20
Alignment explanation
Indices: 89874081--89874118 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
89874071 GTTTATTCGC
*
89874081 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
89874101 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
89874119 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:89875814 original size:28 final size:27
Alignment explanation
Indices: 89875755--89875847 Score: 134
Period size: 27 Copynumber: 3.4 Consensus size: 27
89875745 TAGAACACGA
*
89875755 AATTACCCTTAAAGAGCAAAATTACCG
1 AATTACCCCTAAAGAGCAAAATTACCG
89875782 AATTACCCCTAAAGAGCAAAATTACCG
1 AATTACCCCTAAAGAGCAAAATTACCG
* *
89875809 AAATTACCCCTAAGGAGCACAATTACC-
1 -AATTACCCCTAAAGAGCAAAATTACCG
89875836 AATATACCCCTA
1 AAT-TACCCCTA
89875848 GGGTTTAAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
26 3 0.05
27 34 0.56
28 24 0.39
ACGTcount: A:0.43, C:0.27, G:0.10, T:0.20
Consensus pattern (27 bp):
AATTACCCCTAAAGAGCAAAATTACCG
Found at i:89882070 original size:20 final size:20
Alignment explanation
Indices: 89882045--89882082 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
89882035 GTTTATTCGC
*
89882045 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
89882065 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
89882083 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:89883787 original size:28 final size:27
Alignment explanation
Indices: 89883717--89883808 Score: 134
Period size: 27 Copynumber: 3.4 Consensus size: 27
89883707 TAGAACACGA
*
89883717 AATTA-CCTTAAAGAGCAAAATTACCG
1 AATTACCCCTAAAGAGCAAAATTACCG
89883743 AATTACCCCTAAAGAGCAAAATTACCG
1 AATTACCCCTAAAGAGCAAAATTACCG
*
89883770 AAATTACCCCTAAGGAGCAAAATTACC-
1 -AATTACCCCTAAAGAGCAAAATTACCG
89883797 AATATACCCCTA
1 AAT-TACCCCTA
89883809 GGGTTTAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
26 8 0.13
27 28 0.46
28 25 0.41
ACGTcount: A:0.45, C:0.25, G:0.10, T:0.21
Consensus pattern (27 bp):
AATTACCCCTAAAGAGCAAAATTACCG
Done.