Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 130 of 325
Found at i:41548592 original size:17 final size:17
Alignment explanation
Indices: 41548570--41548604 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
41548560 ATGCTGTGAT
41548570 ATACCATACCCGGATCC
1 ATACCATACCCGGATCC
*
41548587 ATACCATACTCGGATCC
1 ATACCATACCCGGATCC
41548604 A
1 A
41548605 ATTATTGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.37, G:0.11, T:0.20
Consensus pattern (17 bp):
ATACCATACCCGGATCC
Found at i:41551455 original size:37 final size:37
Alignment explanation
Indices: 41551395--41551472 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
41551385 TATTACGAAG
* * *
41551395 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGA
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
* * *
41551432 TCTTACCTGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
41551469 TCTT
1 TCTT
41551473 TAGAGCTCAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.26
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
Found at i:41551710 original size:38 final size:42
Alignment explanation
Indices: 41551658--41551891 Score: 225
Period size: 49 Copynumber: 5.0 Consensus size: 42
41551648 ATATACACTT
*
41551658 TCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATACA
1 TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA-A
41551702 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA-A
41551749 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAAATATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCAC--ATATATA-A
41551798 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCAC--ATATATA-A
*
41551847 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA
41551892 CACTTTCACA
Statistics
Matches: 182, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
47 88 0.48
49 94 0.52
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (42 bp):
TCACATTATCACATCGGCCATTAGGCCTTATCACATATATAA
Found at i:41551812 original size:49 final size:47
Alignment explanation
Indices: 41551591--41551913 Score: 520
Period size: 47 Copynumber: 6.8 Consensus size: 47
41551581 CCCTTCGGGA
* * * * * *
41551591 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41551638 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41551685 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41551732 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41551779 CTTATCACAAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41551828 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41551877 CTTATCACATATATACACTTTCACATTCATCACATCG
1 CTTATCACATATATACACTTTCACATTCATCACATCG
41551914 AATCCTAAAT
Statistics
Matches: 260, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 166 0.64
49 94 0.36
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41554914 original size:25 final size:25
Alignment explanation
Indices: 41554877--41554992 Score: 178
Period size: 25 Copynumber: 4.6 Consensus size: 25
41554867 TGTAAACAGT
* *
41554877 AAGCTCTTCCGAGCTGAATAATGGG
1 AAGCTCATGCGAGCTGAATAATGGG
*
41554902 AAGCTCATGCGAGTTGAATAATGGG
1 AAGCTCATGCGAGCTGAATAATGGG
*
41554927 AAGCTCATGCAAGCTGAATAATGGG
1 AAGCTCATGCGAGCTGAATAATGGG
41554952 AAGCTCATGCGAGCTGAATAATGGG
1 AAGCTCATGCGAGCTGAATAATGGG
* *
41554977 AAGCTGATACGAGCTG
1 AAGCTCATGCGAGCTG
41554993 TGGTGTGTCC
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 83 1.00
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (25 bp):
AAGCTCATGCGAGCTGAATAATGGG
Found at i:41560059 original size:54 final size:54
Alignment explanation
Indices: 41559996--41560103 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
41559986 TTGAGTAAGT
41559996 GAAGTATTTTTTTTGGCTAAGTAGAGTATTTTGTAGGATTCGTTATTTGAAAAA
1 GAAGTATTTTTTTTGGCTAAGTAGAGTATTTTGTAGGATTCGTTATTTGAAAAA
41560050 GAAGTATTTTTTTTGGCTAAGTAGAGTATTTTGTAGGATTCGTTATTTGAAAAA
1 GAAGTATTTTTTTTGGCTAAGTAGAGTATTTTGTAGGATTCGTTATTTGAAAAA
41560104 TTCTTAGTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (54 bp):
GAAGTATTTTTTTTGGCTAAGTAGAGTATTTTGTAGGATTCGTTATTTGAAAAA
Found at i:41562008 original size:33 final size:33
Alignment explanation
Indices: 41561936--41562016 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
41561926 ATATAATATA
41561936 AAATA-AAATAAATATATAATTACTTAAAATTT
1 AAATATAAATAAATATATAATTACTTAAAATTT
* * *
41561968 AAGTATAAATATATTTATAATTA-TTAATTAA-TT
1 AAATATAAATAAATATATAATTACTTAA--AATTT
41562001 AAATATAAAATAAATA
1 AAATAT-AAATAAATA
41562017 AATCAAATGG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
32 8 0.21
33 22 0.56
34 9 0.23
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (33 bp):
AAATATAAATAAATATATAATTACTTAAAATTT
Found at i:41562622 original size:17 final size:18
Alignment explanation
Indices: 41562600--41562633 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
41562590 TAAATGAGTT
41562600 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
41562617 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
41562634 AAAACAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:41566242 original size:24 final size:26
Alignment explanation
Indices: 41566213--41566260 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
41566203 CATTCAGATT
*
41566213 TTCCAAATGAC-TCACCAC-AAGGGC
1 TTCCAAATAACTTCACCACTAAGGGC
41566237 TTCCAAATAACTTCACCACTAAGG
1 TTCCAAATAACTTCACCACTAAGG
41566261 CTTTCTGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
25 7 0.33
26 4 0.19
ACGTcount: A:0.35, C:0.31, G:0.12, T:0.21
Consensus pattern (26 bp):
TTCCAAATAACTTCACCACTAAGGGC
Found at i:41571210 original size:24 final size:24
Alignment explanation
Indices: 41571182--41571235 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
41571172 TGTTCTAGGG
*
41571182 ATAGTTAGTGTTCCTTCTTAATAT
1 ATAGTTAGTGTTCCTTCTCAATAT
*
41571206 GTAGTTAGTGTTCCTTCTCAATAT
1 ATAGTTAGTGTTCCTTCTCAATAT
41571230 ATAGTT
1 ATAGTT
41571236 GATAAGGATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.13, G:0.15, T:0.48
Consensus pattern (24 bp):
ATAGTTAGTGTTCCTTCTCAATAT
Found at i:41575431 original size:17 final size:17
Alignment explanation
Indices: 41575405--41575439 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
41575395 AATTTAGTCC
*
41575405 TATATTTATTATATTAT
1 TATATATATTATATTAT
*
41575422 TATATATATTGTATTAT
1 TATATATATTATATTAT
41575439 T
1 T
41575440 TGTTTATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
TATATATATTATATTAT
Found at i:41575515 original size:17 final size:18
Alignment explanation
Indices: 41575495--41575540 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
41575485 TTATTATGAG
41575495 TATTATTTT-TAATTATA
1 TATTATTTTATAATTATA
*
41575512 TATTATTATTACTTATTATA
1 TATTATT-TTA-TAATTATA
41575532 TATTATTTT
1 TATTATTTT
41575541 CCTTAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 7 0.28
18 2 0.08
19 2 0.08
20 14 0.56
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTATTTTATAATTATA
Found at i:41575519 original size:10 final size:10
Alignment explanation
Indices: 41575506--41575538 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
41575496 ATTATTTTTA
41575506 ATTATATATT
1 ATTATATATT
41575516 ATTAT-TACTT
1 ATTATATA-TT
41575526 ATTATATATT
1 ATTATATATT
41575536 ATT
1 ATT
41575539 TTCCTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.10
10 17 0.81
11 2 0.10
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (10 bp):
ATTATATATT
Found at i:41575555 original size:20 final size:21
Alignment explanation
Indices: 41575509--41575555 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
41575499 ATTTTTAATT
41575509 ATATATTATTATTACTT-ATT
1 ATATATTATTATTACTTAATT
*
41575529 ATATATTATT-TTCCTTAAATT
1 ATATATTATTATTACTT-AATT
41575550 AT-TATT
1 ATATATT
41575556 TTACATCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 5 0.21
20 14 0.58
21 5 0.21
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATTATTATTACTTAATT
Found at i:41587876 original size:84 final size:85
Alignment explanation
Indices: 41587770--41587935 Score: 226
Period size: 84 Copynumber: 2.0 Consensus size: 85
41587760 GAAGCAGATC
* * * * ** *
41587770 CAAGATGATTTGGTATTCTTGTGTTTACAAGAAATAAATCAAGGACGTTGCAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGAAACAAATCAAGGAAATAGCAGATATGACTCTCA
*
41587835 GATGTTCTCAAA-ACAGACT
66 GACGTTCTCAAAGACAGACT
* * *
41587854 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGAAATAGCAGATTTGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGAAACAAATCAAGGAAATAGCAGATATGACTCTCA
41587919 GACGTTCTCAAAGACAG
66 GACGTTCTCAAAGACAG
41587936 CAGATCTAGA
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
84 66 0.94
85 4 0.06
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (85 bp):
CAAGATGATTTGGCATCCTTGTGCTTACAAGAAACAAATCAAGGAAATAGCAGATATGACTCTCA
GACGTTCTCAAAGACAGACT
Found at i:41588069 original size:119 final size:119
Alignment explanation
Indices: 41587854--41588170 Score: 492
Period size: 119 Copynumber: 2.7 Consensus size: 119
41587844 AAAACAGACT
*
41587854 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGAAATAGCAGATTTGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCA
*
41587919 GACGTTCTCAAAGACAGCAGATCTAGACTTCAGATGTTTATACTGAAGCAGATC
66 GACGTTCTCAAATACAGCAGATCTAGACTTCAGATGTTTATACTGAAGCAGATC
*
41587973 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATAGTAGATTTGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCA
* *
41588038 GACGTTCTCAAATATAGCAGATCTA-ACCTTCAGATGTTTATGCTGAAGCAGATC
66 GACGTTCTCAAATACAGCAGATCTAGA-CTTCAGATGTTTATACTGAAGCAGATC
* * * * * * *
41588092 CAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACGTTGCAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCA
* *
41588157 AATGTTCTCAAATA
66 GACGTTCTCAAATA
41588171 GACTCAAGAT
Statistics
Matches: 182, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
118 1 0.01
119 181 0.99
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (119 bp):
CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCA
GACGTTCTCAAATACAGCAGATCTAGACTTCAGATGTTTATACTGAAGCAGATC
Found at i:41588197 original size:83 final size:83
Alignment explanation
Indices: 41588092--41588350 Score: 396
Period size: 83 Copynumber: 3.1 Consensus size: 83
41588082 GAAGCAGATC
* * * *
41588092 CAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACGTTGCAGATATGACTCTCA
1 CAAGATGATTTGGTATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
*
41588157 AATGTTCTCAAATAGACT
66 AATGTTCTCAAACAGACT
*
41588175 CAAGATGGTTTGGTATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGATTTGGTATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
41588240 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * * * *
41588258 C-A-TTGGTTTGGCATCCTTGTGCCTACAAGGAACAAATCGAGAACATTGCAGATATGACTCTCA
1 CAAGATGATTTGGTATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
*
41588321 AATGTTCTCAAGCAGACT
66 AATGTTCTCAAACAGACT
41588339 CAAGATGATTTG
1 CAAGATGATTTG
41588351 ACATCCTTAC
Statistics
Matches: 161, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
81 75 0.47
82 2 0.01
83 84 0.52
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (83 bp):
CAAGATGATTTGGTATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:41589913 original size:17 final size:17
Alignment explanation
Indices: 41589887--41590021 Score: 57
Period size: 17 Copynumber: 7.7 Consensus size: 17
41589877 AATTTAGTCC
*
41589887 TATATTTATTATATTAT
1 TATATATATTATATTAT
*
41589904 TATATATATTGTATTAT
1 TATATATATTATATTAT
* * *
41589921 T-TGTTTATTTTAATT-T
1 TATATATATTAT-ATTAT
*
41589937 TACTTTTATATTATA-TAT
1 TA--TATATATTATATTAT
* * *
41589955 TATA-AAATTGTTTTAT
1 TATATATATTATATTAT
41589971 TATGAGTATTATT-T-TTAAT
1 TAT-A-TA-TATTATATT-AT
41589990 TATATATTATTATTACTTAT
1 TATATA-TATTA-TA-TTAT
41590010 TATATATATTAT
1 TATATATATTAT
41590022 TTTCCTTAAA
Statistics
Matches: 90, Mismatches: 13, Indels: 29
0.68 0.10 0.22
Matches are distributed among these distances:
15 5 0.06
16 16 0.18
17 28 0.31
18 8 0.09
19 20 0.22
20 11 0.12
21 2 0.02
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (17 bp):
TATATATATTATATTAT
Found at i:41590002 original size:20 final size:18
Alignment explanation
Indices: 41589977--41590024 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 18
41589967 TTATTATGAG
41589977 TATTATTTTTAATTATATA
1 TATTATTTTT-ATTATATA
*
41589996 TTATTATTACTTATTATATA
1 -TATTATT-TTTATTATATA
41590016 TATTATTTT
1 TATTATTTT
41590025 CCTTAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 1 0.04
19 7 0.28
20 15 0.60
21 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTATTTTTATTATATA
Found at i:41592331 original size:48 final size:48
Alignment explanation
Indices: 41592269--41592676 Score: 726
Period size: 48 Copynumber: 8.5 Consensus size: 48
41592259 TATATATGTG
*
41592269 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
41592317 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
41592365 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
41592413 TGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * *
41592461 TGTGGTAAAGCTGAATGGCTAATGTGAAATAAGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
41592509 TGTGGTAAAGCCGAATGGATAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
41592557 CGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* **
41592605 TGTGGTAAAGCCGAATGGCTAATGCAAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
41592653 TGTGGTAAAGCCGAATGGCTAGTG
1 TGTGGTAAAGCCGAATGGCTAGTG
41592677 ATTCGGCTAG
Statistics
Matches: 345, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 345 1.00
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:41592905 original size:37 final size:37
Alignment explanation
Indices: 41592850--41592942 Score: 159
Period size: 37 Copynumber: 2.5 Consensus size: 37
41592840 ATATATTCCA
*
41592850 GGTAAGACCCGATAACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATAACTACGTGTAGAGATTATGTCCG
* *
41592887 GGTAAGACCCGATGACTACGTGTAGAGATTTTGTCCG
1 GGTAAGACCCGATAACTACGTGTAGAGATTATGTCCG
41592924 GGTAAGACCCGATAACTAC
1 GGTAAGACCCGATAACTAC
41592943 CTTTGGGGAC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (37 bp):
GGTAAGACCCGATAACTACGTGTAGAGATTATGTCCG
Found at i:41594278 original size:40 final size:40
Alignment explanation
Indices: 41594230--41594358 Score: 231
Period size: 40 Copynumber: 3.2 Consensus size: 40
41594220 AGTTATATAG
41594230 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
41594270 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
* * *
41594310 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
41594350 CCGGGCTAA
1 CCGGGCTAA
41594359 ACCTCGAAGG
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
Found at i:41594456 original size:29 final size:29
Alignment explanation
Indices: 41594387--41594518 Score: 128
Period size: 29 Copynumber: 4.6 Consensus size: 29
41594377 TTGGAATTAT
* * *
41594387 GAGGCACTGTGTGTGCAAGTTC-TTCAATC
1 GAGGCACTATGTGTGCGAGTTCGGT-AATC
* *
41594416 GA-GCGCTATGTGTGCGAGATT-GGTAATT
1 GAGGCACTATGTGTGCGAG-TTCGGTAATC
**
41594444 GAGGCACTATGTGTGCGAGTTCTTTAATC
1 GAGGCACTATGTGTGCGAGTTCGGTAATC
**
41594473 GAGGCACTATGTGTGCGAGTTCTATAATC
1 GAGGCACTATGTGTGCGAGTTCGGTAATC
*
41594502 GA-GCGCTATGTGTGCGA
1 GAGGCACTATGTGTGCGA
41594519 AATCAATCAG
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
28 34 0.39
29 54 0.61
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGTTCGGTAATC
Found at i:41594511 original size:57 final size:57
Alignment explanation
Indices: 41594387--41594518 Score: 160
Period size: 57 Copynumber: 2.3 Consensus size: 57
41594377 TTGGAATTAT
* * * * *
41594387 GAGGCACTGTGTGTGCAAGTTCTTCAATCGAGCGCTATGTGTGCGAGATTGGTAATT
1 GAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGATAATC
* *
41594444 GAGGCACTATGTGTGCGAGTTCTTTAATCGAGGCACTATGTGTGCGAG-TTCTATAATC
1 GAGGCACTATGTGTGCGAGTTCTTCAATCGA-GCACTATGTGTGCGAGATT-GATAATC
*
41594502 GA-GCGCTATGTGTGCGA
1 GAGGCACTATGTGTGCGA
41594519 AATCAATCAG
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
57 44 0.68
58 21 0.32
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (57 bp):
GAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGATAATC
Found at i:41598220 original size:47 final size:47
Alignment explanation
Indices: 41598166--41598454 Score: 380
Period size: 47 Copynumber: 6.1 Consensus size: 47
41598156 TTAAGATTTT
* ** * * *
41598166 ATGTGATGAATGCGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
** *
41598213 ATGTGATGAATGTGAACCTATATATATATGCGGGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-ATGCATATAT--GTGATAAGGCCGAATGGCCA
* * *
41598264 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
41598311 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
41598358 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
41598405 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
41598452 ATG
1 ATG
41598455 CGAAATGTGT
Statistics
Matches: 218, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
47 169 0.78
49 14 0.06
50 1 0.00
51 34 0.16
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:41598564 original size:46 final size:46
Alignment explanation
Indices: 41598428--41598564 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
41598418 GAACATGTAT
* *
41598428 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
41598474 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
41598520 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
41598565 TGTATATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:41602064 original size:48 final size:48
Alignment explanation
Indices: 41602002--41602360 Score: 605
Period size: 48 Copynumber: 7.5 Consensus size: 48
41601992 TATATATGTG
*
41602002 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
41602050 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG--TA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
41602096 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * *
41602144 TGTGGTAAAAGTCGAATGGCTAATGTGAAATATGTATAAGATATGTATA
1 TGTGGT-AAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
41602193 TGTGGTAAAGCCGAATGACTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
41602241 CGTGGTAAAGACGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * *
41602289 CGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
41602337 TGTGGTAAAGCCGAATGGCTAGTG
1 TGTGGTAAAGCCGAATGGCTAGTG
41602361 ATTCGGCTAG
Statistics
Matches: 292, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 46 0.16
48 201 0.69
49 45 0.15
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:41602580 original size:37 final size:37
Alignment explanation
Indices: 41602530--41602626 Score: 158
Period size: 37 Copynumber: 2.6 Consensus size: 37
41602520 AGAAATATAT
* *
41602530 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
*
41602567 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
*
41602604 TCCGGGTAAGACCCGATAACTAC
1 TCCGGGTAAGACCCGATGACTAC
41602627 CTGTGGGGAC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
Found at i:41604459 original size:11 final size:11
Alignment explanation
Indices: 41604427--41604468 Score: 56
Period size: 9 Copynumber: 4.2 Consensus size: 11
41604417 TAAAGGTCAT
41604427 AAAAT-TTA-A
1 AAAATATTATA
41604436 AAAATA-TAT-
1 AAAATATTATA
41604445 AAAATATTATA
1 AAAATATTATA
41604456 AAAATATTATA
1 AAAATATTATA
41604467 AA
1 AA
41604469 GTAATGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 13 0.45
10 3 0.10
11 13 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATATTATA
Found at i:41604460 original size:20 final size:19
Alignment explanation
Indices: 41604425--41604468 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
41604415 GCTAAAGGTC
41604425 ATAAAATTTAAAAAATA-T
1 ATAAAATTTAAAAAATATT
41604443 ATAAAATATTATAAAAATATT
1 ATAAAAT-TTA-AAAAATATT
41604464 ATAAA
1 ATAAA
41604469 GTAATGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.30
19 3 0.13
20 7 0.30
21 6 0.26
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAAAATTTAAAAAATATT
Found at i:41604581 original size:6 final size:6
Alignment explanation
Indices: 41604570--41604623 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
41604560 ATTCATTATT
* *
41604570 AAATAA AAATAA AAATAA AAATATA GAATCAA AACT-A AAATAA ATAATAA
1 AAATAA AAATAA AAATAA AAATA-A AAAT-AA AAATAA AAATAA A-AATAA
41604620 AAAT
1 AAAT
41604624 TAGATTAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 4 0.10
6 22 0.55
7 13 0.32
8 1 0.03
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:41604647 original size:31 final size:32
Alignment explanation
Indices: 41604567--41604647 Score: 100
Period size: 31 Copynumber: 2.6 Consensus size: 32
41604557 AAAATTCATT
41604567 ATTAAATA-AAAATAAA-AATAAAAATATAGA
1 ATTAAATATAAAATAAATAATAAAAATATAGA
*
41604597 ATCAAA-ACTAAAATAAATAATAAAAAT-TAG-
1 ATTAAATA-TAAAATAAATAATAAAAATATAGA
41604627 ATTAAATATAAATATAAATAA
1 ATTAAATATAAA-ATAAATAA
41604648 AATACAACAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
29 1 0.02
30 14 0.32
31 20 0.45
32 9 0.20
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (32 bp):
ATTAAATATAAAATAAATAATAAAAATATAGA
Found at i:41605407 original size:15 final size:15
Alignment explanation
Indices: 41605387--41605415 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
41605377 AAAAGAATAT
41605387 TAGCAACAAATTATG
1 TAGCAACAAATTATG
41605402 TAGCAACAAATTAT
1 TAGCAACAAATTAT
41605416 AAATTGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (15 bp):
TAGCAACAAATTATG
Found at i:41609496 original size:17 final size:17
Alignment explanation
Indices: 41609476--41609508 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
41609466 AACGAAGGAT
41609476 CGAGAGAAAAACAGTAA
1 CGAGAGAAAAACAGTAA
*
41609493 CGAGAGAAAAAGAGTA
1 CGAGAGAAAAACAGTA
41609509 GCTAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.27, T:0.06
Consensus pattern (17 bp):
CGAGAGAAAAACAGTAA
Found at i:41609877 original size:7 final size:7
Alignment explanation
Indices: 41609867--41609940 Score: 121
Period size: 7 Copynumber: 10.3 Consensus size: 7
41609857 ATATTAAATA
*
41609867 TTAACTT
1 TTAATTT
41609874 TTAAGTTTT
1 TTAA-T-TT
41609883 TTAATTT
1 TTAATTT
41609890 TTAATTT
1 TTAATTT
41609897 TTAATTT
1 TTAATTT
41609904 TTAATTT
1 TTAATTT
41609911 TTAATTT
1 TTAATTT
41609918 TTAATTT
1 TTAATTT
41609925 TTAATTT
1 TTAATTT
41609932 TTAATTT
1 TTAATTT
41609939 TT
1 TT
41609941 TTTGAAGATT
Statistics
Matches: 64, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
7 57 0.89
8 1 0.02
9 6 0.09
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (7 bp):
TTAATTT
Found at i:41610311 original size:37 final size:37
Alignment explanation
Indices: 41610256--41610346 Score: 137
Period size: 37 Copynumber: 2.5 Consensus size: 37
41610246 CGCAGCAGAT
* *
41610256 GCACAGGGCGAAGGCGATGGAGGAGATGGGTTGCGAC
1 GCACGGGGCGAAGGCGATGGAGGAGATGGGTTACGAC
* *
41610293 GCACGGGGCGAAGGCGATGGAGGGGATGGGTTACGAT
1 GCACGGGGCGAAGGCGATGGAGGAGATGGGTTACGAC
*
41610330 GCACGGGGTGAAGGCGA
1 GCACGGGGCGAAGGCGA
41610347 CAAACGAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.23, C:0.15, G:0.51, T:0.11
Consensus pattern (37 bp):
GCACGGGGCGAAGGCGATGGAGGAGATGGGTTACGAC
Found at i:41610461 original size:15 final size:14
Alignment explanation
Indices: 41610442--41610481 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
41610432 TTATGGCCAT
41610442 TAAACCTTAAACCA
1 TAAACCTTAAACCA
*
41610456 TAAAACCCTAAACCA
1 T-AAACCTTAAACCA
*
41610471 TAGACCTTAAA
1 TAAACCTTAAA
41610482 TCTTACATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.50, C:0.28, G:0.03, T:0.20
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:41610734 original size:46 final size:46
Alignment explanation
Indices: 41610605--41610736 Score: 158
Period size: 48 Copynumber: 2.8 Consensus size: 46
41610595 TCAACATCCA
* ***
41610605 TATGATGTTTTTTGGGGTTTAGGGTTTTAAAAGTTATAGATTAGTGTT
1 TATGAT-TTTTTT-GGGTTTAGGATTTTAGGGGTTATAGATTAGTGTT
* *
41610653 TAGTG-TTTTTTAAGGGGTTAGGAATTTTAGGGGTTATAGATTAGTGTT
1 TA-TGATTTTTT-TGGGTTTAGG-ATTTTAGGGGTTATAGATTAGTGTT
41610701 TATGATTTTTTTGGGTTTAGGATTTTAGGGGTTATA
1 TATGATTTTTTTGGGTTTAGGATTTTAGGGGTTATA
41610737 TGACTTTTTG
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
46 15 0.21
47 23 0.32
48 32 0.44
49 2 0.03
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (46 bp):
TATGATTTTTTTGGGTTTAGGATTTTAGGGGTTATAGATTAGTGTT
Found at i:41610786 original size:41 final size:41
Alignment explanation
Indices: 41610748--41610918 Score: 283
Period size: 41 Copynumber: 4.2 Consensus size: 41
41610738 GACTTTTTGT
*
41610748 GGCGTTTTGAGCAAAAACGCCGCTATTGCT-TAGTTTTTTAGC
1 GGCG-TTTGACCAAAAACGCCGCTATTGCTCT-GTTTTTTAGC
*
41610790 GGCGTTTGACCAAAAACGCCGTTATTGCTCTGTTTTTTAGC
1 GGCGTTTGACCAAAAACGCCGCTATTGCTCTGTTTTTTAGC
*
41610831 GGCGTTTGACCAAAAACGCCGCTATTGCTATGTTTTTTAGC
1 GGCGTTTGACCAAAAACGCCGCTATTGCTCTGTTTTTTAGC
41610872 GGCGTTTGACCAAAAACGCCGCTATTGCTCTG-TTTTTAGC
1 GGCGTTTGACCAAAAACGCCGCTATTGCTCTGTTTTTTAGC
41610912 GGCGTTT
1 GGCGTTT
41610919 TTGGTCAAAC
Statistics
Matches: 123, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
40 15 0.12
41 103 0.84
42 5 0.04
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (41 bp):
GGCGTTTGACCAAAAACGCCGCTATTGCTCTGTTTTTTAGC
Found at i:41610962 original size:82 final size:81
Alignment explanation
Indices: 41610761--41610957 Score: 242
Period size: 82 Copynumber: 2.4 Consensus size: 81
41610751 GTTTTGAGCA
* * *
41610761 AAAACGCCGCTATTGCT-TAGTTTTTTAGCGGCGTTTGACCAAAAACGCCGTTATTGCTCTGTTT
1 AAAACGCCGCTAATGCTATA-ATTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTGCTCTGTTT
41610825 TTTAGCGGCGTTTGACC
65 TTTAGCGGCGTTTGACC
* **
41610842 AAAAACGCCGCTATTGCTATGTTTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTGCTCTG-TT
1 -AAAACGCCGCTAATGCTATAATTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTGCTCTGTTT
**
41610906 TTTAGCGGCGTTTTTGGTC
65 TTTAGCGGCG--TTTGACC
*
41610925 -AAACGCCGCTAATG-TATAATTTTT-GTGGCGTTT
1 AAAACGCCGCTAATGCTATAATTTTTAGCGGCGTTT
41610958 TTTGATAAAA
Statistics
Matches: 104, Mismatches: 8, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
79 8 0.08
80 8 0.08
81 25 0.24
82 57 0.55
83 6 0.06
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (81 bp):
AAAACGCCGCTAATGCTATAATTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTGCTCTGTTTT
TTAGCGGCGTTTGACC
Found at i:41622442 original size:16 final size:17
Alignment explanation
Indices: 41622421--41622454 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
41622411 ATTATTAAAC
*
41622421 TACACTACTTA-ATGCT
1 TACACTACCTATATGCT
41622437 TACACTACCTATATGCT
1 TACACTACCTATATGCT
41622454 T
1 T
41622455 TCTTTCTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.38
Consensus pattern (17 bp):
TACACTACCTATATGCT
Found at i:41624837 original size:46 final size:43
Alignment explanation
Indices: 41624753--41624875 Score: 120
Period size: 46 Copynumber: 2.7 Consensus size: 43
41624743 GACGAGAGCT
* * *
41624753 AGTGTAAGACATGTCTGAGACATGCATCAGCCTCGAGATGTAAGCC
1 AGTGTAAAACATGTCTGGGACATGCATC-GGCTCGAGATGT--GCC
* * *
41624799 AGTGTAAAACATGTTTGGGACATGCATCGGCTATGAGATGTGTC
1 AGTGTAAAACATGTCTGGGACATGCATCGGCT-CGAGATGTGCC
* *
41624843 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGTGTAA-AACATGTCTGGGACAT-GCATCGGC
41624876 ACAGATATGT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 9 0.14
45 16 0.25
46 40 0.62
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (43 bp):
AGTGTAAAACATGTCTGGGACATGCATCGGCTCGAGATGTGCC
Found at i:41625013 original size:146 final size:140
Alignment explanation
Indices: 41624746--41625019 Score: 327
Period size: 146 Copynumber: 1.9 Consensus size: 140
41624736 ACATTGAGAC
**
41624746 GAGAGCTAGTGTAAGACATGTCTGAGACATGCATCAGCCTCGAGATGTAAGCCAGTGTAAAACAT
1 GAGAGCTAGTGTAAGACATGTCTGAGACATGCATCAGCCTCGAGATCAAAGCCAGTGTAAAACAT
* * * *
41624811 GTTTGGGACATGCATCGGCTATGAGATGTGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
66 GTTTGGGACATGCATCGCCTATGAGATGAGCCAATGTAAGACCATGTCTAGGACATGGCATCGGC
41624876 ACAGATATGT
131 ACAGATATGT
* * ** ** * *
41624886 GAGAGCTAGTGTAAGACAATGTCTGGGACATGGCGTTGGCCTCGATTTCAATAGTCAGTGTAAGA
1 GAGAGCTAGTGTAAGAC-ATGTCTGAGACAT-GCATCAGCCTCGAGATCAA-AGCCAGTGTAAAA
*
41624951 CGATGTTTGGGACATGGCATCGACCTGATG-GATGAGCCAATGTAAGACCATGTCT-GATACATG
63 C-ATGTTTGGGACAT-GCATCG-CCT-ATGAGATGAGCCAATGTAAGACCATGTCTAG-GACATG
41625014 GCATCG
123 GCATCG
41625020 ATGTTATACC
Statistics
Matches: 111, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
140 17 0.15
141 12 0.11
142 12 0.11
143 12 0.11
144 13 0.12
145 7 0.06
146 35 0.32
147 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (140 bp):
GAGAGCTAGTGTAAGACATGTCTGAGACATGCATCAGCCTCGAGATCAAAGCCAGTGTAAAACAT
GTTTGGGACATGCATCGCCTATGAGATGAGCCAATGTAAGACCATGTCTAGGACATGGCATCGGC
ACAGATATGT
Found at i:41633171 original size:56 final size:56
Alignment explanation
Indices: 41633105--41633213 Score: 155
Period size: 56 Copynumber: 1.9 Consensus size: 56
41633095 ACCATGGCAT
* *
41633105 CGATATATGTGGGCCAGTAAGACCACATTTAATATGTTGGCATCGATATGTGACTC
1 CGATATATGTGGGCCAGTAAGACAACATTTAATACGTTGGCATCGATATGTGACTC
* ** * *
41633161 CGATATATGTGTGTGAGTAAGACAACGTTTAGTACGTTGGCATCGATATGTGA
1 CGATATATGTGGGCCAGTAAGACAACATTTAATACGTTGGCATCGATATGTGA
41633214 TTTCAAGTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (56 bp):
CGATATATGTGGGCCAGTAAGACAACATTTAATACGTTGGCATCGATATGTGACTC
Found at i:41643916 original size:49 final size:49
Alignment explanation
Indices: 41643847--41644372 Score: 883
Period size: 49 Copynumber: 10.9 Consensus size: 49
41643837 TAGTATGGCG
* *
41643847 TAATGGCTGATATGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
41643896 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
41643945 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
41643994 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
41644041 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
41644090 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
41644139 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
41644186 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
41644235 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
41644282 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * *
41644329 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
41644373 TCCCGAAGGG
Statistics
Matches: 456, Mismatches: 15, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
47 188 0.41
48 1 0.00
49 267 0.59
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:41644053 original size:96 final size:97
Alignment explanation
Indices: 41643847--41644372 Score: 870
Period size: 96 Copynumber: 5.5 Consensus size: 97
41643837 TAGTATGGCG
* * *
41643847 TAATGGCTGATATGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
41643912 GAATGTGAAAGTGTATATATATGTGATAAGGCC
66 GAATGTGAAAGTG-ATATATATGTGATAAGGCC
41643945 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
41644010 GAATGTGAAAGTG-TATATATGTGATAAGGCC
66 GAATGTGAAAGTGATATATATGTGATAAGGCC
*
41644041 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
41644106 GAATGTGAAAGTGTATATATATGTGATAAGGCC
66 GAATGTGAAAGTG-ATATATATGTGATAAGGCC
41644139 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
41644202 GAATGTGAAAGTGTATATATATGTGATAAGGCC
66 GAATGTGAAAGTG-ATATATATGTGATAAGGCC
41644235 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
41644298 GAATGTGAAAGTG-TATATATGTGACAGGGCC
66 GAATGTGAAAGTGATATATATGTGATAAGGCC
* * * * *
41644329 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
41644373 TCCCGAAGGG
Statistics
Matches: 412, Mismatches: 12, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
94 50 0.12
95 1 0.00
96 240 0.58
98 121 0.29
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (97 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTGATATATATGTGATAAGGCC
Found at i:41644112 original size:145 final size:145
Alignment explanation
Indices: 41643847--41644372 Score: 907
Period size: 145 Copynumber: 3.6 Consensus size: 145
41643837 TAGTATGGCG
* *
41643847 TAATGGCTGATATGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGAT
41643912 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
64 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
41643977 ATATATGTGATAAGGCC
129 ATATATGTGATAAGGCC
41643994 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
41644059 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
41644124 ATATGTGATAAGGCC
131 ATATGTGATAAGGCC
*
41644139 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
41644204 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
66 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
41644267 ATATGTGATAAGGCC
131 ATATGTGATAAGGCC
* * * * * * * *
41644282 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
41644347 ATGTGAAAGTGTATA-A-ATGTGATAAG
66 ATGTGAAAGTGTATATATATGTGATAAG
41644373 TCCCGAAGGG
Statistics
Matches: 369, Mismatches: 10, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
141 10 0.03
142 1 0.00
143 91 0.25
145 240 0.65
147 27 0.07
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (145 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATATGTGATAAGGCC
Found at i:41645348 original size:48 final size:48
Alignment explanation
Indices: 41645289--41645699 Score: 482
Period size: 48 Copynumber: 8.6 Consensus size: 48
41645279 AGGGGTGTTA
*
41645289 CAAACATGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGTCC
1 CAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTCC
* *
41645337 CAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTC
1 CAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTCC
* ** * *
41645385 CAAACATGGTCTTACACTAGCTCACATATCGAGGTCGATGCCATGTCC
1 CAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTCC
* * * * *
41645433 CAGACATGGTCTTACACTAGCTCTCATATAAATGTCGATACTATGTTC
1 CAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTCC
* * ** * * *
41645481 CAAACATGGTCTTACACTGGCTCACATATCGAGGCCAATACCATGTCC
1 CAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTCC
* * * *
41645529 CAGACATGGTCTTACACTAGCTCTCATTTAAATGCCGATACCATGTTC
1 CAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTCC
* * ** *
41645577 CAAACATGGTCTTACACTGGCTCACATATCGAGGCC-ATGCCATGTCC
1 CAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTCC
** * * * *
41645624 CAGGCATGGTCTTATACAAGCTCTCATATAAATGCTGATGCCATGTTC
1 CAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTCC
* *
41645672 CAAACATGGTCTTACACTGGCTCACATA
1 CAAACATGGTCTTACACTAGCTCTCATA
41645700 CCCCTAGTAT
Statistics
Matches: 299, Mismatches: 63, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
47 35 0.12
48 264 0.88
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (48 bp):
CAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTCC
Found at i:41645453 original size:96 final size:96
Alignment explanation
Indices: 41645284--41645699 Score: 654
Period size: 96 Copynumber: 4.3 Consensus size: 96
41645274 GGGATAGGGG
* * * ** *
41645284 TGTTACAAACATGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGTCCCAGACATGGTCT
1 TGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCAATGCCATGTCCCAGACATGGTCT
*
41645349 TACACTAGCTCTCATATAAATGCCGATGCCA
66 TACACTAGCTCTCATATAAATGCCGATACCA
* * *
41645380 TGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGTCGATGCCATGTCCCAGACATGGTCT
1 TGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCAATGCCATGTCCCAGACATGGTCT
* *
41645445 TACACTAGCTCTCATATAAATGTCGATACTA
66 TACACTAGCTCTCATATAAATGCCGATACCA
*
41645476 TGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCAATACCATGTCCCAGACATGGTCT
1 TGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCAATGCCATGTCCCAGACATGGTCT
*
41645541 TACACTAGCTCTCATTTAAATGCCGATACCA
66 TACACTAGCTCTCATATAAATGCCGATACCA
*
41645572 TGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCC-ATGCCATGTCCCAGGCATGGTCT
1 TGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCAATGCCATGTCCCAGACATGGTCT
* * * *
41645636 TATACAAGCTCTCATATAAATGCTGATGCCA
66 TACACTAGCTCTCATATAAATGCCGATACCA
41645667 TGTTCCAAACATGGTCTTACACTGGCTCACATA
1 TGTTCCAAACATGGTCTTACACTGGCTCACATA
41645700 CCCCTAGTAT
Statistics
Matches: 296, Mismatches: 24, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
95 80 0.27
96 216 0.73
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (96 bp):
TGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCAATGCCATGTCCCAGACATGGTCT
TACACTAGCTCTCATATAAATGCCGATACCA
Found at i:41669545 original size:43 final size:44
Alignment explanation
Indices: 41669498--41669584 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 44
41669488 CCAAAACATG
*
41669498 TGTCACATATATCATGAACTC-GACCACAACTCATGAGTTCAGA
1 TGTCACATATATCATGAACTCAGACAACAACTCATGAGTTCAGA
41669541 TGTCACATATATCATGAACTCAGACAACAACTCATGAGTTCAGA
1 TGTCACATATATCATGAACTCAGACAACAACTCATGAGTTCAGA
41669585 ACACATAGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 21 0.50
44 21 0.50
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (44 bp):
TGTCACATATATCATGAACTCAGACAACAACTCATGAGTTCAGA
Found at i:41669563 original size:24 final size:24
Alignment explanation
Indices: 41669498--41669564 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 24
41669488 CCAAAACATG
41669498 TGTCACATATATCATGAACTC-GA
1 TGTCACATATATCATGAACTCAGA
* * **
41669521 --CCACA-A-CTCATGAGTTCAGA
1 TGTCACATATATCATGAACTCAGA
41669541 TGTCACATATATCATGAACTCAGA
1 TGTCACATATATCATGAACTCAGA
41669565 CAACAACTCA
Statistics
Matches: 31, Mismatches: 8, Indels: 9
0.65 0.17 0.19
Matches are distributed among these distances:
19 8 0.26
20 3 0.10
21 4 0.13
22 4 0.13
23 1 0.03
24 11 0.35
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (24 bp):
TGTCACATATATCATGAACTCAGA
Found at i:41677140 original size:80 final size:78
Alignment explanation
Indices: 41677055--41677226 Score: 204
Period size: 79 Copynumber: 2.2 Consensus size: 78
41677045 GGACTAAGAT
* *
41677055 CCGAAGGCATTTGTGTGAG-A-TACAAGTTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATAC
1 CCGAAGGCATTTGTGCGAGCATTA-AA--TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATAC
* *
41677118 TAAATCCGGGTTAAGTC
62 TAAAACCGGGCTAAGTC
* * * *
41677135 CCGAAGGCATTCGTGCGAGTCATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAG-CATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
41677200 AACCGGGCTATGTC
65 AACCGGGCTAAGTC
41677214 CCGAAGGCATTTG
1 CCGAAGGCATTTG
41677227 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
79 38 0.48
80 36 0.46
82 3 0.04
83 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGCATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
ACCGGGCTAAGTC
Found at i:41677217 original size:39 final size:39
Alignment explanation
Indices: 41677002--41677224 Score: 189
Period size: 40 Copynumber: 5.6 Consensus size: 39
41676992 TTGAATGCTG
* * * * * *
41677002 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* ** * * *
41677042 TCTGGACTAAGAT-CCGAAGGCATTTGTGTGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
41677082 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* *
41677122 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
41677162 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
41677201 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
41677225 TGAACGAGGA
Statistics
Matches: 148, Mismatches: 28, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
39 37 0.25
40 102 0.69
41 9 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:41677244 original size:79 final size:80
Alignment explanation
Indices: 41677082--41677259 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
41677072 AGATACAAGT
* * * *
41677082 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** *
41677147 GTGCGAGTCATTAAA
66 GAACGAGTCACTAAA
* * * *
41677162 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* *
41677226 GAACGAG-GAGCTATA
66 GAACGAGTCA-CTAAA
*
41677241 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
41677260 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTCACTAAA
Found at i:41683489 original size:25 final size:25
Alignment explanation
Indices: 41683455--41683505 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
41683445 TGAGTGGTTC
*
41683455 AATGAGAAAATGTTACATGATAACT
1 AATGAGAAAACGTTACATGATAACT
41683480 AATGAGAAAACGTTACATGATAACT
1 AATGAGAAAACGTTACATGATAACT
41683505 A
1 A
41683506 TGGGGTCCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.49, C:0.10, G:0.16, T:0.25
Consensus pattern (25 bp):
AATGAGAAAACGTTACATGATAACT
Found at i:41684755 original size:21 final size:22
Alignment explanation
Indices: 41684716--41684756 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
41684706 GTTGAAATGT
41684716 CACACGGGCATGTTGCCCCTCC
1 CACACGGGCATGTTGCCCCTCC
*
41684738 CACACGGGCGTG-TGCCCCT
1 CACACGGGCATGTTGCCCCT
41684757 GTGTTAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACGGGCATGTTGCCCCTCC
Found at i:41687005 original size:73 final size:73
Alignment explanation
Indices: 41686868--41687015 Score: 224
Period size: 73 Copynumber: 2.0 Consensus size: 73
41686858 AGAATGTTGG
**
41686868 AGGACTTTGGGCACATCCTTAAGATATGGATCTTTGGAGCACAAGATCAAAGATTGTCTGTTTCA
1 AGGACTTTGGGCACATCCTTAAGATATGGATCTTTGGAGCACAAGATCAAAGATTGTCCATTTCA
*
41686933 TAACAAGA
66 AAACAAGA
** * *
41686941 AGGACTTTGGGTGCATCCTTAGGATATGGATCTTTGGAGCACAAGATCAAAGATTTTCCATTTCA
1 AGGACTTTGGGCACATCCTTAAGATATGGATCTTTGGAGCACAAGATCAAAGATTGTCCATTTCA
*
41687006 AAACGAGA
66 AAACAAGA
41687014 AG
1 AG
41687016 TTGCCAGCAC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (73 bp):
AGGACTTTGGGCACATCCTTAAGATATGGATCTTTGGAGCACAAGATCAAAGATTGTCCATTTCA
AAACAAGA
Found at i:41689620 original size:20 final size:21
Alignment explanation
Indices: 41689595--41689634 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
41689585 ACTTTGAAAC
41689595 AGGGC-ACACGCCCGTGTAGA
1 AGGGCAACACGCCCGTGTAGA
* *
41689615 AGGGCAACTCGCTCGTGTAG
1 AGGGCAACACGCCCGTGTAG
41689635 CCATTTCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.28, G:0.35, T:0.15
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTAGA
Found at i:41700194 original size:17 final size:19
Alignment explanation
Indices: 41700172--41700208 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
41700162 CAAACCATTT
41700172 TTAAATAT-TAT-AAAACA
1 TTAAATATCTATCAAAACA
*
41700189 TTAAATCTCTATCAAAACA
1 TTAAATATCTATCAAAACA
41700208 T
1 T
41700209 CATAAAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 3 0.18
19 7 0.41
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (19 bp):
TTAAATATCTATCAAAACA
Found at i:41702449 original size:60 final size:61
Alignment explanation
Indices: 41702355--41702476 Score: 201
Period size: 60 Copynumber: 2.0 Consensus size: 61
41702345 TACAAAGAAA
* *
41702355 AAAATCCAAGAAAAGTAGAAAAGACAAGAGAAGCCATAGTAAATGCTAAGTAATTTCTATT
1 AAAATCCAAGAAAAGTAGAAAAGACAAGAGAAGCCAAAGTAAATGCAAAGTAATTTCTATT
* *
41702416 AAAATGCAAGAACAGTA-AAAAGACAAGAGAAGCCAAAGTAAATGCAAAGTAATTTCTATT
1 AAAATCCAAGAAAAGTAGAAAAGACAAGAGAAGCCAAAGTAAATGCAAAGTAATTTCTATT
41702476 A
1 A
41702477 CTCAAGAATG
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
60 42 0.74
61 15 0.26
ACGTcount: A:0.52, C:0.11, G:0.16, T:0.20
Consensus pattern (61 bp):
AAAATCCAAGAAAAGTAGAAAAGACAAGAGAAGCCAAAGTAAATGCAAAGTAATTTCTATT
Found at i:41705014 original size:46 final size:46
Alignment explanation
Indices: 41704867--41705176 Score: 215
Period size: 46 Copynumber: 6.6 Consensus size: 46
41704857 TTTGTGCGCT
* * *
41704867 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATGAGAGCC
* * * * *
41704913 AGTGTAAGATCATGTATGGGACATAGCATC-GACATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CCTCGAGATGAGAGCC
41704961 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATG-AGAGCC
* * *
41705007 AGTGTAAGACATGTCTGGGACATGCATTAG-CTACGAGA--AGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGATGAGAGCC
* * ** * **
41705051 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTTGATAGTA
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGA-GATGAGAGCC
* * * *
41705100 AGTGTAAGACCATGTCTAGGACGTGGCATC-GACT--TGATGGATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGAT-GA-GAGCC
*
41705147 AGTGTAAGACCATGTCTAGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
41705177 GGCATTACAC
Statistics
Matches: 214, Mismatches: 34, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.00
44 11 0.05
45 17 0.08
46 67 0.31
47 62 0.29
48 25 0.12
49 31 0.14
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGAGAGCC
Found at i:41710455 original size:49 final size:49
Alignment explanation
Indices: 41710338--41710480 Score: 178
Period size: 49 Copynumber: 2.9 Consensus size: 49
41710328 ATACATGTAT
* * * **
41710338 GCTCATATGAGCTATGAATCGGTATGCTCTCACGAGCTGTAAATTGGTAA
1 GCTCATATGAGCTAAGAATCGGTAAGCTCTCACGAGTTG-AAATCAGTAA
* * * *
41710388 GCTCATATGAGCTGAGAATCAGTAAGCTCTTACAAGTTGAAATCAGTAA
1 GCTCATATGAGCTAAGAATCGGTAAGCTCTCACGAGTTGAAATCAGTAA
* *
41710437 GCTCATACGAGCTAAGAATTGGTAAGCTCTCACGAGTTGAAATC
1 GCTCATATGAGCTAAGAATCGGTAAGCTCTCACGAGTTGAAATC
41710481 GATAATCCTT
Statistics
Matches: 78, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
49 46 0.59
50 32 0.41
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (49 bp):
GCTCATATGAGCTAAGAATCGGTAAGCTCTCACGAGTTGAAATCAGTAA
Found at i:41710471 original size:25 final size:24
Alignment explanation
Indices: 41710346--41710472 Score: 78
Period size: 25 Copynumber: 5.1 Consensus size: 24
41710336 ATGCTCATAT
* *
41710346 GAGCTATGAATCGGTATGCTCTCAC
1 GAGCTAAGAATCGGTAAGCTCT-AC
* * *
41710371 GAGCTGTA-AATTGGTAAGCTCATAT
1 GAGCT-AAGAATCGGTAAGCTC-TAC
* *
41710396 GAGCTGAGAATCAGTAAGCTCTTAC
1 GAGCTAAGAATCGGTAAGCTC-TAC
* * * *
41710421 AAGTTGA-AATCAGTAAGCTCATAC
1 GAGCTAAGAATCGGTAAGCTC-TAC
*
41710445 GAGCTAAGAATTGGTAAGCTCTCAC
1 GAGCTAAGAATCGGTAAGCTCT-AC
41710470 GAG
1 GAG
41710473 TTGAAATCGA
Statistics
Matches: 79, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
24 22 0.28
25 56 0.71
26 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (24 bp):
GAGCTAAGAATCGGTAAGCTCTAC
Found at i:41711852 original size:3 final size:3
Alignment explanation
Indices: 41711839--41712330 Score: 199
Period size: 3 Copynumber: 166.3 Consensus size: 3
41711829 ATTAGTTTAT
* * * *
41711839 TTA TAA TTA TTA TT- TTA CTA TTA CTTA -TA TTTA TTA TCA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA
* * * *
41711884 TTA TTA CTA TTA -TA TTA CTA CTA TTA TT- TTCA CTA TT- TTCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TT-A TTA
* * * * *
41711928 TTA TTA TTA CTA TTA TTA TTT TTA TTT TTA TT- TT- TTA CTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * * * *
41711974 TTTA TTA TCA TTA TTA CCA TTA TTA TTG CTA CTA TTC TTA TTA TCT-
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * * *
41712020 TTT TTA CTA TTA TTA TTA TT- TTA TTTA TTA TCA TTA TTA TTC CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
41712065 CTA TTA TTA TT- TTT TTA CTA TTG TTA TTTA TTG TCA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * * * * *
41712110 TTA TGA CTA TCA TTA TTA TTA TT- TTA TTTA TTA TCA TTA TTT TTC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * * * * * *
41712155 CTA TTA TTA TTA TT- TTT TTA CTG CTA ATA TTTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* * * *** * *
41712200 TTA CTA TTA -TA TT- TTA TTA CTA CTA TTA CGG TTA TTA ATA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
41712246 TTA TTA TTG TTA TTA TTA TTA -TC TTA TT- TTA TTA CTA TTA TCA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
41712292 TTG TAA TTA CTA TTA CTA TT- GTA TTA TTA CTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
41712331 ATTTTCATCT
Statistics
Matches: 353, Mismatches: 110, Indels: 52
0.69 0.21 0.10
Matches are distributed among these distances:
2 31 0.09
3 299 0.85
4 23 0.07
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:41712186 original size:93 final size:93
Alignment explanation
Indices: 41712028--41712202 Score: 278
Period size: 93 Copynumber: 1.9 Consensus size: 93
41712018 CTTTTTTACT
* **
41712028 ATTATTATTATTTTATTTATTATCATTATTATTCCTACTATTATTATTTTTTTACTATTGTTATT
1 ATTATTATTATTTTATTTATTATCATTATTATTCCTACTATTATTATTTTTTTACTACTAATATT
*
41712093 TATTGTCATTATCATTATTATGACTATC
66 TATTATCATTATCATTATTATGACTATC
* * *
41712121 ATTATTATTATTTTATTTATTATCATTATTTTTCCTATTATTATTATTTTTTTACTGCTAATATT
1 ATTATTATTATTTTATTTATTATCATTATTATTCCTACTATTATTATTTTTTTACTACTAATATT
*
41712186 TATTATCATTATTATTA
66 TATTATCATTATCATTA
41712203 CTATTATATT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (93 bp):
ATTATTATTATTTTATTTATTATCATTATTATTCCTACTATTATTATTTTTTTACTACTAATATT
TATTATCATTATCATTATTATGACTATC
Found at i:41712345 original size:17 final size:18
Alignment explanation
Indices: 41712321--41712409 Score: 62
Period size: 17 Copynumber: 4.8 Consensus size: 18
41712311 TGTATTATTA
41712321 CTATTATTATATTTTCAT
1 CTATTATTATATTTTCAT
*
41712339 CTA-TATT-TATTTTTTATT
1 CTATTATTATA-TTTTCA-T
*
41712357 ACTTATCTATTTATATTTCTTAT
1 -C-TAT-TA-TTATATTT-TCAT
41712380 CTA-T-TTATATTTTCAT
1 CTATTATTATATTTTCAT
41712396 -TATTATTATATTTT
1 CTATTATTATATTTT
41712410 AGGTATTATA
Statistics
Matches: 58, Mismatches: 2, Indels: 23
0.70 0.02 0.28
Matches are distributed among these distances:
15 2 0.03
16 6 0.10
17 26 0.45
18 4 0.07
19 2 0.03
20 2 0.03
21 2 0.03
22 3 0.05
23 6 0.10
24 5 0.09
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (18 bp):
CTATTATTATATTTTCAT
Found at i:41712416 original size:26 final size:26
Alignment explanation
Indices: 41712387--41712483 Score: 64
Period size: 25 Copynumber: 3.7 Consensus size: 26
41712377 TATCTATTTA
41712387 TATTTTCATTATTATTATATTTTAGG
1 TATTTTCATTATTATTATATTTTAGG
*
41712413 TATTAT-ATCTA-TATT-TATATTTAGG
1 TATTTTCAT-TATTATTATAT-TTTAGG
41712438 TATTAATATCATTATT-TTACTATTGTTA--
1 TATT--T-TCATTATTATTA-TATT-TTAGG
41712466 TATTTTTCA-TATTATTAT
1 TA-TTTTCATTATTATTAT
41712484 TATCATCACT
Statistics
Matches: 57, Mismatches: 2, Indels: 25
0.68 0.02 0.30
Matches are distributed among these distances:
24 3 0.05
25 21 0.37
26 13 0.23
27 1 0.02
28 7 0.12
29 6 0.11
30 6 0.11
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (26 bp):
TATTTTCATTATTATTATATTTTAGG
Found at i:41718747 original size:49 final size:49
Alignment explanation
Indices: 41718691--41719295 Score: 955
Period size: 49 Copynumber: 12.6 Consensus size: 49
41718681 TATTTGAATA
*
41718691 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
41718740 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
41718789 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
41718838 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
41718885 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
41718934 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
41718983 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
41719030 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
41719079 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
41719128 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
41719175 AATGTGAAAGTG--TATATATGTGATAAGGCCTAGTGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
41719222 AATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
41719269 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
41719296 TCCCGAAGGG
Statistics
Matches: 528, Mismatches: 22, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
47 231 0.44
48 1 0.00
49 296 0.56
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:41718881 original size:96 final size:97
Alignment explanation
Indices: 41718691--41719295 Score: 967
Period size: 96 Copynumber: 6.3 Consensus size: 97
41718681 TATTTGAATA
41718691 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG-ATA
41718756 TATATGTGATAAGGCCGAATGGCCAATGTGATG
65 TATATGTGATAAGGCCGAATGGCCAATGTGATG
*
41718789 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TAT
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGATAT
*
41718853 ATATGTGATAAGGCCGAATGGCCGATGTGATG
66 ATATGTGATAAGGCCGAATGGCCAATGTGATG
*
41718885 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG-ATA
* *
41718950 TATATGTGATAAGGCCTAATGGCCGATGTGATG
65 TATATGTGATAAGGCCGAATGGCCAATGTGATG
*
41718983 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG-ATA
41719046 TATATGTGATAAGGCCGAATGGCCAATGTGATG
65 TATATGTGATAAGGCCGAATGGCCAATGTGATG
*
41719079 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TAT
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGATAT
* * *
41719143 ATATGTGATAAGGCCTAATAGCCGATGTGATG
66 ATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
41719175 AATGTGAAAGTG--TATATATGTGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTG-TAT
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGATAT
* * * *
41719237 ATATGTGACAGGGCCGAGTGGCCAACGTGATG
66 ATATGTGATAAGGCCGAATGGCCAATGTGATG
*
41719269 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
41719296 TCCCGAAGGG
Statistics
Matches: 480, Mismatches: 21, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
94 95 0.20
95 1 0.00
96 233 0.49
98 151 0.31
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (97 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGATAT
ATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:41718881 original size:145 final size:145
Alignment explanation
Indices: 41718691--41719295 Score: 1020
Period size: 145 Copynumber: 4.2 Consensus size: 145
41718681 TATTTGAATA
*
41718691 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
41718756 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
64 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
41718821 TAATGGCCGATGTGATG
129 TAATGGCCGATGTGATG
*
41718838 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
41718903 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
66 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
41718968 ATGGCCGATGTGATG
131 ATGGCCGATGTGATG
41718983 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
41719048 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
66 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
41719113 ATGGCCGATGTGATG
131 ATGGCCGATGTGATG
* * *
41719128 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* * * * * *
41719191 TATGTGATAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGA
66 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
* * *
41719254 GTGGCCAACGTGATG
131 ATGGCCGATGTGATG
* *
41719269 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
41719296 TCCCGAAGGG
Statistics
Matches: 441, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
141 54 0.12
143 44 0.10
145 331 0.75
147 12 0.03
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (145 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
ATGGCCGATGTGATG
Found at i:41721492 original size:38 final size:38
Alignment explanation
Indices: 41721428--41721502 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
41721418 AATCCGAGTT
*
41721428 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
41721466 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
41721503 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:41721620 original size:40 final size:40
Alignment explanation
Indices: 41721556--41721796 Score: 331
Period size: 40 Copynumber: 6.0 Consensus size: 40
41721546 AGGTCTCGAC
* *
41721556 GATG-ATCCAGGCTAAGTACCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
41721595 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
41721635 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
*
41721675 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
* ** *** * *
41721715 GATATATCCATGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
* * * * *
41721755 GATATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
41721795 GA
1 GA
41721797 CGTGTATTCG
Statistics
Matches: 184, Mismatches: 17, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
39 4 0.02
40 180 0.98
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
Found at i:41725277 original size:49 final size:49
Alignment explanation
Indices: 41725221--41725727 Score: 804
Period size: 47 Copynumber: 10.6 Consensus size: 49
41725211 TATTTGAATA
*
41725221 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
41725270 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
41725319 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
41725366 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
41725413 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
41725462 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
41725511 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
41725560 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
41725607 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
41725654 AATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
41725701 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
41725728 TCCCGAAGGG
Statistics
Matches: 436, Mismatches: 18, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
47 231 0.53
48 1 0.00
49 204 0.47
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:41725644 original size:241 final size:239
Alignment explanation
Indices: 41725221--41725727 Score: 892
Period size: 241 Copynumber: 2.1 Consensus size: 239
41725211 TATTTGAATA
41725221 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
41725286 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
66 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
*
41725351 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAAT
131 ATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAAT
* *
41725416 GTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
196 GTGAAAGTG--TATATATGTGACAAGGCCGAATGGCCAACGTGATG
*
41725462 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
* *
41725527 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
66 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
*
41725592 ATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
131 ATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAAT
* *
41725657 GTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
196 GTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
*
41725701 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
41725728 TCCCGAAGGG
Statistics
Matches: 256, Mismatches: 10, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
237 10 0.04
238 1 0.00
239 46 0.18
241 199 0.78
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (239 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
ATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAAT
GTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
Found at i:41730088 original size:64 final size:64
Alignment explanation
Indices: 41730019--41730139 Score: 224
Period size: 64 Copynumber: 1.9 Consensus size: 64
41730009 TAACACATCT
41730019 AGTTAGGAGAATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAAGCATCACATTC
1 AGTTAGGAGAATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAAGCATCACATTC
* *
41730083 AGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTATTTATTTGGCATAAGCAT
1 AGTTAGGAGAATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAAGCAT
41730140 AGATACATGA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (64 bp):
AGTTAGGAGAATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAAGCATCACATTC
Found at i:41730258 original size:44 final size:43
Alignment explanation
Indices: 41730210--41730818 Score: 289
Period size: 44 Copynumber: 13.8 Consensus size: 43
41730200 AATTCACAGC
* *
41730210 CTTATC-TCTCTAAGGTAGCAAGAGAGCAGGTTAAAGATTGAAGT
1 CTTATCTTC-CTAAGGTAGCAAG-GAGCAGATTGAAGATTGAAGT
* * *
41730254 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGGATTGAAGAT
1 CTTATCTTCCTAAGGTAGCAAGG-AGCAGATTGAAGATTGAAG-T
* * * * *
41730299 CTTATCTCCCTAAGCAGTAG--TGGAGCTA-ATCGAAGATGGCAAAT
1 CTTATCTTCCTAAG--GTAGCAAGGAGC-AGATTGAAGATTG-AAGT
** *
41730343 CTTATCTTCCCGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGT
1 CTTATCTTCCTAAGGTAGCAAG-GAGCAGATTGAAGATTGAAGT
* *
41730387 CTTATCTTCCTTAGGTAGCAAGGAAGCAGACT-AAGGATTGAAGAT
1 CTTATCTTCCTAAGGTAGCAAGG-AGCAGATTGAA-GATTGAAG-T
* * * *
41730432 CTTATCTCCCTAAGCAGTAG--TGGAGAAGATTGAAGATGGCGAA-T
1 CTTATCTTCCTAAG--GTAGCAAGGAGCAGATTGAAGAT--TGAAGT
** * ** **
41730476 CTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCA--CCAGT
1 CTTATCTTCCTAAGGTAGCA-AGGAGCAGATTGAAG-ATTGAAGT
* *
41730519 CTTATC-TCCTAAGGTAGCAAAAGAGCAGGTTGAAGATTGAAGT
1 CTTATCTTCCTAAGGTAGC-AAGGAGCAGATTGAAGATTGAAGT
* * *
41730562 CTTATCTTCCTGAGGTAGCAATGAAGCAGACTGAAGATTGAAGAT
1 CTTATCTTCCTAAGGTAGCAA-GGAGCAGATTGAAGATTGAAG-T
* ** * * * *
41730607 CTTATCTCCCTAAACAATAG--TGGAGCAGATCGAAGATGGCAAAT
1 CTTATCTTCCT-AA-GGTAGCAAGGAGCAGATTGAAGATTG-AAGT
* * * ** ***** *
41730651 CTTATCTT-CTGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGC
1 CTTATCTTCCTAAGGTAGCA-AGGAGCAGATTGAAGATTGAAGT
* * *
41730694 CTTATC-TCTCTGAGGTAGCAAGAGAGCAGGTTGAAGACTGAAGT
1 CTTATCTTC-CTAAGGTAGCAAG-GAGCAGATTGAAGATTGAAGT
* * * *
41730738 CTTATCTTCCTGAGGTAGCAAGGAAGTAGGTT-AATGATTGTAGAT
1 CTTATCTTCCTAAGGTAGCAAGG-AGCAGATTGAA-GATTGAAG-T
* * *
41730783 CTTATCTCCCTAA-GTAGTATTGGAGCAGATTGAAGA
1 CTTATCTTCCTAAGGTAGCA-AGGAGCAGATTGAAGA
41730819 CGACGAATCT
Statistics
Matches: 421, Mismatches: 99, Indels: 90
0.69 0.16 0.15
Matches are distributed among these distances:
41 4 0.01
42 31 0.07
43 36 0.09
44 243 0.58
45 91 0.22
46 5 0.01
47 11 0.03
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (43 bp):
CTTATCTTCCTAAGGTAGCAAGGAGCAGATTGAAGATTGAAGT
Found at i:41730403 original size:133 final size:133
Alignment explanation
Indices: 41730222--41730504 Score: 478
Period size: 133 Copynumber: 2.1 Consensus size: 133
41730212 TATCTCTCTA
*
41730222 AGGTAGCAAGAGAGCAGGTTAAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTG
1 AGGTAGCAAGAGAGCAGGTTAAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
*
41730287 AGGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCTA-ATCGAAGATGGCAAATCTTATCTT
66 AGGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAG-AAGATCGAAGATGGCAAATCTTATCTT
41730351 CCCG
130 CCCG
* *
41730355 AGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTTAGGTAGCAAGGAAGCAGACTA
1 AGGTAGCAAGAGAGCAGGTTAAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
* *
41730420 AGGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATTGAAGATGGCGAATCTTATCTTC
66 AGGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGATGGCAAATCTTATCTTC
41730485 CCG
131 CCG
* *
41730488 AGGTAGCAGGGGAGCAG
1 AGGTAGCAAGAGAGCAG
41730505 ATTTTAGCAC
Statistics
Matches: 141, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
132 1 0.01
133 140 0.99
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.24
Consensus pattern (133 bp):
AGGTAGCAAGAGAGCAGGTTAAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
AGGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGATGGCAAATCTTATCTTC
CCG
Found at i:41730564 original size:175 final size:175
Alignment explanation
Indices: 41730355--41730829 Score: 711
Period size: 175 Copynumber: 2.7 Consensus size: 175
41730345 TATCTTCCCG
*
41730355 AGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTTAGGTAGCAAGGAAGCAGACTA
1 AGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
*
41730420 AGGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATTGAAGATGGCGAATCTTATCTTC
66 A-GATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCGAATCTTATCTT-
* *
41730485 CCGAGGTAGCAGGGGAGCAGATTTTAG-CACCAGTCTTATCTC-CTA
129 CCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
* *
41730530 AGGTAGCAAAAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCAATGAAGCAGACTG
1 AGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT-
* * * *
41730595 AAGATTGAAGATCTTATCTCCCTAAACAATAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTC
65 AAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCGAATCTTATCTTC
* *
41730660 TGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTG
130 CGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
* * **
41730706 AGGTAGCAAGAGAGCAGGTTGAAGACTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGGTTA
1 AGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
* * * * *
41730771 ATGATTGTAGATCTTATCTCCCTAAGTAGTATTGGAGCAGATTGAAGACGACGAATCTT
66 A-GATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCGAATCTT
41730830 GTCTCCCTAA
Statistics
Matches: 269, Mismatches: 27, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
174 25 0.09
175 134 0.50
176 110 0.41
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (175 bp):
AGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
AGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCGAATCTTATCTTCC
GAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
Found at i:41730844 original size:44 final size:43
Alignment explanation
Indices: 41730781--41731336 Score: 388
Period size: 44 Copynumber: 12.9 Consensus size: 43
41730771 ATGATTGTAG
* * *
41730781 ATCTTATCTCCCTAAGTAGTATTGGAGCAGATTGAAGACGACGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGAC-A
* * * *
41730825 ATCTTGTCTCCCTAAGTAGTAGTGGAGCT--ATTTAAGAC-ACC
1 ATCTTATCTCCCTAAGCAGTAGTGGAG-TAGATTGAAGACGACA
* * * ** * *
41730866 ATCCTATCTCCCTAAGCAGTAGTGAAGAAGGCT-ATAGACTATA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGA-AGACGACA
* * * * * *
41730909 GATCTTATCTCCCTAAGCTGTAGTGGAATAGATCGAATATGGAAA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGA-CGACA
* * * * * *
41730954 ATCTTGTCTCCCTAAGAAGTAGTGGAGTATATTTAAG-CCACC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGACA
* * ** ** *
41730996 ATCCTATCTCCCTAAGCAATAGTGGAGTAGGCTGAAGATTATA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGACA
* * *
41731039 GATCTTTTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGAC-A
* * * * * *
41731084 ATCTTGTCTCCTTAAGCAGTAGTGGAGCAGATTTAAG-CCACC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGACA
* ** **
41731126 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGACA
* * * * *
41731169 GATCTTATTTCTCTAAGTAGTAGTGGAGTAGATCGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGAC-A
* * * * *
41731214 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAG-CCACC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGACA
* ** * **
41731256 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTACA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGACA
* *
41731299 GATCTTATCTCCCTAAGCAGTAGTGGAGCAAATTGAAG
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAG
41731337 TTACGAATCT
Statistics
Matches: 383, Mismatches: 113, Indels: 32
0.73 0.21 0.06
Matches are distributed among these distances:
41 24 0.06
42 98 0.26
43 18 0.05
44 238 0.62
45 5 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (43 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGACA
Found at i:41731040 original size:130 final size:130
Alignment explanation
Indices: 41730779--41731326 Score: 812
Period size: 130 Copynumber: 4.2 Consensus size: 130
41730769 TAATGATTGT
* * * * * *
41730779 AGATCTTATCTCCCTAAGTAGTATTGGAGCAGATTGAAGACGACGAATCTTGTCTCCCTAAGTAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAG
* * * * *
41730844 TAGTGGAGC-TATTTAAGACACCATCCTATCTCCCTAAGCAGTAGTGAAGAAGGCT-ATAGACTA
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGA-AGATTA
*
41730907 T
130 C
* * * * ** *
41730908 AGATCTTATCTCCCTAAGCTGTAGTGGAATAGATCGAATATGGAAAATCTTGTCTCCCTAAGAAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAG
* * * *
41730973 TAGTGGAGTATATTTAAGCCACCATCCTATCTCCCTAAGCAATAGTGGAGTAGGCTGAAGATTAT
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTAC
* *
41731038 AGATCTTTTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGAATCTTGTCTCCTTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAG
41731103 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTAC
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTAC
* * *
41731168 AGATCTTATTTCTCTAAGTAGTAGTGGAGTAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAG
*
41731233 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTAC
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTAC
41731298 AGATCTTATCTCCCTAAGCAGTAGTGGAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAG
41731327 CAAATTGAAG
Statistics
Matches: 377, Mismatches: 40, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
129 61 0.16
130 315 0.84
131 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (130 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGAATCTTGTCTCCCTAAGCAG
TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTAC
Found at i:41731044 original size:86 final size:87
Alignment explanation
Indices: 41730779--41731336 Score: 325
Period size: 86 Copynumber: 6.4 Consensus size: 87
41730769 TAATGATTGT
* * * * * * *
41730779 AGATCTTATCTCCCTAAGTAGTATTGGAGCAGATTGAAGACGACGA-ATCTTGTCTCCCTAAGTA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACCAC-ACATCCTATCTCCCTAAGCA
* *
41730843 GTAGTGGAGCTA--TTTAAGA-CA
65 GTAGTGGAG-TAGGCTGAAGATCA
** * * * ** * * * * *
41730864 CCATCCTATCTCCCTAAGCAGTAGTGAAGAAGGCT-ATAGACTATAGATCTTATCTCCCTAAGCT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGA-AGACCACACATCCTATCTCCCTAAGCA
* * * *
41730928 GTAGTGGAATA-GATCGAATATGGA
65 GTAGTGGAGTAGGCT-GAAGAT-CA
* * * * * *
41730952 AAATCTTGTCTCCCTAAGAAGTAGTGGAGTATATTTAAG-CCAC-CATCCTATCTCCCTAAGCAA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACCACACATCCTATCTCCCTAAGCAG
*
41731015 TAGTGGAGTAGGCTGAAGATTA
66 TAGTGGAGTAGGCTGAAGATCA
* * ** * * *
41731037 TAGATCTTTTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGA-ATCTTGTCTCCTTAAGC
1 -AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACCAC-ACATCCTATCTCCCTAAGC
* ** * *
41731101 AGTAGTGGAGCAGATTTAAG-CCA
64 AGTAGTGGAGTAGGCTGAAGATCA
** * ** ** * * * * *
41731124 CCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTATTTCTCTAAGTAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACCACACATCCTATCTCCCTAAGCAG
* *
41731189 TAGTGGAGTA-GATCGAAGA-CGG
66 TAGTGGAGTAGGCT-GAAGATC-A
* * * *
41731211 CGAATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAG-CCAC-CATCCTATCTCCCTAAGCA
1 AG-ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACCACACATCCTATCTCCCTAAGCA
* *
41731274 GTAGTGGAGTAGGCTAAAGATTA
65 GTAGTGGAGTAGGCTGAAGATCA
* *
41731297 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATTGAAG
1 -AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAG
41731337 TTACGAATCT
Statistics
Matches: 354, Mismatches: 99, Indels: 39
0.72 0.20 0.08
Matches are distributed among these distances:
84 4 0.01
85 58 0.16
86 190 0.54
87 13 0.04
88 88 0.25
89 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (87 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACCACACATCCTATCTCCCTAAGCAG
TAGTGGAGTAGGCTGAAGATCA
Found at i:41731764 original size:44 final size:45
Alignment explanation
Indices: 41731660--41731948 Score: 143
Period size: 44 Copynumber: 6.4 Consensus size: 45
41731650 GTTCAAGTCT
* * *
41731660 TATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGACAACTAATCC
1 TATCTCTCTGAAGTTGCAGTGGAGCAGACTAAAGACAACTAATCC
* * *
41731705 TATCTCTATGAAGTTGTAGTGGAGCAGATTAAAG-CAAC-AATCCC
1 TATCTCTCTGAAGTTGCAGTGGAGCAGACTAAAGACAACTAAT-CC
* * *
41731749 TATAC-CTCTGAAGTTGCAGTAGG-TCGGA-TAAA-ATCTACCACTACAAGTCT
1 TAT-CTCTCTGAAGTTGCAGT-GGAGCAGACTAAAGA-C-A--ACT--AA-TCC
* * * * * * * *
41731799 TATCTCCCTGAAGATACAGTAGAGCAGACTGAAGA-TACCAATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGACTAAAGACAACTAATCC
* * * * * *
41731843 TATCTCCCTGAAGTTACAGCGGAGCAGATTGAAG-CTACTAATCC
1 TATCTCTCTGAAGTTGCAGTGGAGCAGACTAAAGACAACTAATCC
* * *
41731887 TATCTC-CATGAAGTTGCAGTAGAGTAGATTAAA-ACAAC-AAGTCC
1 TATCTCTC-TGAAGTTGCAGTGGAGCAGACTAAAGACAACTAA-TCC
41731931 TATAC-CTCTGAAGTTGCA
1 TAT-CTCTCTGAAGTTGCA
41731949 TGAAGTGGAT
Statistics
Matches: 190, Mismatches: 32, Indels: 45
0.71 0.12 0.17
Matches are distributed among these distances:
43 10 0.05
44 112 0.59
45 36 0.19
47 4 0.02
49 2 0.01
50 21 0.11
51 4 0.02
52 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.26
Consensus pattern (45 bp):
TATCTCTCTGAAGTTGCAGTGGAGCAGACTAAAGACAACTAATCC
Found at i:41731887 original size:182 final size:182
Alignment explanation
Indices: 41731616--41731948 Score: 494
Period size: 182 Copynumber: 1.8 Consensus size: 182
41731606 ATAGTAAACT
** * *
41731616 TTATCTCCCTGAAGTAGCAGTAGAACAGGTTGAAGTTCAAGTCTTATCTCCCTGAAGTTACAGTG
1 TTATCTCCCTGAAGTAGCAGTAGAACAGACTGAAGTCCAAGTCTTATCTCCCTGAAGTTACAGCG
* * * *
41731681 GAGCAGACTGAAGACAACTAATCCTATCTCTATGAAGTTGTAGTGGAGCAGATTAAAGCAACAA-
66 GAGCAGACTGAAGACAACTAATCCTATCTCCATGAAGTTGCAGTAGAGCAGATTAAAACAACAAG
41731745 TCCCTATACCTCTGAAGTTGCAGTAGGTCGGATAAAATCTACCACTACAAGTC
131 T-CCTATACCTCTGAAGTTGCAGTAGGTCGGATAAAATCTACCACTACAAGTC
*
41731798 TTATCTCCCTGAAGATA-CAGTAGAGCAGACTGAAGATACCAA-TCTTATCTCCCTGAAGTTACA
1 TTATCTCCCTGAAG-TAGCAGTAGAACAGACTGAAG-T-CCAAGTCTTATCTCCCTGAAGTTACA
* * *
41731861 GCGGAGCAGATTGAAG-CTACTAATCCTATCTCCATGAAGTTGCAGTAGAGTAGATTAAAACAAC
63 GCGGAGCAGACTGAAGACAACTAATCCTATCTCCATGAAGTTGCAGTAGAGCAGATTAAAACAAC
41731925 AAGTCCTATACCTCTGAAGTTGCA
128 AAGTCCTATACCTCTGAAGTTGCA
41731949 TGAAGTGGAT
Statistics
Matches: 135, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
182 93 0.69
183 39 0.29
184 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (182 bp):
TTATCTCCCTGAAGTAGCAGTAGAACAGACTGAAGTCCAAGTCTTATCTCCCTGAAGTTACAGCG
GAGCAGACTGAAGACAACTAATCCTATCTCCATGAAGTTGCAGTAGAGCAGATTAAAACAACAAG
TCCTATACCTCTGAAGTTGCAGTAGGTCGGATAAAATCTACCACTACAAGTC
Found at i:41731906 original size:138 final size:139
Alignment explanation
Indices: 41731653--41731908 Score: 349
Period size: 138 Copynumber: 1.8 Consensus size: 139
41731643 GGTTGAAGTT
* * * *
41731653 CAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGACAACTAATCCTATCTCTATGAAG
1 CAAGTCTTATCTCCCTGAAGATACAGTAGAGCAGACTGAAGACAACCAATCCTATCTCCATGAAG
** *
41731718 TTGTAGTGGAGCAGATTAAAGCAACAATCCCTATACCTCTGAAGTTGCAGTAGGTCGGATAAAAT
66 TTACAGCGGAGCAGATTAAAGCAACAATCCCTATACCTCTGAAGTTGCAGTAGGTCGGATAAAAT
41731783 CTACCACTA
131 CTACCACTA
* * *
41731792 CAAGTCTTATCTCCCTGAAGATACAGTAGAGCAGACTGAAGA-TACCAATCTTATCTCCCTGAAG
1 CAAGTCTTATCTCCCTGAAGATACAGTAGAGCAGACTGAAGACAACCAATCCTATCTCCATGAAG
* *
41731856 TTACAGCGGAGCAGATTGAAGCTACTAAT-CCTAT--CTCCATGAAGTTGCAGTAG
66 TTACAGCGGAGCAGATTAAAGCAAC-AATCCCTATACCT-C-TGAAGTTGCAGTAG
41731909 AGTAGATTAA
Statistics
Matches: 102, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
136 2 0.02
137 1 0.01
138 56 0.55
139 43 0.42
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (139 bp):
CAAGTCTTATCTCCCTGAAGATACAGTAGAGCAGACTGAAGACAACCAATCCTATCTCCATGAAG
TTACAGCGGAGCAGATTAAAGCAACAATCCCTATACCTCTGAAGTTGCAGTAGGTCGGATAAAAT
CTACCACTA
Found at i:41732013 original size:28 final size:28
Alignment explanation
Indices: 41731954--41732013 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
41731944 TTGCATGAAG
* *
41731954 TGGATCGAAGCAACAAGACGCAGAGGAG
1 TGGATCGAAGCAACAAGACACAGAGGAC
*
41731982 TGGATCGAAGCAACAAGACACAGTGGAC
1 TGGATCGAAGCAACAAGACACAGAGGAC
41732010 TGGA
1 TGGA
41732014 ATGAGGCTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.38, C:0.18, G:0.33, T:0.10
Consensus pattern (28 bp):
TGGATCGAAGCAACAAGACACAGAGGAC
Found at i:41732183 original size:11 final size:11
Alignment explanation
Indices: 41732164--41732210 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
41732154 GGTCCAGGCT
41732164 AAAACAAACCC
1 AAAACAAACCC
*
41732175 AATACAAACCC
1 AAAACAAACCC
*
41732186 AAAACCAACCC
1 AAAACAAACCC
*
41732197 AAACCTAAACCC
1 AAAAC-AAACCC
41732209 AA
1 AA
41732211 CTATCAGCTC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 23 0.77
12 7 0.23
ACGTcount: A:0.57, C:0.38, G:0.00, T:0.04
Consensus pattern (11 bp):
AAAACAAACCC
Found at i:41733322 original size:3 final size:3
Alignment explanation
Indices: 41733314--41733618 Score: 108
Period size: 3 Copynumber: 101.7 Consensus size: 3
41733304 ATTAGTTTAT
* * *
41733314 TTA TTA TTA TT- TTA CTA TTA CTTA -TA TTTA TTA TCA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA
* * * *
41733359 CTA CTA TTA -TA TTA CTA TTA TTA TT- TTCA CTA TT- TTCA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TT-A -TTA TTA
* * * * * **
41733404 TTA CTA TTT TTA TTT TTA TTA TTTA CTA CTA TTA TTTA TTA TCG TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA TTA TTA TTA
** * * * * * * * *
41733451 TTA CCA TTA CTA TTG CTA CTA TTC TAA TTA TCT- TTT TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * * *
41733496 TTA TTA TT- TTA -TA TTA TCA TTA TTA TTC CTA CTA TTA TTA TT- TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * ** * *
41733541 TTA CTA TTA TTA TTTA TTG TCA TTA TCA TTA TTA CGA CTA TCA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
41733587 TTA TTA TT- TTA TTTA TTA TCA TTA TTA TTA TT
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT
41733619 TTTTACTGCT
Statistics
Matches: 218, Mismatches: 64, Indels: 40
0.68 0.20 0.12
Matches are distributed among these distances:
2 19 0.09
3 177 0.81
4 20 0.09
5 2 0.01
ACGTcount: A:0.28, C:0.11, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:41733366 original size:25 final size:26
Alignment explanation
Indices: 41733311--41733360 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
41733301 TTAATTAGTT
*
41733311 TATTTATTATTATTTTACTATTACTTA
1 TATTTATTATCA-TTTACTATTACTTA
41733338 TATTTATTATCA-TTACTATTACT
1 TATTTATTATCATTTACTATTACT
41733361 ACTATTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.50
27 11 0.50
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (26 bp):
TATTTATTATCATTTACTATTACTTA
Found at i:41733409 original size:19 final size:18
Alignment explanation
Indices: 41733387--41733424 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
41733377 TATTATTTTC
41733387 ACTATTTTCATTTATTATT
1 ACTATTTTCATTT-TTATT
*
41733406 ACTATTTTTATTTTTATT
1 ACTATTTTCATTTTTATT
41733424 A
1 A
41733425 TTTACTACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (18 bp):
ACTATTTTCATTTTTATT
Found at i:41733417 original size:25 final size:26
Alignment explanation
Indices: 41733389--41733452 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
41733379 TTATTTTCAC
*
41733389 TATTTTCATT-TATTATTACTATT-TT
1 TATTTTCATTAT-TTACTACTATTATT
*
41733414 TATTTTTATTATTTACTACTATTATT
1 TATTTTCATTATTTACTACTATTATT
* *
41733440 TATTATCGTTATT
1 TATTTTCATTATT
41733453 ACCATTACTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
25 19 0.59
26 13 0.41
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.66
Consensus pattern (26 bp):
TATTTTCATTATTTACTACTATTATT
Found at i:41733428 original size:13 final size:13
Alignment explanation
Indices: 41733401--41733444 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
41733391 TTTTCATTTA
41733401 TTATTACTATT-T
1 TTATTACTATTAT
**
41733413 TTATTTTTATTAT
1 TTATTACTATTAT
*
41733426 TTACTACTATTAT
1 TTATTACTATTAT
41733439 TTATTA
1 TTATTA
41733445 TCGTTATTAC
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
12 9 0.36
13 16 0.64
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (13 bp):
TTATTACTATTAT
Found at i:41733497 original size:58 final size:55
Alignment explanation
Indices: 41733430--41733551 Score: 149
Period size: 58 Copynumber: 2.2 Consensus size: 55
41733420 TATTATTTAC
*
41733430 TACTATTATTTATTATCGT-TATTACCATTACTATTGCTACTATTCTAATTATCTTTTT
1 TACTATTATTTATTATCGTATATTACCATTACTATTCCTACTA-T-T-ATTAT-TTTTT
** * *
41733488 TACTATTA-TTATTATTTTATATTATCATTATTATTCCTACTATTATTATTTTTT
1 TACTATTATTTATTATCGTATATTACCATTACTATTCCTACTATTATTATTTTTT
41733542 TACTATTATT
1 TACTATTATT
41733552 ATTTATTGTC
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
54 13 0.23
55 6 0.11
56 1 0.02
57 9 0.16
58 28 0.49
ACGTcount: A:0.27, C:0.12, G:0.02, T:0.59
Consensus pattern (55 bp):
TACTATTATTTATTATCGTATATTACCATTACTATTCCTACTATTATTATTTTTT
Found at i:41733572 original size:51 final size:52
Alignment explanation
Indices: 41733477--41733588 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 52
41733467 TACTATTCTA
* * * * *
41733477 ATTATCTTTTTTACTATTATTATTATTTTATATTATCATTATTATTCCTACTATT
1 ATTAT-TTTTTTACTATTATTATTATTGTACATTATC--TATTATTACGACTATC
41733532 ATTATTTTTTTACTATTATTATTTATTGT-CATTATC-ATTATTACGACTATC
1 ATTATTTTTTTACTATTATTA-TTATTGTACATTATCTATTATTACGACTATC
41733583 ATTATT
1 ATTATT
41733589 ATTATTTTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
51 18 0.35
54 22 0.43
55 11 0.22
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.60
Consensus pattern (52 bp):
ATTATTTTTTTACTATTATTATTATTGTACATTATCTATTATTACGACTATC
Found at i:41733739 original size:26 final size:25
Alignment explanation
Indices: 41733686--41733745 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
41733676 ACTATTATTA
* **
41733686 TATTTTTATCTATATTTATTTTTTT
1 TATTATTATCTATATTTATTTTCAT
41733711 TATTACTTATCTAT-TTATATTTTCAT
1 TATTA-TTATCTATATT-TATTTTCAT
41733737 TATTATTAT
1 TATTATTAT
41733746 ATTTTAGGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (25 bp):
TATTATTATCTATATTTATTTTCAT
Found at i:41733757 original size:26 final size:26
Alignment explanation
Indices: 41733728--41733824 Score: 64
Period size: 25 Copynumber: 3.7 Consensus size: 26
41733718 TATCTATTTA
41733728 TATTTTCATTATTATTATATTTTAGG
1 TATTTTCATTATTATTATATTTTAGG
*
41733754 TATTAT-ATCTA-TATT-TATATTTAGG
1 TATTTTCAT-TATTATTATAT-TTTAGG
41733779 TATTAATATCATTATT-TTACTATTGTTA--
1 TATT--T-TCATTATTATTA-TATT-TTAGG
41733807 TATTTTTCA-TATTATTAT
1 TA-TTTTCATTATTATTAT
41733825 TATTATCATC
Statistics
Matches: 57, Mismatches: 2, Indels: 25
0.68 0.02 0.30
Matches are distributed among these distances:
24 3 0.05
25 21 0.37
26 13 0.23
27 1 0.02
28 7 0.12
29 6 0.11
30 6 0.11
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (26 bp):
TATTTTCATTATTATTATATTTTAGG
Found at i:41738803 original size:46 final size:45
Alignment explanation
Indices: 41738736--41738910 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
41738726 TGTAACCCGC
*
41738736 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * * *
41738782 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * ***
41738828 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
*
41738875 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
41738911 ATGCTCAACC
Statistics
Matches: 101, Mismatches: 23, Indels: 10
0.75 0.17 0.07
Matches are distributed among these distances:
45 1 0.01
46 67 0.66
47 31 0.31
48 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:41738857 original size:93 final size:93
Alignment explanation
Indices: 41738744--41738914 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
41738734 GCCCATAAGT
*** * *
41738744 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41738809 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
41738837 GAACTCGGACTCAACTCAACGAGTTCAAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
41738902 CGAGTTCGGATGC
66 CGAGCTCGGATGC
41738915 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:41738930 original size:46 final size:46
Alignment explanation
Indices: 41738741--41738930 Score: 108
Period size: 46 Copynumber: 4.1 Consensus size: 46
41738731 CCCGCCCATA
* ** * *
41738741 AGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T
*
41738786 AAGTGAACTTGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CT
* * ** * * * *
41738836 --CGAACTCGGACTCAACTCAACGAGTTCAAACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTC--GGATGCTCAACCATCCT
*
41738880 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
41738926 AGTGA
1 AGTGA
41738931 CATGTCACTT
Statistics
Matches: 109, Mismatches: 20, Indels: 30
0.69 0.13 0.19
Matches are distributed among these distances:
44 9 0.08
45 1 0.01
46 61 0.56
47 27 0.25
49 4 0.04
50 6 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:41743612 original size:14 final size:15
Alignment explanation
Indices: 41743588--41743628 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
41743578 TCATTTTGTA
41743588 AATGTATTAAATATC
1 AATGTATTAAATATC
*
41743603 AATG-ATTAAATATT
1 AATGTATTAAATATC
41743617 AAT-TAATTAAAT
1 AATGT-ATTAAAT
41743629 CTATAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.41
Consensus pattern (15 bp):
AATGTATTAAATATC
Found at i:41745744 original size:32 final size:30
Alignment explanation
Indices: 41745649--41745744 Score: 81
Period size: 32 Copynumber: 3.1 Consensus size: 30
41745639 TTTAAAGGTC
*
41745649 AATTTTTTTTACCAACTTTGAAGGTGCCCAAAA
1 AATTTTTTTTACCAACTTTTAAGG-G-CC-AAA
* *
41745682 AATTTGTTTTT---AGCTTTTAAGGGCTTAAA
1 AATTT-TTTTTACCAACTTTTAAGGGC-CAAA
41745711 AATTTTCTTTTACCAACTTTTAAGGGACCAAA
1 AATTTT-TTTTACCAACTTTTAAGGG-CCAAA
41745743 AA
1 AA
41745745 AAATTTTCTC
Statistics
Matches: 51, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
28 1 0.02
29 13 0.25
30 1 0.02
31 9 0.18
32 16 0.31
33 6 0.12
34 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (30 bp):
AATTTTTTTTACCAACTTTTAAGGGCCAAA
Found at i:41752060 original size:19 final size:18
Alignment explanation
Indices: 41752033--41752071 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
41752023 AATTCCCTCA
*
41752033 TTCTCATTTTTCTTTTATT
1 TTCTCA-TTTTATTTTATT
*
41752052 TTCTTATTTTATTTTATT
1 TTCTCATTTTATTTTATT
41752070 TT
1 TT
41752072 TTGTTTTGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (18 bp):
TTCTCATTTTATTTTATT
Found at i:41752933 original size:20 final size:20
Alignment explanation
Indices: 41752908--41752945 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
41752898 CATATCCAAC
41752908 AAAAGAAAA-ATAAAAAGAAA
1 AAAAGAAAAGA-AAAAAGAAA
41752928 AAAAGAAAAGAAAAAAGA
1 AAAAGAAAAGAAAAAAGA
41752946 TAGAGGTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (20 bp):
AAAAGAAAAGAAAAAAGAAA
Found at i:41752936 original size:14 final size:13
Alignment explanation
Indices: 41752908--41752943 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
41752898 CATATCCAAC
*
41752908 AAAAGAAAAATA-
1 AAAAGAAAAAAAG
41752920 AAAAGAAAAAAAG
1 AAAAGAAAAAAAG
41752933 AAAAGAAAAAA
1 AAAAGAAAAAA
41752944 GATAGAGGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (13 bp):
AAAAGAAAAAAAG
Found at i:41753961 original size:38 final size:38
Alignment explanation
Indices: 41753918--41754008 Score: 164
Period size: 38 Copynumber: 2.3 Consensus size: 38
41753908 GTAATTAAGG
41753918 TTTAAATAAACTAAAACATAACTAAATTAAATTAATTA
1 TTTAAATAAACTAAAACATAACTAAATTAAATTAATTA
41753956 TTTAAATAAACTAAAACATAACTAAATTAAATTAATTA
1 TTTAAATAAACTAAAACATAACTAAATTAAATTAATTA
41753994 TCTTATAATAAACTA
1 T-TTA-AATAAACTA
41754009 TATATATGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
38 39 0.76
39 3 0.06
40 9 0.18
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (38 bp):
TTTAAATAAACTAAAACATAACTAAATTAAATTAATTA
Found at i:41757200 original size:21 final size:20
Alignment explanation
Indices: 41757159--41757202 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
41757149 CTTTACTACG
* * *
41757159 ACACTATTCCTTTGGAGCAT
1 ACACTATGCCCTTGCAGCAT
41757179 ACACTATGCCCTTGCAGCCAT
1 ACACTATGCCCTTGCAG-CAT
41757200 ACA
1 ACA
41757203 GACAACCTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (20 bp):
ACACTATGCCCTTGCAGCAT
Found at i:41760697 original size:27 final size:27
Alignment explanation
Indices: 41760639--41760904 Score: 80
Period size: 27 Copynumber: 9.9 Consensus size: 27
41760629 TTAGTTTACC
* *
41760639 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGACTTATA
* *
41760666 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGACTTATA
* * **** * *
41760693 GAATTATCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGACTTATA
*** * *
41760720 AAATTACCATTTTACCCTC-AGTTTACA
1 AAATTACCAAAATACCCTCGA-CTTATA
**** * *
41760747 AAATTACCGTTTTACCCTCGA-TTGTG
1 AAATTACCAAAATACCCTCGACTTATA
** * **
41760773 AAATTACTGAAATACCCTTGTA-GGATA
1 AAATTACCAAAATACCCTCG-ACTTATA
* *
41760800 GAATTACCAAAATACCACT-G-GTT-TGA
1 AAATTACCAAAATACC-CTCGACTTAT-A
* * * *
41760826 GAAATTACCGAAATACCCTCAATTTGTA
1 -AAATTACCAAAATACCCTCGACTTATA
* *
41760854 AAATTACCAAAATACCC-CTGATTTACA
1 AAATTACCAAAATACCCTC-GACTTATA
*
41760881 AAATTA-CAGAAATACCCTTGACTT
1 AAATTACCA-AAATACCCTCGACTT
41760905 TTTTTAAAAA
Statistics
Matches: 184, Mismatches: 42, Indels: 26
0.73 0.17 0.10
Matches are distributed among these distances:
25 1 0.01
26 24 0.13
27 152 0.83
28 6 0.03
29 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGACTTATA
Found at i:41760723 original size:54 final size:54
Alignment explanation
Indices: 41760651--41760769 Score: 141
Period size: 54 Copynumber: 2.2 Consensus size: 54
41760641 ATTACTAAAA
* ** * * *
41760651 TACCCTCGACTTGTAAAATTACCAAAGTACCCTC-GATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCAAAGTACCCTCAG-TTTACAAAATTACCGTTT
***
41760705 TACCCTCGATTTACAAAATTACCATTTTACCCTCAGTTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCAAAGTACCCTCAGTTTACAAAATTACCGTTT
41760759 TACCCTCGATT
1 TACCCTCGATT
41760770 GTGAAATTAC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 54 0.98
55 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.36
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCAAAGTACCCTCAGTTTACAAAATTACCGTTT
Found at i:41760963 original size:27 final size:28
Alignment explanation
Indices: 41760907--41760963 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 28
41760897 CTTGACTTTT
* * * *
41760907 TTTAAAAAATTA-TAGGAATACCATTGG
1 TTTACAAAATTACTAGAAATACCCTTAG
41760934 TTTACAAAATTACTA-AAATACCCTTAG
1 TTTACAAAATTACTAGAAATACCCTTAG
41760961 TTT
1 TTT
41760964 TTAGATTTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 23 0.92
28 2 0.08
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (28 bp):
TTTACAAAATTACTAGAAATACCCTTAG
Found at i:41761958 original size:25 final size:25
Alignment explanation
Indices: 41761891--41761960 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
41761881 AGGAAGTGCT
* *
41761891 AAAAGGGCTCTGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
41761916 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
41761941 GAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
41761961 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:41762167 original size:42 final size:42
Alignment explanation
Indices: 41762108--41762197 Score: 171
Period size: 42 Copynumber: 2.1 Consensus size: 42
41762098 TAGTCTCCCC
*
41762108 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
41762150 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
41762192 AAATGG
1 AAATGG
41762198 ACCTAAGGGC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:41765736 original size:8 final size:9
Alignment explanation
Indices: 41765709--41765739 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
41765699 GTCATTTTGG
41765709 TGATAGTTTT
1 TGAT-GTTTT
41765719 TGATGTTTT
1 TGATGTTTT
41765728 TGATGTTTT
1 TGATGTTTT
41765737 TGA
1 TGA
41765740 GATCCTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 17 0.81
10 4 0.19
ACGTcount: A:0.16, C:0.00, G:0.23, T:0.61
Consensus pattern (9 bp):
TGATGTTTT
Found at i:41766583 original size:49 final size:50
Alignment explanation
Indices: 41766518--41766711 Score: 241
Period size: 49 Copynumber: 3.9 Consensus size: 50
41766508 TATGGCGTTG
*
41766518 ATATGAGATCCCATGTAAGGCCATGTCTGGGACATGGCATTGGCATCGAA
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAA
* *
41766568 ATATGAGA-CCCATGTAAGACCATTTCTGGGACATGGCATTGGCATCGAC
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAA
* * * *
41766617 ATATGAGATCCCATGTAAGACCATGTTTAGGACATGGCATTAGCATTG-A
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAA
* * * * * **
41766666 GT-GGTGATCCCATGTAAGACCATATCTGGGATATGGTGTTGGCATC
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
41766712 TTATTATGTG
Statistics
Matches: 123, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
48 34 0.28
49 47 0.38
50 42 0.34
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (50 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAA
Found at i:41768327 original size:13 final size:13
Alignment explanation
Indices: 41768309--41768334 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41768299 TTATTAAAAG
41768309 TTTAATTCAAACA
1 TTTAATTCAAACA
41768322 TTTAATTCAAACA
1 TTTAATTCAAACA
41768335 CTAAGGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTAATTCAAACA
Found at i:41783971 original size:40 final size:39
Alignment explanation
Indices: 41783887--41784071 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 39
41783877 TTGAATGATG
* *
41783887 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-AAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
41783926 ATCCGGACTAAGATCCAAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAT
*
41783967 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACT-AAT
*
41784007 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT
* *
41784045 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGT-CCGAAGGCATTTG
41784072 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.24
40 81 0.65
41 11 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:41784030 original size:79 final size:81
Alignment explanation
Indices: 41783887--41784071 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
41783877 TTGAATGATG
41783887 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACAATATCCGGACTAAGATCCAAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCAAAGGCATT
41783951 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * ** *
41783966 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATTCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCAAAGGC
*
41784027 ATTTGTGCGAGTTACTATA
63 ATTTGTGCGAGATACTATA
* *
41784046 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41784072 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 1 0.01
79 55 0.60
80 35 0.38
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCAAAGGCATT
TGTGCGAGATACTATA
Found at i:41784093 original size:79 final size:79
Alignment explanation
Indices: 41783943--41784104 Score: 186
Period size: 79 Copynumber: 2.1 Consensus size: 79
41783933 CTAAGATCCA
* ** *
41783943 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATT
1 AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATT
* *
41784008 CGGGTTAAGTCCCG
66 CCGGTTAAATCCCG
* * *
41784022 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTAT
1 AAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAA
*
41784085 A-TCCGGTTAAATTCCG
63 ATTCCGGTTAAATCCCG
41784101 AAGG
1 AAGG
41784105 TAAGTGATTT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.66
80 22 0.31
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATT
CCGGTTAAATCCCG
Found at i:41793941 original size:13 final size:13
Alignment explanation
Indices: 41793923--41793948 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41793913 TTGTTCACCA
41793923 AAGCATCATCAAT
1 AAGCATCATCAAT
41793936 AAGCATCATCAAT
1 AAGCATCATCAAT
41793949 TCCAAATTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
AAGCATCATCAAT
Found at i:41797515 original size:30 final size:30
Alignment explanation
Indices: 41797481--41797546 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
41797471 TAATAAATAA
*
41797481 AATAAAGCATAATTTAAGGTGATAAAAATT
1 AATAAAGCATAAATTAAGGTGATAAAAATT
*
41797511 AATAAAGCATAAATTAAGGTGATAAAATTT
1 AATAAAGCATAAATTAAGGTGATAAAAATT
41797541 AATAAA
1 AATAAA
41797547 TAAAATAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (30 bp):
AATAAAGCATAAATTAAGGTGATAAAAATT
Found at i:41798599 original size:38 final size:38
Alignment explanation
Indices: 41798519--41798602 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 38
41798509 GACTACGAGT
* *
41798519 CGATGAGGTACTGAGTGCCAAATTTACTTCGGCATTGTC
1 CGATGAGGCACTGAGTGCCAAATTTACTTCGG-ATTATC
* * *
41798558 CGATGAGGCACTGGGTGCCAATTTTACTTTGG-TTATAC
1 CGATGAGGCACTGAGTGCCAAATTTACTTCGGATTAT-C
41798596 CGATGAG
1 CGATGAG
41798603 TGTTGGGTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
37 3 0.08
38 8 0.21
39 28 0.72
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (38 bp):
CGATGAGGCACTGAGTGCCAAATTTACTTCGGATTATC
Found at i:41804550 original size:20 final size:21
Alignment explanation
Indices: 41804509--41804552 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
41804499 AAACAATAAT
*
41804509 AATCGAAATTATAGTATAAAA
1 AATCAAAATTATAGTATAAAA
41804530 AATCAAAATTA-AGTA-AGAAA
1 AATCAAAATTATAGTATA-AAA
41804550 AAT
1 AAT
41804553 AACATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 10 0.48
21 10 0.48
ACGTcount: A:0.61, C:0.05, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCAAAATTATAGTATAAAA
Done.