Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 251 of 373
Found at i:85421484 original size:41 final size:40
Alignment explanation
Indices: 85421385--85421531 Score: 116
Period size: 40 Copynumber: 3.6 Consensus size: 40
85421375 CATTTATCAA
** *
85421385 ATCACCGGCATTTAGCCTGCTAGGTTTTAAACCCGAATTC
1 ATCACCGGCATTTAGCCTGCTAGACTTTAAACCCGAACTC
*** ** *
85421425 ATCACCGGCACGAAGCCTGCTAGACTTTAATTCTGAACTC
1 ATCACCGGCATTTAGCCTGCTAGACTTTAAACCCGAACTC
* * * *
85421465 ATTCACCGGCATTTCGCCTGCTAGGCTTGAAGCCCGATA-TC
1 A-TCACCGGCATTTAGCCTGCTAGACTTTAAACCCGA-ACTC
*
85421506 ATTTCACCGACATTATAGCCTGCTAG
1 A--TCACCGGCATT-TAGCCTGCTAG
85421532 GCCTGAATCC
Statistics
Matches: 83, Mismatches: 20, Indels: 5
0.77 0.19 0.05
Matches are distributed among these distances:
40 32 0.39
41 29 0.35
42 12 0.14
43 10 0.12
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (40 bp):
ATCACCGGCATTTAGCCTGCTAGACTTTAAACCCGAACTC
Found at i:85421529 original size:43 final size:43
Alignment explanation
Indices: 85421466--85421589 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 43
85421456 TCTGAACTCA
* * *
85421466 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGACATTATAGCCTGCTAGGCCTGAAGCCCGATATCAT
* *
85421508 TTCACCGACATTATAGCCTGCTAGGCCTGAATCCCGATATTAT
1 TTCACCGACATTATAGCCTGCTAGGCCTGAAGCCCGATATCAT
* * * *
85421551 CTCATCGACATTATAGCTTGCTAAGCCTGAAGCCCGATA
1 TTCACCGACATTATAGCCTGCTAGGCCTGAAGCCCGATA
85421590 ATATTATTCA
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 11 0.15
43 60 0.85
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (43 bp):
TTCACCGACATTATAGCCTGCTAGGCCTGAAGCCCGATATCAT
Found at i:85423318 original size:14 final size:15
Alignment explanation
Indices: 85423289--85423318 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
85423279 CAAAATTTAG
85423289 ACATGATACTTTCAC
1 ACATGATACTTTCAC
85423304 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
85423318 A
1 A
85423319 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:85427022 original size:24 final size:25
Alignment explanation
Indices: 85426977--85427023 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
85426967 ATTTTTTATT
*
85426977 TTGATGAATATTTTGAGTTATGTCA
1 TTGATGAATATTTTGAGCTATGTCA
*
85427002 TTGATGATTA-TTTGAGCTATGT
1 TTGATGAATATTTTGAGCTATGT
85427024 GATGTTAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.26, C:0.04, G:0.21, T:0.49
Consensus pattern (25 bp):
TTGATGAATATTTTGAGCTATGTCA
Found at i:85427682 original size:45 final size:45
Alignment explanation
Indices: 85427619--85427833 Score: 165
Period size: 45 Copynumber: 4.9 Consensus size: 45
85427609 TAGGATTCCG
* * * *
85427619 ATATGTATTTTCGAGTAAGACCACGTTTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
* *
85427664 ATATGTGTTTTCGTGTAAGACCATGTCTGGGATATTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
* * * **
85427709 ATATGTTGTTAT-GTGTAAGACCATGTCTAGGACATCAGCATC-AT
1 ATATG-TGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
* * *** * *
85427753 AT-T-CG-ATTCGTGTAAGACCTTATCTGAGACAGTGGCATCG--
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
* * ** *
85427793 ATATGAGATAGCATGTAAGACCACGTCTGGGACATTGGCAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCAT
85427834 TGTTCGATAT
Statistics
Matches: 133, Mismatches: 31, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
40 3 0.02
41 25 0.19
42 1 0.01
43 25 0.19
44 4 0.03
45 70 0.53
46 5 0.04
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
Found at i:85430375 original size:94 final size:92
Alignment explanation
Indices: 85430277--85430545 Score: 228
Period size: 94 Copynumber: 2.9 Consensus size: 92
85430267 TTTGGATAAT
* * *
85430277 TGTGATGTGAATACATGAAAATCTATAT-TTTGATTTAGG-AT-TCGATGTGATGAATGTGAAAG
1 TGTGATGTGAAT--ATGAAAATCTATATATGTGA-TAAGGCATACCGATGTGATGAATGTGAAAG
85430339 TGTATATACATGTGATAAGGCCTAATGGCCGA
63 TGTATAT--ATGTGATAAGGCCTAATGGCCGA
* * *
85430371 TGTGA--TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
1 TGTGATGTGAATATGAAAATCTATATATGTGATAAGG-C--ATA-CCGATGTGATGAATGTGAAA
85430434 GTGTATATATGTGATAAGGCCTAATGGCCGA
62 GTGTATATATGTGATAAGGCCTAATGGCCGA
* * * * * * * * *
85430465 TGTGA--TGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAA
1 TGTGATGTGAATATGAAAATCTATATATGTGATAAGG-C-A-T-ACCGATGTGATGAATGTGAAA
*
85430528 GTGTATAAATGTGATAAG
62 GTGTATATATGTGATAAG
85430546 TCCCGAAGGG
Statistics
Matches: 152, Mismatches: 14, Indels: 18
0.83 0.08 0.10
Matches are distributed among these distances:
90 15 0.10
91 4 0.03
92 5 0.03
93 1 0.01
94 100 0.66
96 27 0.18
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (92 bp):
TGTGATGTGAATATGAAAATCTATATATGTGATAAGGCATACCGATGTGATGAATGTGAAAGTGT
ATATATGTGATAAGGCCTAATGGCCGA
Found at i:85430417 original size:47 final size:47
Alignment explanation
Indices: 85430319--85430545 Score: 355
Period size: 47 Copynumber: 4.8 Consensus size: 47
85430309 ATTTAGGATT
85430319 CGATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGC
*
85430368 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
85430415 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
85430462 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
85430509 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
85430546 TCCCGAAGGG
Statistics
Matches: 166, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 139 0.84
49 27 0.16
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:85430714 original size:37 final size:37
Alignment explanation
Indices: 85430664--85430816 Score: 270
Period size: 37 Copynumber: 4.1 Consensus size: 37
85430654 CCGAGCTCTA
85430664 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
85430701 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
85430738 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
* * * *
85430775 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
85430812 AAGAC
1 AAGAC
85430817 TTCGTAATAA
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 112 1.00
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
Found at i:85434376 original size:30 final size:30
Alignment explanation
Indices: 85434342--85434401 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
85434332 ACTTAACAAG
*
85434342 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
85434372 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
85434402 TTATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:85447648 original size:46 final size:45
Alignment explanation
Indices: 85447592--85447767 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
85447582 TATTTGGGCA
*
85447592 TCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
85447638 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
85447685 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
85447731 CCCGAGCTCGTTGAGTTGAGTCCGAGCTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
85447768 GTGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 66 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:85447747 original size:93 final size:93
Alignment explanation
Indices: 85447588--85447756 Score: 275
Period size: 93 Copynumber: 1.8 Consensus size: 93
85447578 AGGATATTTG
* * * *
85447588 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
85447653 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
85447681 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
85447746 TTGAGTCCGAG
66 TTGAGTCCGAG
85447757 CTCACTTATG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:85451054 original size:46 final size:46
Alignment explanation
Indices: 85450986--85451122 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
85450976 TATATATACA
* * * *
85450986 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
85451032 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
85451078 TAACTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
85451123 ATACATGTTC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:85451156 original size:47 final size:47
Alignment explanation
Indices: 85451096--85451474 Score: 643
Period size: 47 Copynumber: 8.1 Consensus size: 47
85451086 ACACATTTCG
* * * **
85451096 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
85451143 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
85451190 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
85451237 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
85451284 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
85451331 CATTGGCC-TTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
85451377 CATTGGCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
85451424 CATTGGCCATTCGGCCTTATCACACATACGTATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
85451471 CATT
1 CATT
85451475 AAAATCCTAA
Statistics
Matches: 320, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
46 46 0.14
47 274 0.86
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:85451400 original size:22 final size:22
Alignment explanation
Indices: 85451373--85451447 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
85451363 GTTCACATTC
85451373 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
85451395 ATCACATAT-ACGCATGTTC-ACATT
1 ATCACAT-TGGC-CA--TTCGGCCTT
85451419 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
85451442 ATCACA
1 ATCACA
85451448 CATACGTATG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 17 0.43
23 6 0.15
24 6 0.15
25 11 0.28
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:85451518 original size:140 final size:137
Alignment explanation
Indices: 85451096--85451474 Score: 569
Period size: 140 Copynumber: 2.7 Consensus size: 137
85451086 ACACATTTCG
* * **
85451096 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * * * *
85451161 ATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCGCACATACGCATGTT
66 ATCACACATACGCATGTTCACATTCATCACATT-GACATT--GCCTTATC-AACATACGCATGTT
85451226 CACATTCATCA
127 CACATTCATCA
* *
85451237 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
85451302 ATCACACATACGCATGTTCACATTCATCACATTGGCCTTCGGCCTTATCACACATACGCATGTTC
66 ATCACACATACGCATGTTCACATTCATCACATTGACATT--GCCTTATCA-ACATACGCATGTTC
85451367 ACATTCATCA
128 ACATTCATCA
85451377 CATTGGCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
85451442 ATCACACATACGTATGTTCACATTCATCACATT
66 ATCACACATACGCATGTTCACATTCATCACATT
85451475 AAAATCCTAA
Statistics
Matches: 222, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
140 133 0.60
141 89 0.40
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.32
Consensus pattern (137 bp):
CATTGGCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATACGCATGTTCACATTCATCACATTGACATTGCCTTATCAACATACGCATGTTCACA
TTCATCA
Found at i:85455527 original size:40 final size:40
Alignment explanation
Indices: 85455481--85455845 Score: 498
Period size: 40 Copynumber: 9.2 Consensus size: 40
85455471 CCGAATACAC
* * * *
85455481 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * * * *
85455521 AACACCAGCACGAATGCTCTTTGGG-TTTAGCACGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
85455560 ATCACTAGCACGAATGCTCTTCAGAACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
85455600 GTCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAC
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
85455640 ATCACTAGCACGAATGCACTTCGGGACTTAGCACGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * *
85455680 ATCACTAGCACGAATGCTCTTCGGAACTTAGCTCGGATAC
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * * *
85455720 GTCACTAGCACGAATGCTCTTCGGAACTTAGCCTGGATAC
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
85455760 GTCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAC
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
85455800 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGGTAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
85455840 ATCACT
1 ATCACT
85455846 CTCAATTCTC
Statistics
Matches: 290, Mismatches: 34, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 31 0.11
40 259 0.89
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
Found at i:85457402 original size:46 final size:46
Alignment explanation
Indices: 85457351--85457469 Score: 166
Period size: 46 Copynumber: 2.6 Consensus size: 46
85457341 ACATATCTCA
* * *
85457351 CATTAGCCATTTGGCTTTACCACATATCCATCTCACACACGTTTCG
1 CATTAGCCATTCGGCTTTACCACATATCCAACTCACACACATTTCG
* * * *
85457397 CATTAGCCATTCGGCTTTATCTCATATCTAACTCATACACATTTCG
1 CATTAGCCATTCGGCTTTACCACATATCCAACTCACACACATTTCG
*
85457443 CATTAGCCATTCGGCCTTACCACATAT
1 CATTAGCCATTCGGCTTTACCACATAT
85457470 ATACATGTTC
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.25, C:0.31, G:0.10, T:0.34
Consensus pattern (46 bp):
CATTAGCCATTCGGCTTTACCACATATCCAACTCACACACATTTCG
Found at i:85457503 original size:47 final size:47
Alignment explanation
Indices: 85457443--85457728 Score: 428
Period size: 47 Copynumber: 6.1 Consensus size: 47
85457433 ACACATTTCG
* * * ** *
85457443 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCAACA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * * *
85457490 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCAAATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
85457537 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
85457584 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
85457631 CATTGGTCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* **
85457678 AATTGGCCATTCAACCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
85457725 CATT
1 CATT
85457729 AAAATCCTAA
Statistics
Matches: 222, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 222 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:85457724 original size:25 final size:25
Alignment explanation
Indices: 85457649--85457726 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
85457639 ATTCGGCCTT
85457649 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
** *
85457674 ATCA-A-ATTGGCCA--TTCAACCTT-
1 ATCACACATACG-CATGTTC-ACATTC
85457696 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
85457721 ATCACA
1 ATCACA
85457727 TTAAAATCCT
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 7 0.17
23 10 0.25
24 10 0.25
25 13 0.32
ACGTcount: A:0.33, C:0.31, G:0.08, T:0.28
Consensus pattern (25 bp):
ATCACACATACGCATGTTCACATTC
Found at i:85461401 original size:15 final size:15
Alignment explanation
Indices: 85461379--85461449 Score: 97
Period size: 15 Copynumber: 4.7 Consensus size: 15
85461369 TCATATCTTC
85461379 GATTTCTTTATCCTG
1 GATTTCTTTATCCTG
* *
85461394 GATCTCTTTATTCTG
1 GATTTCTTTATCCTG
*
85461409 GATTTCTTTATTCTG
1 GATTTCTTTATCCTG
* *
85461424 GGTTTCTTTATCTTG
1 GATTTCTTTATCCTG
85461439 GATTTCTTTAT
1 GATTTCTTTAT
85461450 TCGGTTTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 49 1.00
ACGTcount: A:0.13, C:0.15, G:0.14, T:0.58
Consensus pattern (15 bp):
GATTTCTTTATCCTG
Found at i:85461450 original size:30 final size:30
Alignment explanation
Indices: 85461372--85461459 Score: 110
Period size: 30 Copynumber: 3.0 Consensus size: 30
85461362 TATAGTATCA
* * * *
85461372 TATCTTCGATTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGGTTTCTT
85461402 TAT-TCTGGATTTCTTTATTCTGGGTTTCTT
1 TATCT-TGGATTTCTTTATTCTGGGTTTCTT
85461432 TATCTTGGATTTCTTTATTC--GGTTTCTT
1 TATCTTGGATTTCTTTATTCTGGGTTTCTT
85461460 GTTATCTTTG
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
28 8 0.15
29 1 0.02
30 42 0.81
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.14, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGGTTTCTT
Found at i:85463896 original size:46 final size:46
Alignment explanation
Indices: 85463843--85464018 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
85463833 TATTTGGGCA
* *
85463843 TCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
85463889 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * * *
85463936 TCCGAGCTCGTTGAGTTGAGTACGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
85463982 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
85464019 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 70 0.67
47 35 0.33
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:85463998 original size:93 final size:93
Alignment explanation
Indices: 85463839--85464010 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
85463829 AGGATATTTG
* * * *
85463839 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCACGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAG
85463904 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
85463932 GGCATCCGAGCTCGTTGAGTTGAGTACGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCACGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAG
85463997 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
85464011 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGCACGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:85466176 original size:29 final size:30
Alignment explanation
Indices: 85466118--85466179 Score: 117
Period size: 29 Copynumber: 2.1 Consensus size: 30
85466108 TCGAGTCAGA
85466118 GGTCCTACAACCCCTCCCCCTTACCGAAGT
1 GGTCCTACAACCCCTCCCCCTTACCGAAGT
85466148 GGTCCTACAACCCCT-CCCCTTACCGAAGT
1 GGTCCTACAACCCCTCCCCCTTACCGAAGT
85466177 GGT
1 GGT
85466180 ACTTATAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 17 0.53
30 15 0.47
ACGTcount: A:0.19, C:0.44, G:0.16, T:0.21
Consensus pattern (30 bp):
GGTCCTACAACCCCTCCCCCTTACCGAAGT
Found at i:85466995 original size:15 final size:15
Alignment explanation
Indices: 85466975--85467043 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
85466965 ATATCTTGGG
85466975 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
85466990 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
85467005 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
85467020 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
85467035 TTTCTTTAT
1 TTTCTTTAT
85467044 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:85467044 original size:30 final size:30
Alignment explanation
Indices: 85466966--85467053 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
85466956 CATAGTATCA
* * * *
85466966 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
85466996 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
85467026 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
85467054 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:85472874 original size:37 final size:37
Alignment explanation
Indices: 85472824--85472902 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
85472814 TTATTACGAA
* * *
85472824 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
85472861 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
85472898 GTCTT
1 GTCTT
85472903 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:85473108 original size:47 final size:47
Alignment explanation
Indices: 85473021--85473555 Score: 737
Period size: 47 Copynumber: 11.1 Consensus size: 47
85473011 CCTTTCGGGA
* * * * * * * * *
85473021 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
85473068 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
85473115 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
85473162 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
85473209 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
85473256 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
85473303 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
85473350 CTTATTACATATATTCATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTA-T-CACATA-T-ATACACTTTCACATTCATCACATCGGCTATTAGGC
*
85473401 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
85473448 CTTATTACATATATACATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATAC----ACTTTCACATTCATCACATCGGCTATTAGGC
*
85473499 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCTATTAGGC
85473550 CTTATC
1 CTTATC
85473556 GCCATTAGGC
Statistics
Matches: 448, Mismatches: 28, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
47 315 0.70
48 2 0.00
49 8 0.02
50 2 0.00
51 113 0.25
53 4 0.01
55 4 0.01
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:85473417 original size:98 final size:98
Alignment explanation
Indices: 85473080--85473675 Score: 803
Period size: 94 Copynumber: 6.0 Consensus size: 98
85473070 TGTCACATAT
*
85473080 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAT
*
85473145 CACATCGGCCATTAGGCCTTATTAC--ATA-T-
66 CACATCGGCTATTAGGCCTTATTACATATATTC
* *
85473174 ATACACTTTCACATTCATCACATCGGCTATTAGGACTTATCACACATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAT
* * *
85473239 CACGTCGGCTATTAGGCCTTA-T-CACACA-T-
66 CACATCGGCTATTAGGCCTTATTACATATATTC
* *
85473268 ATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAT
85473333 CACATCGGCTATTAGGCCTTATTACATATATTC
66 CACATCGGCTATTAGGCCTTATTACATATATTC
*
85473366 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAT
*
85473431 CACATCGGCTATTAGGCCTTATTACATATATAC
66 CACATCGGCTATTAGGCCTTATTACATATATTC
* *
85473464 ATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATACACTTTCACAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ACAT--ATACACTTTCACAT
* *
85473529 TCATCACATCGGCCATTAGGCCTTATCGCCATTAGGCCTTATCACATATAC
62 TCATCACATCGGCTATTAGGCC-T-T----ATTA---C--AT---ATATTC
* *
85473580 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAT
* *
85473645 CACATCGGCTATTAGGCCTTATCACACATAT
66 CACATCGGCTATTAGGCCTTATTACATATAT
85473676 ACACTCTCTT
Statistics
Matches: 456, Mismatches: 22, Indels: 44
0.87 0.04 0.08
Matches are distributed among these distances:
92 1 0.00
93 1 0.00
94 167 0.37
95 1 0.00
96 4 0.01
97 1 0.00
98 141 0.31
100 3 0.01
101 1 0.00
102 35 0.08
103 2 0.00
104 1 0.00
106 3 0.01
108 4 0.01
110 1 0.00
111 2 0.00
112 35 0.08
113 2 0.00
114 4 0.01
116 47 0.10
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (98 bp):
ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAT
CACATCGGCTATTAGGCCTTATTACATATATTC
Found at i:85473559 original size:16 final size:16
Alignment explanation
Indices: 85473540--85473571 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
85473530 CATCACATCG
85473540 GCCATTAGGCCTTATC
1 GCCATTAGGCCTTATC
85473556 GCCATTAGGCCTTATC
1 GCCATTAGGCCTTATC
85473572 ACATATACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.31, G:0.19, T:0.31
Consensus pattern (16 bp):
GCCATTAGGCCTTATC
Found at i:85473593 original size:116 final size:114
Alignment explanation
Indices: 85473441--85473667 Score: 368
Period size: 116 Copynumber: 2.0 Consensus size: 114
85473431 CACATCGGCT
* *
85473441 ATTAGGCCTTATTACATATATACATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 ATTAGGCCTTATTACACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
85473506 CATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCC
66 C--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCC
*
85473559 ATTAGGCCTTA-T-CACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTA
1 ATTAGGCCTTATTACACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
85473622 CATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
66 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
85473668 ACACATATAC
Statistics
Matches: 105, Mismatches: 4, Indels: 6
0.91 0.03 0.05
Matches are distributed among these distances:
112 40 0.38
114 4 0.04
116 49 0.47
117 1 0.01
118 11 0.10
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (114 bp):
ATTAGGCCTTATTACACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCC
Found at i:85473596 original size:65 final size:66
Alignment explanation
Indices: 85473489--85473619 Score: 246
Period size: 65 Copynumber: 2.0 Consensus size: 66
85473479 CATCACATCG
85473489 GCCATTAGGCCTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 GCCATTAGGCCTTATCACA-ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
85473554 TC
65 TC
85473556 GCCATTAGGCCTTATCAC-ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 GCCATTAGGCCTTATCACAATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
85473620 TACATATATA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
65 46 0.72
67 18 0.28
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (66 bp):
GCCATTAGGCCTTATCACAATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
C
Found at i:85473648 original size:47 final size:47
Alignment explanation
Indices: 85473556--85473680 Score: 205
Period size: 47 Copynumber: 2.6 Consensus size: 47
85473546 AGGCCTTATC
85473556 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATAT--ATACACTTTCACATTCATCACATCG
*
85473605 GCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
* *
85473652 GCTATTAGGCCTTATCACACATATACACT
1 GCCATTAGGCCTTATCACATATATACACT
85473681 CTCTTGGCTG
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
47 51 0.71
49 21 0.29
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
Found at i:85476918 original size:40 final size:40
Alignment explanation
Indices: 85476873--85477148 Score: 270
Period size: 40 Copynumber: 6.9 Consensus size: 40
85476863 CGAATACACG
* * * * *
85476873 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** * *
85476913 ACACCAGCATGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
85476953 TCACTAGCACGAATGCTCTTCGGAACTTATCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
85476993 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
**
85477033 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** * * **
85477073 GTAACTCGCACCAATGC-CTTCGGGTCTTAGTCCGGATATGG
1 -TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA-CA
* *
85477114 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGA
85477149 CATCATTCAA
Statistics
Matches: 198, Mismatches: 35, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
40 182 0.92
41 16 0.08
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:85477094 original size:120 final size:121
Alignment explanation
Indices: 85476873--85477150 Score: 314
Period size: 120 Copynumber: 2.3 Consensus size: 121
85476863 CGAATACACG
* * * * *
85476873 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATAACACCAGCATGAATGCTCTTCGGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACACAACACCAGCATGAATGCTCTTCGGGA
* * *
85476938 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTA-TCCCGGATA-CA
66 CTTAGCACGGATATATAACTAGCACCAATGCTCTTCGGAACTTAGT-CCGGATATCA
* * *
85476993 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACACAACACCAGCATGAATGCTCTTCGGGA
* * * ** **
85477058 CTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTCGGGTCTTAGTCCGGATATGG
66 CTTAGCACGGATATA-TAACTAGCACCAATGCTCTTCGGAACTTAGTCCGGATATCA
* *
85477114 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGACA
1 TCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGACA
85477151 TCATTCAAAT
Statistics
Matches: 133, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
120 106 0.80
121 22 0.17
122 5 0.04
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (121 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACACAACACCAGCATGAATGCTCTTCGGGA
CTTAGCACGGATATATAACTAGCACCAATGCTCTTCGGAACTTAGTCCGGATATCA
Found at i:85477497 original size:29 final size:29
Alignment explanation
Indices: 85477458--85477536 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
85477448 CTTAATAATC
*
85477458 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
* *
85477488 AACTCGCACACTTAGTGCTATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
85477517 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
85477537 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 36 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:85477579 original size:43 final size:43
Alignment explanation
Indices: 85477518--85477620 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
85477508 TGCATTTCAA
85477518 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
85477561 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
85477604 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
85477621 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:85479535 original size:37 final size:37
Alignment explanation
Indices: 85479474--85479552 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
85479464 TTATTACGAA
* * * *
85479474 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
*
85479511 GTCTTACCCGAACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
85479548 GTCTT
1 GTCTT
85479553 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
Found at i:85480030 original size:51 final size:47
Alignment explanation
Indices: 85479671--85480219 Score: 767
Period size: 47 Copynumber: 11.4 Consensus size: 47
85479661 CCTTTCGGGA
* * * * * * *
85479671 CTTATCACATTTATGCACTTTCACATCCATTACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
85479718 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85479765 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85479812 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
85479859 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
85479905 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
85479956 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85480003 CTTATTACATATATACATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATAC----ACTTTCACATTCATCACATCGGCCATTAGGC
85480054 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
85480105 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
85480154 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85480201 CTTATCACACATATACACT
1 CTTATCACATATATACACT
85480220 CTCTTGGCTG
Statistics
Matches: 460, Mismatches: 29, Indels: 26
0.89 0.06 0.05
Matches are distributed among these distances:
46 6 0.01
47 270 0.59
48 5 0.01
49 57 0.12
50 32 0.07
51 82 0.18
53 4 0.01
55 4 0.01
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:85484167 original size:27 final size:27
Alignment explanation
Indices: 85484137--85484287 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
85484127 AAATTGTACA
* *
85484137 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
** *
85484164 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
85484191 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * *
85484218 GCACTAAGAGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
85484246 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
85484273 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
85484288 GATGATTATA
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
27 80 0.78
28 22 0.22
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:85484250 original size:82 final size:81
Alignment explanation
Indices: 85484137--85484287 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
85484127 AAATTGTACA
* * * *
85484137 GCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGAGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
85484201 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
85484218 GCACTAAGAGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGAGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
85484283 TGCGA
65 TGCGA
85484288 GATGATTATA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 15 0.25
82 46 0.75
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (81 bp):
GCACTAAGAGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:85484293 original size:27 final size:27
Alignment explanation
Indices: 85484136--85484313 Score: 144
Period size: 27 Copynumber: 6.6 Consensus size: 27
85484126 TAAATTGTAC
* **
85484136 AGCACTAAGGGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAGATGACTATGT
* * *
85484163 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGATGACTATGT
* *
85484189 ATGCACTAAGTGTGCGA-ATTGACCATGC
1 A-GCACTAAGTGTGCGAGA-TGACTATGT
* * *
85484217 GGCACTAAGAGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGAG-ATGACTATGT
** * *
85484245 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGATGACTATGT
* * *
85484272 GGCACTAAGTGTGCGAGATGATTATAT
1 AGCACTAAGTGTGCGAGATGACTATGT
*
85484299 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85484314 GGCTCAATAT
Statistics
Matches: 120, Mismatches: 26, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
26 1 0.01
27 98 0.82
28 21 0.17
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGATGACTATGT
Found at i:85502056 original size:39 final size:40
Alignment explanation
Indices: 85502002--85502223 Score: 294
Period size: 40 Copynumber: 5.6 Consensus size: 40
85501992 AACCCAAGTA
*
85502002 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* *
85502041 CCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATG
85502081 CCTTCGGGACTTAGCCCGG-TATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-A--ACTCGCACAAATG
* *
85502123 CCTTCGGGACTTCGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATG
*
85502163 CCTTCGGGACTTAGCCC-GATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
*
85502202 CCTT-GGGACTTAGCCCGAATAT
1 CCTTCGGGACTTAGCCCGGATAT
85502224 CATCCGAATG
Statistics
Matches: 162, Mismatches: 11, Indels: 20
0.84 0.06 0.10
Matches are distributed among these distances:
38 13 0.08
39 44 0.27
40 68 0.42
41 1 0.01
42 30 0.19
43 5 0.03
44 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
Found at i:85502140 original size:82 final size:79
Alignment explanation
Indices: 85502002--85502223 Score: 340
Period size: 82 Copynumber: 2.8 Consensus size: 79
85501992 AACCCAAGTA
* *
85502002 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGG-TATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
85502066 TCACTAGCACAAATG
65 TCACTAGCACAAATG
*
85502081 CCTTCGGGACTTAGCCCGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGTATAGC-A--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
85502146 AGTCACTAGCACAAATG
63 AGTCACTAGCACAAATG
* * *
85502163 CCTTCGGGACTTAGCCCGATATAGGAACTCGCACAAATGCCTT-GGGACTTAGCCCGAATAT
1 CCTTCGGGACTTAGCCCGGTATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
85502224 CATCCGAATG
Statistics
Matches: 132, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
78 16 0.12
79 36 0.27
80 5 0.04
81 1 0.01
82 74 0.56
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGTATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATG
Found at i:85509341 original size:92 final size:96
Alignment explanation
Indices: 85509219--85509448 Score: 267
Period size: 99 Copynumber: 2.4 Consensus size: 96
85509209 TTATTAGAGC
* *
85509219 CAGTGTAAGACCATGTCTGTGCCATGGCATCGACATTGA-GACGAGAGCTAGTGTAAGA-CATGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATT-ATG-CGAGAGCTAGTGTAAGACCATGT
*
85509282 TTGGGACAT-GCATCAG-CTACGAGAT-G-T-GT
64 TTGGAACATGGCATCAGCCT-CGAGATCGATAGT
* *
85509311 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAAATATGTGAGAGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATC-G-AC-ATTATGCGAGAGCTAGTGTAAGACCATG
* * **
85509376 TTTGGAACATGGCGTCGGCCTCGATTTCGATAGT
63 TTTGGAACATGGCATCAGCCTCGAGATCGATAGT
*
85509410 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAT
85509449 ACCCTATGTT
Statistics
Matches: 117, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
92 29 0.25
93 1 0.01
94 19 0.16
95 16 0.14
96 13 0.11
97 4 0.03
98 2 0.02
99 33 0.28
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (96 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGACATTATGCGAGAGCTAGTGTAAGACCATGTTT
GGAACATGGCATCAGCCTCGAGATCGATAGT
Found at i:85509435 original size:49 final size:50
Alignment explanation
Indices: 85509174--85509444 Score: 170
Period size: 49 Copynumber: 5.7 Consensus size: 50
85509164 TTTGTGTGCT
* * *
85509174 AGTGTAAGA-CATGTCTGGGACAT-GCAGCGGC-CACATTAT-T-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACA-AATATGTGAGAGTC
* * * *
85509220 AGTGTAAGACCATGTCTGTGCCATGGCATC-G-AC--AT-TGAGACGAGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAAATATGTGA-GAG-TC
* * * *
85509267 TAGTGTAAGA-CATGTTTGGGACAT-GCATCAGCTAC-GAGATGT----GTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAAATATGTGAGAGTC
85509312 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAAATATGTGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAAATATGTGAGAGTC
* * * ** *
85509361 TAGTGTAAGACCATGTTTGGAACATGGCGTCGGC-CTCGAT-T-TCGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AAATATGT-GAGAGTC
85509411 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
85509445 TTATACCCTA
Statistics
Matches: 175, Mismatches: 25, Indels: 46
0.71 0.10 0.19
Matches are distributed among these distances:
43 1 0.01
44 10 0.06
45 17 0.10
46 30 0.17
47 27 0.15
48 14 0.08
49 39 0.22
50 35 0.20
51 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAAATATGTGAGAGTC
Found at i:85511174 original size:56 final size:56
Alignment explanation
Indices: 85511083--85511216 Score: 232
Period size: 56 Copynumber: 2.4 Consensus size: 56
85511073 CATGGCATCA
* * *
85511083 ATATATGTGTGCGAGTAAGACCGCGTTTAATACGTTGGCATCGATATGTGACTTCG
1 ATATATGTGTGCGAGTAAGACCACGTTTAACACGTTGGCATCGATATGTGACTCCG
85511139 ATATATGTGTGCGAGTAAGACCACGTTTAACACGTTGGCATCGATATGTGACTCCG
1 ATATATGTGTGCGAGTAAGACCACGTTTAACACGTTGGCATCGATATGTGACTCCG
*
85511195 ATATATGTGTGTGAGTAAGACC
1 ATATATGTGTGCGAGTAAGACC
85511217 CTACATAGGA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 74 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCACGTTTAACACGTTGGCATCGATATGTGACTCCG
Found at i:85511234 original size:56 final size:56
Alignment explanation
Indices: 85511083--85511243 Score: 182
Period size: 56 Copynumber: 2.9 Consensus size: 56
85511073 CATGGCATCA
* * ** * *
85511083 ATATATGTGTGCGAGTAAGACCGCGTTTAATACGTTGGCATCGATATGTGACTTCG
1 ATATATGTGTGCGAGTAAGACCACATAGAACACGTTGGCATCGATATGTGACTCCG
* **
85511139 ATATATGTGTGCGAGTAAGACCACGTTTAACACGTTGGCATCGATATGTGACTCCG
1 ATATATGTGTGCGAGTAAGACCACATAGAACACGTTGGCATCGATATGTGACTCCG
* * *
85511195 ATATATGTGTGTGAGTAAGACCCTACATAGGACA-G-TGGCATCAATATGT
1 ATATATGTGTGCGAGTAAGA-CC-ACATAGAACACGTTGGCATCGATATGT
85511244 CATTATATGT
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
56 85 0.90
57 3 0.03
58 6 0.06
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCACATAGAACACGTTGGCATCGATATGTGACTCCG
Found at i:85514697 original size:40 final size:40
Alignment explanation
Indices: 85514653--85514735 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
85514643 AGGCTTGTGC
85514653 ACCTGTAGCTTATGCTATTTACGCTCGTGAGGAGATTTCA
1 ACCTGTAGCTTATGCTATTTACGCTCGTGAGGAGATTTCA
*
85514693 ACCTGTAGCTTATGCTATTTGCGCTCGTGAGGAGATTTCA
1 ACCTGTAGCTTATGCTATTTACGCTCGTGAGGAGATTTCA
85514733 ACC
1 ACC
85514736 CCAGATGATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (40 bp):
ACCTGTAGCTTATGCTATTTACGCTCGTGAGGAGATTTCA
Found at i:85518601 original size:56 final size:56
Alignment explanation
Indices: 85518510--85518643 Score: 223
Period size: 56 Copynumber: 2.4 Consensus size: 56
85518500 CATGGCATCA
* * *
85518510 ATATATGTGTGCGAGTAAGACCGCATTTAATACGTTGGCATCGATATGTGACTTCG
1 ATATATGTGTGCGAGTAAGACCACATTTAACACGTTGGCATCGATATGTGACTCCG
*
85518566 ATATATGTGTGCGAGTAAGACTACATTTAACACGTTGGCATCGATATGTGACTCCG
1 ATATATGTGTGCGAGTAAGACCACATTTAACACGTTGGCATCGATATGTGACTCCG
*
85518622 ATATATGTGTGTGAGTAAGACC
1 ATATATGTGTGCGAGTAAGACC
85518644 CTACATAGGA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 72 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCACATTTAACACGTTGGCATCGATATGTGACTCCG
Found at i:85518661 original size:56 final size:56
Alignment explanation
Indices: 85518510--85518670 Score: 200
Period size: 56 Copynumber: 2.9 Consensus size: 56
85518500 CATGGCATCA
** ** * *
85518510 ATATATGTGTGCGAGTAAGACCGCATTTAATACGTTGGCATCGATATGTGACTTCG
1 ATATATGTGTGCGAGTAAGACTACATAGAACACGTTGGCATCGATATGTGACTCCG
**
85518566 ATATATGTGTGCGAGTAAGACTACATTTAACACGTTGGCATCGATATGTGACTCCG
1 ATATATGTGTGCGAGTAAGACTACATAGAACACGTTGGCATCGATATGTGACTCCG
* *
85518622 ATATATGTGTGTGAGTAAGACCCTACATAGGACA-G-TGGCATCGATATGT
1 ATATATGTGTGCGAGTAAGA--CTACATAGAACACGTTGGCATCGATATGT
85518671 CATTATATGT
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
56 85 0.89
57 1 0.01
58 9 0.09
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACTACATAGAACACGTTGGCATCGATATGTGACTCCG
Found at i:85522893 original size:56 final size:56
Alignment explanation
Indices: 85522807--85522926 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
85522797 ACAAGGGATG
85522807 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
85522863 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
85522919 ATGGGCAA
1 ATGGGCAA
85522927 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:85524422 original size:47 final size:47
Alignment explanation
Indices: 85524370--85524970 Score: 859
Period size: 47 Copynumber: 12.6 Consensus size: 47
85524360 TATTTGAATA
* *
85524370 AATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
85524417 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
85524466 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
85524515 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
85524562 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
85524611 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
85524658 AATGTGAAAGTGTATATATATATGTGATAAGGCCGAATGGCCAACGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
85524709 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
85524756 AATGTGAACA-TG-AGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTA-TATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
85524803 AATGTGAAAATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
85524850 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
85524897 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
85524944 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
85524971 TCCCGAAGGG
Statistics
Matches: 521, Mismatches: 19, Indels: 28
0.92 0.03 0.05
Matches are distributed among these distances:
46 2 0.00
47 332 0.64
48 1 0.00
49 141 0.27
51 44 0.08
52 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:85524439 original size:27 final size:27
Alignment explanation
Indices: 85524409--85524491 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 27
85524399 CTAATGGCCA
85524409 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
* *** ***
85524436 ATGTGAT-AAGGCCTAA-TGGCCA-A-
1 ATGTGATGAATGTGAAAGTGTATATAT
85524459 -TGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
85524485 ATGTGAT
1 ATGTGAT
85524492 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
22 6 0.16
23 5 0.14
24 4 0.11
25 4 0.11
26 5 0.14
27 13 0.35
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.34
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTATATAT
Found at i:85524676 original size:145 final size:143
Alignment explanation
Indices: 85524370--85524970 Score: 839
Period size: 145 Copynumber: 4.2 Consensus size: 143
85524360 TATTTGAATA
*
85524370 AATGTGAAAGTGTATATATA--TGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-AGTGTAT
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--T
*
85524432 ATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
63 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGC
* *
85524497 CTAATGGCCGATGTGATG
126 CGAATGGCCAATGTGATG
* *
85524515 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-AGTGTAT
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--T
* *
85524577 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCG
63 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCG
85524642 AATGGCCAATGTGATG
128 AATGGCCAATGTGATG
* *
85524658 AATGTGAAAGTGTATATATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAACATGTG
1 AATGTGAAAGTG--TATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTA
* *
85524723 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG-AGTATGTGTGATAAGGCC
64 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTA-TATATGTGATAAGGCC
85524786 GAATGGCCAATGTGATG
127 GAATGGCCAATGTGATG
* * * *
85524803 AATGTGAAAATG--TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATA
*
85524866 TATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
66 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
85524931 GGCCAATGTGATG
131 GGCCAATGTGATG
* *
85524944 GATGTGGAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
85524971 TCCCGAAGGG
Statistics
Matches: 417, Mismatches: 26, Indels: 30
0.88 0.05 0.06
Matches are distributed among these distances:
140 1 0.00
141 135 0.32
142 2 0.00
143 52 0.12
144 1 0.00
145 182 0.44
146 1 0.00
147 42 0.10
148 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATA
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
GGCCAATGTGATG
Found at i:85524848 original size:22 final size:22
Alignment explanation
Indices: 85524821--85524942 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
85524811 AATGTGTATG
85524821 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
85524843 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
85524868 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
85524890 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
85524915 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
85524937 TGTGAT
1 TGTGAT
85524943 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:85529634 original size:27 final size:27
Alignment explanation
Indices: 85529599--85529663 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
85529589 ACTCAACTCA
*
85529599 ACGAGCTCGGATGCCTAGTTACATCTC
1 ACGAGCTCGGATGCCTAGTTACACCTC
85529626 ACGAGCTCGGATGCCTAGTTACACCTC
1 ACGAGCTCGGATGCCTAGTTACACCTC
*
85529653 ACGAACTCGGA
1 ACGAGCTCGGA
85529664 CTCAACTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.22
Consensus pattern (27 bp):
ACGAGCTCGGATGCCTAGTTACACCTC
Found at i:85529747 original size:93 final size:93
Alignment explanation
Indices: 85529626--85529826 Score: 348
Period size: 93 Copynumber: 2.2 Consensus size: 93
85529616 GTTACATCTC
* *
85529626 ACGAGCTCGGATGCCTAGTTACACCTCACGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGC
1 ACGAGTTCGGATGCCTAGTTACACCTCACGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGC
85529691 ATCCATAAGTGAACTCGGACTCAACTCA
66 ATCCATAAGTGAACTCGGACTCAACTCA
* * * *
85529719 ACGAGTTCAGATGCCTAGTTACATCTCACGAACTCAGACTCAACTCAACGAGTTCGGACGTTTGC
1 ACGAGTTCGGATGCCTAGTTACACCTCACGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGC
85529784 ATCCATAAGTGAACTCGGACTCAACTCA
66 ATCCATAAGTGAACTCGGACTCAACTCA
85529812 ACGAGTTCGGATGCC
1 ACGAGTTCGGATGCC
85529827 CAAATATCCG
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 101 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
ACGAGTTCGGATGCCTAGTTACACCTCACGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGC
ATCCATAAGTGAACTCGGACTCAACTCA
Found at i:85529770 original size:47 final size:47
Alignment explanation
Indices: 85529626--85529773 Score: 162
Period size: 47 Copynumber: 3.2 Consensus size: 47
85529616 GTTACATCTC
* * *
85529626 ACGAGCTCGGATGCCTAGTTACACCTCACGAACTCGGACTCAACTCA
1 ACGAGTTCAGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCA
* * *
85529673 ACGAGTTCAGA---C--GTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 ACGAGTTCAGATGCCTAGTT-ACAT-C-TCA-CGAACTCGGACTCAACTCA
*
85529719 ACGAGTTCAGATGCCTAGTTACATCTCACGAACTCAGACTCAACTCA
1 ACGAGTTCAGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCA
85529766 ACGAGTTC
1 ACGAGTTC
85529774 GGACGTTTGC
Statistics
Matches: 82, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
42 3 0.04
43 2 0.02
44 2 0.02
45 2 0.02
46 29 0.35
47 34 0.41
48 2 0.02
49 2 0.02
50 3 0.04
51 3 0.04
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (47 bp):
ACGAGTTCAGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCA
Found at i:85529822 original size:46 final size:46
Alignment explanation
Indices: 85529655--85529819 Score: 210
Period size: 46 Copynumber: 3.6 Consensus size: 46
85529645 TACACCTCAC
*
85529655 GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGACGTTTGCATCCATAAGT
* * * *
85529701 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTCAGA--CGT--TTGCATCCATAAGT
* *
85529748 GAACTCAGACTCAACTCAACGAGTTCGGACGTTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGACGTTTGCATCCATAAGT
85529794 GAACTCGGACTCAACTCAACGAGTTC
1 GAACTCGGACTCAACTCAACGAGTTC
85529820 GGATGCCCAA
Statistics
Matches: 100, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 4 0.04
46 54 0.54
47 27 0.27
48 4 0.04
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCAGACGTTTGCATCCATAAGT
Found at i:85540283 original size:32 final size:32
Alignment explanation
Indices: 85540242--85540305 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
85540232 ATAAATTACA
85540242 GCATTATTGTTGTATTATTATCATACCAACTT
1 GCATTATTGTTGTATTATTATCATACCAACTT
85540274 GCATTATTGTTGTATTATTATCATACCAACTT
1 GCATTATTGTTGTATTATTATCATACCAACTT
85540306 ACATACTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (32 bp):
GCATTATTGTTGTATTATTATCATACCAACTT
Found at i:85542172 original size:46 final size:45
Alignment explanation
Indices: 85542028--85542183 Score: 161
Period size: 46 Copynumber: 3.4 Consensus size: 45
85542018 TTATTTGTGT
* *
85542028 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCAC-ATTATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGA-GATG-AA
* * * * * *
85542074 GCCAGTATAAGACCATGTCTAGGACATGGCATCGGCATCGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCTCGAGATGA-A
* *
85542122 GCTAGTGTAAGACATGTTTGGGACATGCATTAGCCTCGAGATGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATG-AA
85542168 GCTAGTGTAAGACATG
1 GCTAGTGTAAGACATG
85542184 CCATTCATCA
Statistics
Matches: 89, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
46 40 0.45
47 27 0.30
48 21 0.24
49 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATGAA
Found at i:85542328 original size:49 final size:50
Alignment explanation
Indices: 85542206--85542341 Score: 152
Period size: 49 Copynumber: 2.7 Consensus size: 50
85542196 TACGAGATGT
* * *
85542206 GTCAGTGTAAGACCATGTCTGGGACATGGCATTGTCACGGATATGTGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGCATATGTGAGA
* * * *
85542256 G-CTAGTGTAAGACCATGTTTGGGACATGGCATCGGC-CTCA-ATTTCGATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGCATATGT-GAGA
* *
85542305 GTCAGTGTAAGGCCATGTCTGGGACATGGCATAGGCA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
85542342 TTATATCCTA
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
48 3 0.04
49 37 0.51
50 32 0.44
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGCATATGTGAGA
Found at i:85545049 original size:30 final size:30
Alignment explanation
Indices: 85545015--85545082 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
85545005 AAATTATTTT
85545015 TAAAAATAAAAATTATAATT-GAAAAAAATC
1 TAAAAATAAAAA-TATAATTAGAAAAAAATC
* * *
85545045 TAAAAATTCAAAATATATTTATAAAAAAATC
1 TAAAAA-TAAAAATATAATTAGAAAAAAATC
85545076 TAAAAAT
1 TAAAAAT
85545083 TTTACAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 13 0.39
31 20 0.61
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (30 bp):
TAAAAATAAAAATATAATTAGAAAAAAATC
Found at i:85546141 original size:16 final size:17
Alignment explanation
Indices: 85546111--85546144 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
85546101 TTTGATTTTG
85546111 TTTTAACATAATTTTAA
1 TTTTAACATAATTTTAA
*
85546128 TTTTAA-ATATTTTTAA
1 TTTTAACATAATTTTAA
85546144 T
1 T
85546145 AATTTATATT
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:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTAACATAATTTTAA
Found at i:85547838 original size:20 final size:20
Alignment explanation
Indices: 85547809--85547854 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
85547799 GACAAAATGT
*
85547809 ATTAAAAAGACCATTCGATC
1 ATTAACAAGACCATTCGATC
85547829 ATTAACAAGACCATTCGATC
1 ATTAACAAGACCATTCGATC
85547849 ATTAAC
1 ATTAAC
85547855 TTTAATGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (20 bp):
ATTAACAAGACCATTCGATC
Found at i:85555957 original size:54 final size:55
Alignment explanation
Indices: 85555868--85555997 Score: 154
Period size: 54 Copynumber: 2.4 Consensus size: 55
85555858 TTAAAATTTT
* * * * *
85555868 AAGTCATTGTTGTACACGGTCAGGCCACACTGGCGTGTGCCATGGCCATGTATTG
1 AAGTCAGTGTTGTACACGGGCAGGCCACACGGGCGTATGCCATGGCCATGTATTA
* * * * *
85555923 AAGTCA-TATTGTACACGGGCAGGCTATACGGGCGTATGCCATGGCCGTGTTTTA
1 AAGTCAGTGTTGTACACGGGCAGGCCACACGGGCGTATGCCATGGCCATGTATTA
*
85555977 AAGTCAGTGTTGCACACGGGC
1 AAGTCAGTGTTGTACACGGGC
85555998 TAAGGGTACG
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 45 0.71
55 18 0.29
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (55 bp):
AAGTCAGTGTTGTACACGGGCAGGCCACACGGGCGTATGCCATGGCCATGTATTA
Found at i:85571765 original size:39 final size:39
Alignment explanation
Indices: 85571711--85571875 Score: 231
Period size: 39 Copynumber: 4.2 Consensus size: 39
85571701 AGTGATGAAG
* *
85571711 TATATTCGGACTTAAGGTCCACAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
85571750 TATATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
85571789 TATATCCGGACTTAAGGTCCGCAGGCTATATGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * * * * *
85571828 TATAACCGGACTTAAGGTCTGCGGGCTACGTGCTAGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
85571867 TATGTCCGG
1 TATATCCGG
85571876 GCTAAAGTCC
Statistics
Matches: 112, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:85571902 original size:78 final size:78
Alignment explanation
Indices: 85571711--85571913 Score: 216
Period size: 78 Copynumber: 2.6 Consensus size: 78
85571701 AGTGATGAAG
* * * * *
85571711 TATATTCGGACTTAAGGTCCACAGGCTATGTGCTGGAATTATATCCAGACTTAAGGTCCGCAGGC
1 TATATCCGGACTTAAAGTCCACAGGCTATGAGCTGGAATTATAACCGGACTTAAGGTCCGCAGGC
* * *
85571776 TATGTGCTGGAAT
66 TACGTGCTAGAAA
* * * *
85571789 TATATCCGGACTTAAGGTCCGCAGGCTAT-ATGCTGGAATTATAACCGGACTTAAGGTCTGCGGG
1 TATATCCGGACTTAAAGTCCACAGGCTATGA-GCTGGAATTATAACCGGACTTAAGGTCCGCAGG
85571853 CTACGTGCTAGAAA
65 CTACGTGCTAGAAA
* * *
85571867 TATGTCCGGGC-TAAAGTCCCACAGGCT-TCGAGCTGGTATTAT-ACCGG
1 TATATCCGGACTTAAAGT-CCACAGGCTAT-GAGCTGGAATTATAACCGG
85571914 GTTTAAATTC
Statistics
Matches: 106, Mismatches: 15, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
77 11 0.10
78 94 0.89
79 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (78 bp):
TATATCCGGACTTAAAGTCCACAGGCTATGAGCTGGAATTATAACCGGACTTAAGGTCCGCAGGC
TACGTGCTAGAAA
Found at i:85583817 original size:40 final size:40
Alignment explanation
Indices: 85583733--85583915 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
85583723 TTGAATGCTG
* *
85583733 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
** * *
85583772 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGCTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* *
85583813 TCCGGGTTAAGTCCCGAAGGCCTTTGTACGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
85583853 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-T-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT-AAT
85583892 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
85583916 GTATGAGTTA
Statistics
Matches: 122, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
38 1 0.01
39 28 0.23
40 80 0.66
41 13 0.11
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:85583936 original size:39 final size:38
Alignment explanation
Indices: 85583786--85583962 Score: 151
Period size: 40 Copynumber: 4.5 Consensus size: 38
85583776 GGACTAAGAT
* * * *
85583786 CCGAAGGCATTTGTGCGAGCTATTAATTCCGGGTTAAGTC
1 CCGAAGGCA-TTGTACGAGTTACTAA-ACCGGGTTAAGTC
* * *
85583826 CCGAAGGCCTTTGTACGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGG-CATTGTACGAGTTACTAA-ACCGGGTTAAGTC
*
85583866 CCGAAGGCATTCGTGCGAGTT--TAAAATCCGGGTTAAGTC
1 CCGAAGGCATT-GTACGAGTTACT-AAA-CCGGGTTAAGTC
* * *
85583905 CCGAAGGCATTGTATGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTGTACGAGTTACTA-AACCGGGTTAAGTC
*
85583944 CCGAAGGCACTTGAACGAG
1 CCGAAGGCA-TTGTACGAG
85583963 GAGCTATATC
Statistics
Matches: 115, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
38 8 0.07
39 48 0.42
40 58 0.50
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (38 bp):
CCGAAGGCATTGTACGAGTTACTAAACCGGGTTAAGTC
Found at i:85590544 original size:23 final size:23
Alignment explanation
Indices: 85590518--85590592 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
85590508 CTAATGGCCG
85590518 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
* **
85590541 ATGTG-TGATAAG-GCCAAA-TGGTCG
1 ATGTGATGA-ATGTG--AAAGT-GTAT
*
85590565 ACGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
85590588 ATGTG
1 ATGTG
85590593 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 17 0.46
24 12 0.32
25 4 0.11
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.31
Consensus pattern (23 bp):
ATGTGATGAATGTGAAAGTGTAT
Found at i:85590571 original size:47 final size:47
Alignment explanation
Indices: 85590502--85590974 Score: 698
Period size: 47 Copynumber: 10.1 Consensus size: 47
85590492 GAAATGATAG
*
85590502 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
85590549 TAAGGCCAAATGGTCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
85590596 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
85590643 TAAGGCCAAATGGTCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
**
85590690 TAAGGCCTAACAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
** *
85590737 TAAGGCCTAACAGCCGATGTGATGAATGTGAAAGTGTATATAGGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
** *
85590784 TAAGGCCTAACAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
85590831 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
85590878 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
85590924 -CAGGCCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGG-CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
85590971 TAAG
1 TAAG
85590975 TCCCGAAGGG
Statistics
Matches: 395, Mismatches: 28, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
45 3 0.01
46 37 0.09
47 353 0.89
48 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:85591162 original size:37 final size:37
Alignment explanation
Indices: 85591093--85591171 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
85591083 CCGAGCTCTA
* * *
85591093 AAGACCCGATGACTACGCGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGCGTGGAGATTATGTCCGGGT
* *
85591130 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGCGTGGAGATTATGTCCGGGT
85591167 AAGAC
1 AAGAC
85591172 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGCGTGGAGATTATGTCCGGGT
Found at i:85607618 original size:94 final size:93
Alignment explanation
Indices: 85607420--85607635 Score: 249
Period size: 94 Copynumber: 2.3 Consensus size: 93
85607410 AAGTTGACGC
* * * *
85607420 CATGTCCCAGTCATGGTCTTACACTGGCTCTAACGTATCCGTGCCGATGCCATGTCGCAGACATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCT-ACGTATCAGTACCGATGCCATGTCGCAGACATG
* **
85607485 GTCTTATACTGACACATCATGTAGCCGGTG
64 GTCTTACACTGACACATCATGTAGCCAATG
* *
85607515 CATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAGTACCGATGCCATGTCGTAGACATGGT
1 CATGTCCCAGACATGTCTTACACTAGCTCTACGTATCAGTACCGATGCCATGTCGCAGACATGGT
* * *
85607579 CTTACACTGGCTC-TCGTAT-TATGGTCAATG
66 CTTACACTGACACATC--ATGTA--GCCAATG
85607609 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
85607636 ACACAAATGA
Statistics
Matches: 105, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
91 2 0.02
92 42 0.40
93 2 0.02
94 46 0.44
95 13 0.12
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTACGTATCAGTACCGATGCCATGTCGCAGACATGGT
CTTACACTGACACATCATGTAGCCAATG
Found at i:85613079 original size:93 final size:93
Alignment explanation
Indices: 85612972--85613142 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
85612962 GCCCCTAAGT
* *
85612972 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
85613037 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
85613065 GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
85613130 CGAGTTCGGATGC
66 CGAGTTCGGATGC
85613143 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:85613139 original size:46 final size:46
Alignment explanation
Indices: 85612967--85613139 Score: 228
Period size: 46 Copynumber: 3.7 Consensus size: 46
85612957 AACCCGCCCC
* * *
85612967 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
85613013 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACATCCA
* *
85613061 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
85613106 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
85613140 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 7, Indels: 18
0.82 0.05 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 2 0.02
45 2 0.02
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
Found at i:85613596 original size:30 final size:29
Alignment explanation
Indices: 85613562--85613620 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
85613552 ATTTAATACG
85613562 AACTTTTAAAAAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTT-CCCCTA
** *
85613592 AACTTTTGCATAATTACACTTTTCCCCTA
1 AACTTTTAAAAAATTACACTTTTCCCCTA
85613621 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.39
Consensus pattern (29 bp):
AACTTTTAAAAAATTACACTTTTCCCCTA
Found at i:85615528 original size:11 final size:11
Alignment explanation
Indices: 85615512--85615537 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
85615502 CGAAGCCCAC
85615512 ATCACAATAAT
1 ATCACAATAAT
85615523 ATCACAATAAT
1 ATCACAATAAT
85615534 ATCA
1 ATCA
85615538 TACATGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:85616026 original size:27 final size:27
Alignment explanation
Indices: 85615996--85616059 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
85615986 GGCAAAATAG
*
85615996 TCATTTTACCCTACAAGGGTATGTCGA
1 TCATTTTACACTACAAGGGTATGTCGA
*
85616023 TCATTTTACACTACAAGGGTATTTCGA
1 TCATTTTACACTACAAGGGTATGTCGA
*
85616050 TAATTTTACA
1 TCATTTTACA
85616060 AATCGGGGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (27 bp):
TCATTTTACACTACAAGGGTATGTCGA
Found at i:85616069 original size:27 final size:27
Alignment explanation
Indices: 85616011--85616298 Score: 248
Period size: 27 Copynumber: 10.7 Consensus size: 27
85616001 TTACCCTACA
* * * *
85616011 AGGGTATGTCGATCATTTTAC-ACTACA
1 AGGGTATTTCGATAATTTTACAAAT-CG
85616038 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
85616065 GGGGTGTTTC-AGTAATTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
85616092 -GGGATGTTTC-AGTAATTTTACAAATCG
1 AGGG-TATTTCGA-TAATTTTACAAATCG
* ** *
85616119 ATGGTATTTTAATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
*
85616146 AGGGTATTTCGGTAATTTTACAAA-CTG
1 AGGGTATTTCGATAATTTTACAAATC-G
*
85616173 AGGGTATTTTGATAATTTTACAAA-CTG
1 AGGGTATTTCGATAATTTTACAAATC-G
* * ** *
85616200 ATGGTATTTTGGCAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
*
85616227 AGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
85616254 GGGGTACTTCGATAAATTTACAAA-CTG
1 AGGGTATTTCGATAATTTTACAAATC-G
* *
85616281 GGGGTATTTCGGTAATTT
1 AGGGTATTTCGATAATTT
85616299 CTCTTTATTA
Statistics
Matches: 219, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
26 5 0.02
27 209 0.95
28 5 0.02
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:85616134 original size:81 final size:80
Alignment explanation
Indices: 85616040--85616298 Score: 283
Period size: 81 Copynumber: 3.2 Consensus size: 80
85616030 ACACTACAAG
* * * *
85616040 GGTATTTCGATAATTTTACAAATCGGGGGTGTTTCAGTAATTTTACAAATCGGGG-ATGTTTCAG
1 GGTATTTTGATAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAATCGGGGTAT-TTTCA-
85616104 TAATTTTACAAA-TCGAT
64 TAATTTTACAAACT-GAT
* * *
85616121 GGTATTTTAATAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAA-CTGAGGGTATTTTGA
1 GGTATTTTGATAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAATC-G-GGGTATTTTCA
85616185 TAATTTTACAAACTGAT
64 TAATTTTACAAACTGAT
** * *
85616202 GGTATTTTGGCAATTTTACAAATTGAGGGTATTTCAATAATTTTACAAATCGGGGGTA-CTTCGA
1 GGTATTTTGATAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAATC-GGGGTATTTTC-A
* **
85616266 TAAATTTACAAACTGGG
64 TAATTTTACAAACTGAT
* *
85616283 GGTATTTCGGTAATTT
1 GGTATTTTGATAATTT
85616299 CTCTTTATTA
Statistics
Matches: 152, Mismatches: 20, Indels: 12
0.83 0.11 0.07
Matches are distributed among these distances:
80 3 0.02
81 137 0.90
82 10 0.07
83 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (80 bp):
GGTATTTTGATAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAATCGGGGTATTTTCATA
ATTTTACAAACTGAT
Found at i:85616659 original size:28 final size:28
Alignment explanation
Indices: 85616615--85616678 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
85616605 TGGCCCCTTT
* * *
85616615 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCACATAGCCCATC
* *
85616643 AGGTCCAATCACATTCATATAGCCCATC
1 AGGCCCAATCACATTCACATAGCCCATC
85616671 AGGCCCAA
1 AGGCCCAA
85616679 CTACTTCTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.36, G:0.16, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATAGCCCATC
Found at i:85622335 original size:87 final size:87
Alignment explanation
Indices: 85622189--85622362 Score: 321
Period size: 87 Copynumber: 2.0 Consensus size: 87
85622179 AGAATTGGGT
*
85622189 GAGCAATTCTTAATGAAGTACTTCCCACTATGTAAGAATTCCAAGCTTAGGAATAAGATCACCAT
1 GAGCAATTCTTAATGAAGTACTTCCCACTATGTAAGAATTCCAAGCTTAGGAATAAGATCACCAC
85622254 ATTCCAACAGTTCAACGATGAA
66 ATTCCAACAGTTCAACGATGAA
85622276 GAGCAATTCTTAATGAAGTACTTCCCACTATGTAAGAATTCCAAGCTTAGGAATAAGATCACCAC
1 GAGCAATTCTTAATGAAGTACTTCCCACTATGTAAGAATTCCAAGCTTAGGAATAAGATCACCAC
* *
85622341 ATTCCAATAGTTCAATGATGAA
66 ATTCCAACAGTTCAACGATGAA
85622363 TCCTTATATG
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (87 bp):
GAGCAATTCTTAATGAAGTACTTCCCACTATGTAAGAATTCCAAGCTTAGGAATAAGATCACCAC
ATTCCAACAGTTCAACGATGAA
Found at i:85623123 original size:16 final size:17
Alignment explanation
Indices: 85623102--85623136 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
85623092 AGAACGTCTA
*
85623102 AATAGATA-TTCCCAAC
1 AATAGATAGTCCCCAAC
85623118 AATAGATAGTCCCCAAC
1 AATAGATAGTCCCCAAC
85623135 AA
1 AA
85623137 AATATCTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.46, C:0.26, G:0.09, T:0.20
Consensus pattern (17 bp):
AATAGATAGTCCCCAAC
Found at i:85623288 original size:28 final size:28
Alignment explanation
Indices: 85623248--85623331 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 28
85623238 TTAATCCCTG
*
85623248 ACGGATATTCCACCCAAGATAGTCTTTA
1 ACGGATATTCCACTCAAGATAGTCTTTA
* * * *
85623276 ACGGGTATTCCACTTAAGATAGTCCTTG
1 ACGGATATTCCACTCAAGATAGTCTTTA
* * *
85623304 ATGGACATTCCACTGAAGATAGTCTTTA
1 ACGGATATTCCACTCAAGATAGTCTTTA
85623332 GCAAACTTGT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (28 bp):
ACGGATATTCCACTCAAGATAGTCTTTA
Found at i:85624788 original size:28 final size:28
Alignment explanation
Indices: 85624755--85624818 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
85624745 TATTTAATGA
*
85624755 AAAGGACA-CATTTGTGATAACCTCTGTT
1 AAAGGA-AGCATTTGTGACAACCTCTGTT
* * *
85624783 AAAGGAAGCATTTGTGGCAATCTTTGTT
1 AAAGGAAGCATTTGTGACAACCTCTGTT
85624811 AAAGGAAG
1 AAAGGAAG
85624819 GCTTTTTGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.30
Consensus pattern (28 bp):
AAAGGAAGCATTTGTGACAACCTCTGTT
Found at i:85628390 original size:62 final size:62
Alignment explanation
Indices: 85628288--85628412 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 62
85628278 TCACTTGAGA
* * *
85628288 AAACATTGTATATTGGTTTATTAGAAGGCTTGAAGTCATTCTTGTAACTTCTCTTAAGATAC
1 AAACATTGTATATCGATTTATTAGAAGACTTGAAGTCATTCTTGTAACTTCTCTTAAGATAC
* *
85628350 AAACCTTGTATATCGATTTATTAGAAGACTTGAAGTCATTCTTGTAATTTCTCTTAAGATAC
1 AAACATTGTATATCGATTTATTAGAAGACTTGAAGTCATTCTTGTAACTTCTCTTAAGATAC
85628412 A
1 A
85628413 TTTTATGAGT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (62 bp):
AAACATTGTATATCGATTTATTAGAAGACTTGAAGTCATTCTTGTAACTTCTCTTAAGATAC
Found at i:85633521 original size:19 final size:19
Alignment explanation
Indices: 85633497--85633533 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
85633487 CCAGCACCTT
85633497 CTTCAACTAGCTTGACCAC
1 CTTCAACTAGCTTGACCAC
85633516 CTTCAACTAGCTTGACCA
1 CTTCAACTAGCTTGACCA
85633534 GGGCTTAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.35, G:0.11, T:0.27
Consensus pattern (19 bp):
CTTCAACTAGCTTGACCAC
Found at i:85635526 original size:186 final size:186
Alignment explanation
Indices: 85635212--85635584 Score: 728
Period size: 186 Copynumber: 2.0 Consensus size: 186
85635202 AATGTCAGTT
*
85635212 TCCTTGAGCATAACATGTCAAGACCAATATTAGCTTTCACCAATGCGACAGTTGATGTAGTAATG
1 TCCTTGAGCATAACACGTCAAGACCAATATTAGCTTTCACCAATGCGACAGTTGATGTAGTAATG
85635277 TCAGTCTCCTTCAACCAAACATGTATACAACCACTAGTGGTTTTTGTTAAGCTGACCAGTTTGTT
66 TCAGTCTCCTTCAACCAAACATGTATACAACCACTAGTGGTTTTTGTTAAGCTGACCAGTTTGTT
85635342 ATCAATCGTATGTCACATAATGTCAGCCCCATTTAAAATGCAAAAATATATCACTG
131 ATCAATCGTATGTCACATAATGTCAGCCCCATTTAAAATGCAAAAATATATCACTG
85635398 TCCTTGAGCATAACACGTCAAGACCAATATTAGCTTTCACCAATGCGACAGTTGATGTAGTAATG
1 TCCTTGAGCATAACACGTCAAGACCAATATTAGCTTTCACCAATGCGACAGTTGATGTAGTAATG
85635463 TCAGTCTCCTTCAACCAAACATGTATACAACCACTAGTGGTTTTTGTTAAGCTGACCAGTTTGTT
66 TCAGTCTCCTTCAACCAAACATGTATACAACCACTAGTGGTTTTTGTTAAGCTGACCAGTTTGTT
*
85635528 ATCAATCGTATGTCACATAATGTCAGGCCCATTTAAAATGCAAAAATATATCACTG
131 ATCAATCGTATGTCACATAATGTCAGCCCCATTTAAAATGCAAAAATATATCACTG
85635584 T
1 T
85635585 ACTTTGTGTA
Statistics
Matches: 185, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
186 185 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.31
Consensus pattern (186 bp):
TCCTTGAGCATAACACGTCAAGACCAATATTAGCTTTCACCAATGCGACAGTTGATGTAGTAATG
TCAGTCTCCTTCAACCAAACATGTATACAACCACTAGTGGTTTTTGTTAAGCTGACCAGTTTGTT
ATCAATCGTATGTCACATAATGTCAGCCCCATTTAAAATGCAAAAATATATCACTG
Found at i:85640007 original size:23 final size:23
Alignment explanation
Indices: 85639977--85640023 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
85639967 TTTTACTTAT
85639977 TAAAATCTTGACTTATTGTCTCA
1 TAAAATCTTGACTTATTGTCTCA
85640000 TAAAATCTTGACTTATTGTCTCA
1 TAAAATCTTGACTTATTGTCTCA
85640023 T
1 T
85640024 TTTCATTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.45
Consensus pattern (23 bp):
TAAAATCTTGACTTATTGTCTCA
Found at i:85642311 original size:17 final size:18
Alignment explanation
Indices: 85642273--85642314 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
85642263 TAACAAATGT
85642273 GTTTAA-AATAATAACAA
1 GTTTAATAATAATAACAA
* *
85642290 ATTTAATAATAA-AATAA
1 GTTTAATAATAATAACAA
85642307 GTTTAATA
1 GTTTAATA
85642315 CAATATCCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (18 bp):
GTTTAATAATAATAACAA
Found at i:85643040 original size:31 final size:31
Alignment explanation
Indices: 85642986--85643055 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
85642976 TAAAAAAAAA
*
85642986 AAGAAC-TTTAATAGCCCAATGACTTAAAT-
1 AAGAACTTTTAATAGACCAATGACTTAAATG
*
85643015 AAGAACTTTTAGATAGATCAATGACTTAAATG
1 AAGAACTTTTA-ATAGACCAATGACTTAAATG
85643047 AA-AACTTTT
1 AAGAACTTTT
85643056 TATTAGTTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 6 0.17
30 4 0.11
31 24 0.67
32 2 0.06
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.31
Consensus pattern (31 bp):
AAGAACTTTTAATAGACCAATGACTTAAATG
Found at i:85643414 original size:53 final size:53
Alignment explanation
Indices: 85643329--85643437 Score: 155
Period size: 53 Copynumber: 2.1 Consensus size: 53
85643319 TAAACATGCC
* * *
85643329 TAAACATAGCACATACACAATTCGAATATAATGTAGGAAAAAAAATAAAGGCA
1 TAAACATAACACATACACAATTCGAATATAATGTAGAAAAAAAAATAAAGGAA
* * * *
85643382 TAAACATAACACATACACAATTTGGATCTAATGTATAAAAAAAAATAAAGGAA
1 TAAACATAACACATACACAATTCGAATATAATGTAGAAAAAAAAATAAAGGAA
85643435 TAA
1 TAA
85643438 TGGCATATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.56, C:0.12, G:0.11, T:0.21
Consensus pattern (53 bp):
TAAACATAACACATACACAATTCGAATATAATGTAGAAAAAAAAATAAAGGAA
Found at i:85653656 original size:51 final size:51
Alignment explanation
Indices: 85653587--85653694 Score: 164
Period size: 51 Copynumber: 2.1 Consensus size: 51
85653577 AATATTATTC
* *
85653587 CAATATTTGGTAGTACAAAATTAGTCGAAAGCT-TCAGAAGAGTTAATATAT
1 CAATATTTGGTAGTACAAAATTAGTCGAAAGATCT-AGAAGAGCTAATATAT
* *
85653638 GAATATTTGGTAGTACAAAATTAGTTGAAAGATCTAGAAGAGCTAATATAT
1 CAATATTTGGTAGTACAAAATTAGTCGAAAGATCTAGAAGAGCTAATATAT
85653689 CAATAT
1 CAATAT
85653695 CTAAAAATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 50 0.98
52 1 0.02
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.31
Consensus pattern (51 bp):
CAATATTTGGTAGTACAAAATTAGTCGAAAGATCTAGAAGAGCTAATATAT
Found at i:85657430 original size:26 final size:26
Alignment explanation
Indices: 85657401--85657454 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
85657391 AGGCTAGTAA
* *
85657401 AAATACATAATATAGTATGATCTTAG
1 AAATACACAATAAAGTATGATCTTAG
**
85657427 AAATTGACAATAAAGTATGATCTTAG
1 AAATACACAATAAAGTATGATCTTAG
85657453 AA
1 AA
85657455 TTTAAATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.31
Consensus pattern (26 bp):
AAATACACAATAAAGTATGATCTTAG
Found at i:85663122 original size:42 final size:42
Alignment explanation
Indices: 85663064--85663184 Score: 145
Period size: 43 Copynumber: 2.9 Consensus size: 42
85663054 TTAGGAAACT
** * *
85663064 GAGATTATGTGTAAGACCATATCTGGGATATGGCATCGACAT
1 GAGATTACATGTAAGACCATATCTGGGATATGGCATAGACAC
* * *
85663106 GAGACTT-CATGTAAGACCATAGCTGGGCTATTGGCATAGATAC
1 GAGA-TTACATGTAAGACCATATCTGGGATA-TGGCATAGACAC
*
85663149 GAGATTACATATAAGACCATATCTGGGATATGGCAT
1 GAGATTACATGTAAGACCATATCTGGGATATGGCAT
85663185 TGCCACGGTA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
42 31 0.47
43 35 0.53
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (42 bp):
GAGATTACATGTAAGACCATATCTGGGATATGGCATAGACAC
Found at i:85670557 original size:22 final size:23
Alignment explanation
Indices: 85670519--85670570 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
85670509 TAGCTCATTG
85670519 GAGCTTACCGTTTCAGCTCG-TA
1 GAGCTTACCGTTTCAGCTCGATA
*
85670541 TGAGCTTA-CTTTTCAGCTCGATA
1 -GAGCTTACCGTTTCAGCTCGATA
85670564 GAGCTTA
1 GAGCTTA
85670571 TTGTTCATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCGATA
Found at i:85672505 original size:13 final size:13
Alignment explanation
Indices: 85672487--85672511 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85672477 ATTTACAAGA
85672487 TTACATAATCAAT
1 TTACATAATCAAT
85672500 TTACATAATCAA
1 TTACATAATCAA
85672512 ATCAAATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTACATAATCAAT
Found at i:85678122 original size:20 final size:18
Alignment explanation
Indices: 85678107--85678161 Score: 60
Period size: 17 Copynumber: 3.0 Consensus size: 18
85678097 ACTTAATCAC
85678107 TTTAATATTAAATTAA-A
1 TTTAATATTAAATTAATA
*
85678124 TTAAATATTAAGA-TAATTA
1 TTTAATATTAA-ATTAA-TA
85678143 TTTTAATATTAAATTAATA
1 -TTTAATATTAAATTAATA
85678162 AGAAACTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
17 13 0.42
18 1 0.03
19 4 0.13
20 13 0.42
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTTAATATTAAATTAATA
Found at i:85678148 original size:37 final size:38
Alignment explanation
Indices: 85678100--85678204 Score: 122
Period size: 37 Copynumber: 2.7 Consensus size: 38
85678090 TGATTTAACT
* *
85678100 TAATCACTTTAATATTAAATTAAATTAAA-TATTAAGA
1 TAATCATTTTAATATTAAATTAAATGAAACTATTAAGA
* *
85678137 TAATTATTTTAATATTAAATTAATAAGAAACTATTAAGA
1 TAATCATTTTAATATTAAATTAA-ATGAAACTATTAAGA
85678176 TAATCATTAAATTAATATTAATATTAAAT
1 TAATCATT---TTAATATTAA-ATTAAAT
85678205 CTATTAAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
37 21 0.38
38 4 0.07
39 15 0.27
42 11 0.20
43 5 0.09
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (38 bp):
TAATCATTTTAATATTAAATTAAATGAAACTATTAAGA
Found at i:85678171 original size:27 final size:26
Alignment explanation
Indices: 85678119--85678171 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
85678109 TAATATTAAA
* *
85678119 TTAAATTAAATATTAAGATAATTATT
1 TTAAATTAAATAATAAGATAACTATT
85678145 TTAATATTAAATTAATAAGA-AACTATT
1 TTAA-ATTAAA-TAATAAGATAACTATT
85678172 AAGATAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 4 0.17
27 12 0.52
28 7 0.30
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (26 bp):
TTAAATTAAATAATAAGATAACTATT
Found at i:85680601 original size:30 final size:30
Alignment explanation
Indices: 85680567--85680628 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
85680557 GTTGGAAGTA
** *
85680567 AGCTGAGTCCAAGCTCAAGAGCTGAAGTTG
1 AGCTGAGAACAAGCTCAAGAGCTGAAATTG
* *
85680597 AGCTGAGAACAAGCTCATGAGTTGAAATTG
1 AGCTGAGAACAAGCTCAAGAGCTGAAATTG
85680627 AG
1 AG
85680629 TTGGATGTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (30 bp):
AGCTGAGAACAAGCTCAAGAGCTGAAATTG
Found at i:85681139 original size:250 final size:250
Alignment explanation
Indices: 85680689--85681173 Score: 826
Period size: 250 Copynumber: 1.9 Consensus size: 250
85680679 GTTGGACGAC
* * *
85680689 CTAGGAAGAGATCACAAGGATGACTCGTTGAGCTAGTCCACGAACTCTCGAGTAAGCTGGTGATA
1 CTAGAAAGAGATCACAAGGATGACTCGTTGAGCTAGTCCACAAACTCTCGAGTAAGCTAGTGATA
*
85680754 GATTCAGCCCAAGCTCGATCAACTAAAGCTAAAATTACGTCTTTGAACCTCTTGGCTCGGGCTCG
66 GATTCAGCCCAAGCTCGATCAACTAAAGCTAAAATTACGTCTTTGAACCTCTTGGCTCGGGCTCA
* * *
85680819 GGTGATCGATCCTACGGGCAACTTGAGAGGATCTAGTCCGAGCTCGAGAGCTAAAGTTGAGCTGA
131 GGTGATCGATCCTACGGGCAACTCGAGAGGATCTAATCCGAGCTCGAGAGCTAAAGTTGAGCTAA
* * *
85680884 GAACAAGCTCATGAGCTGAAGTTGGGTTGGATGTGAACTTATTAAGCTGGATGAG
196 GAACAAGCTCATGAGCTGAAGTTGAGCTGAATGTGAACTTATTAAGCTGGATGAG
*
85680939 CTAGAAAGAGATTACAAGGATGACTCGTTGAGCTAGTCCACAAACTCTCGAGTAAGCTAGTGATA
1 CTAGAAAGAGATCACAAGGATGACTCGTTGAGCTAGTCCACAAACTCTCGAGTAAGCTAGTGATA
**
85681004 GATTCAGCCCAAGCTCGATCAACTAAAGCTAAAATTGTGTCTTTGAACCTCTTGGCTCGGGCTCA
66 GATTCAGCCCAAGCTCGATCAACTAAAGCTAAAATTACGTCTTTGAACCTCTTGGCTCGGGCTCA
* * *
85681069 GGTGATTGGTCCTACGGGCAACTCGAGAGGATCTAATTCGAGCTCGAGAGCTAAAGTTGAGCTAA
131 GGTGATCGATCCTACGGGCAACTCGAGAGGATCTAATCCGAGCTCGAGAGCTAAAGTTGAGCTAA
85681134 GAACAAGCTCATGAGCTGAAGTTGAGCTGAATGTGAACTT
196 GAACAAGCTCATGAGCTGAAGTTGAGCTGAATGTGAACTT
85681174 GTTGAGATAG
Statistics
Matches: 219, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
250 219 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (250 bp):
CTAGAAAGAGATCACAAGGATGACTCGTTGAGCTAGTCCACAAACTCTCGAGTAAGCTAGTGATA
GATTCAGCCCAAGCTCGATCAACTAAAGCTAAAATTACGTCTTTGAACCTCTTGGCTCGGGCTCA
GGTGATCGATCCTACGGGCAACTCGAGAGGATCTAATCCGAGCTCGAGAGCTAAAGTTGAGCTAA
GAACAAGCTCATGAGCTGAAGTTGAGCTGAATGTGAACTTATTAAGCTGGATGAG
Found at i:85685496 original size:46 final size:46
Alignment explanation
Indices: 85685444--85685992 Score: 744
Period size: 46 Copynumber: 12.0 Consensus size: 46
85685434 GCTTTCTGAA
* *
85685444 ATGAAATTTGTAAGACCATGGTTGAAAGATACCATGGAAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
85685490 ATGAAATTTGTAAGACCATAGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
85685536 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATTAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
85685582 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
85685628 ATAAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
85685674 ATGAAATGTGTAAGACCATGGTTGAAAGACT-CCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGA-TACCATGGCAACATGAT
* * *
85685720 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGAAACATTAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
85685766 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
85685812 ATAAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGA-
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * ** ** * *
85685857 CGGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * *
85685903 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACTTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
85685949 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
85685993 TCAAAGATAA
Statistics
Matches: 453, Mismatches: 46, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
45 37 0.08
46 416 0.92
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:85686294 original size:16 final size:17
Alignment explanation
Indices: 85686273--85686305 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
85686263 ATGATGGAGC
85686273 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
85686289 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
85686306 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:85689223 original size:125 final size:124
Alignment explanation
Indices: 85688996--85689245 Score: 464
Period size: 125 Copynumber: 2.0 Consensus size: 124
85688986 ATAAAGTCTC
85688996 AGTAGGAGTGTGGTTCCTCCATTGCTCAACTACCAAATGACCACCTGCTGCCTATTGGAATTCCA
1 AGTAGGAGTGTGGTTCCTCCATTGCTCAACTACCAAATGACCACCTGCTGCCTATTGGAATTCCA
* *
85689061 TCGTTGTCGCTGTAGACACTGTCATGTCCAGTGGTGCCGTCGTAGTGAGACACCCTTACG
66 TCGTTGTCGCTGTAGACACTGTCATGTCCAGTAGTGCCATCGT-GTGAGACACCCTTACG
85689121 AGTAGGAGTGTGGTTCCTCCATTGCTCAACTACCAAATGACCACCTGCTGCCTATTGGAATTCCA
1 AGTAGGAGTGTGGTTCCTCCATTGCTCAACTACCAAATGACCACCTGCTGCCTATTGGAATTCCA
*
85689186 TCGTTGTCGCTGTAGACACTGTCATGTCCAGTAGTGCCATCGTGTGGGACACCCTTACG
66 TCGTTGTCGCTGTAGACACTGTCATGTCCAGTAGTGCCATCGTGTGAGACACCCTTACG
85689245 A
1 A
85689246 CACCCCGAGC
Statistics
Matches: 122, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
124 16 0.13
125 106 0.87
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (124 bp):
AGTAGGAGTGTGGTTCCTCCATTGCTCAACTACCAAATGACCACCTGCTGCCTATTGGAATTCCA
TCGTTGTCGCTGTAGACACTGTCATGTCCAGTAGTGCCATCGTGTGAGACACCCTTACG
Found at i:85713909 original size:23 final size:23
Alignment explanation
Indices: 85713865--85713909 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
85713855 TTATATCCAT
* * *
85713865 ACCAAAATCATGCCTAATCATAA
1 ACCAAAATCATACCAAAACATAA
*
85713888 ACCAAAGTCATACCAAAACATA
1 ACCAAAATCATACCAAAACATA
85713910 TGTTTCATAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.51, C:0.27, G:0.04, T:0.18
Consensus pattern (23 bp):
ACCAAAATCATACCAAAACATAA
Found at i:85714739 original size:42 final size:43
Alignment explanation
Indices: 85714638--85714742 Score: 106
Period size: 43 Copynumber: 2.5 Consensus size: 43
85714628 CAATGTCAAC
* * * **
85714638 GTCCCATACGTGGTCTTACATGTAATCAAATATTGATGCCACT
1 GTCCCATACATGGTCTTACACGAAATCAAATATCAATGCCACT
* * * *
85714681 ATCTCAGACAAGGTCTTACACGAAATCAAATA-CAATGCCGA-T
1 GTCCCATACATGGTCTTACACGAAATCAAATATCAATGCC-ACT
85714723 GTCCCATACATGGTCTTACA
1 GTCCCATACATGGTCTTACA
85714743 TGTAAATTTC
Statistics
Matches: 48, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
42 22 0.46
43 26 0.54
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
GTCCCATACATGGTCTTACACGAAATCAAATATCAATGCCACT
Found at i:85718281 original size:25 final size:26
Alignment explanation
Indices: 85718249--85718303 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
85718239 TTATTAAATT
*
85718249 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
85718274 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
85718299 A-ATAT
1 ATATAT
85718304 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:85718490 original size:44 final size:45
Alignment explanation
Indices: 85718441--85718535 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
85718431 TTACACCTCT
* *
85718441 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
85718485 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
85718530 ATTACA
1 ATTACA
85718536 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:85718535 original size:16 final size:16
Alignment explanation
Indices: 85718516--85718583 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
85718506 GATTTGCTAT
* *
85718516 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
85718532 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
85718548 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
85718564 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
85718580 TACA
1 TACA
85718584 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:85721820 original size:41 final size:41
Alignment explanation
Indices: 85721735--85721962 Score: 273
Period size: 41 Copynumber: 5.6 Consensus size: 41
85721725 TAATTATACC
* * *
85721735 TGAATTGCACATACGTGCCCCT-ATTGTACTTTAGTACCCT
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCA
*
85721775 TGAATTGCACATATGTGCCCCTGTTTGTA-TTTCGGTACCCA
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTT-GGTACCCA
* * * * *
85721816 TGAATTGCAAATACGTGACCTTGTTTGTACTTCGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCA
* * *
85721857 TGAATTGCACATACATG-CCTTTTTTGTACTTTGGTACCCA
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCA
* *
85721897 TGAATTGCACATACATGCCCCTGTTTGTACTTTGATACCCA
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCA
* * *
85721938 TGAATAGCACTTACGTGCCCTTGTT
1 TGAATTGCACATACGTGCCCCTGTT
85721963 CCCACTCTGG
Statistics
Matches: 162, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
40 61 0.38
41 99 0.61
42 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCA
Found at i:85721893 original size:81 final size:81
Alignment explanation
Indices: 85721735--85721958 Score: 272
Period size: 81 Copynumber: 2.8 Consensus size: 81
85721725 TAATTATACC
* * * *
85721735 TGAATTGCACATACGTGCCCCT-ATTGTACTTTAGTACCCTTGAATTGCACATATGTGCCCCTGT
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCATGAATTGCACATACGTG-CCCTGT
85721799 TTGTATTTCGGTACCCA
65 TTGTATTTCGGTACCCA
* * * * * * * *
85721816 TGAATTGCAAATACGTGACCTTGTTTGTACTTCGGTACCCCTGAATTGCACATACATGCCTTTTT
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCATGAATTGCACATACGTGCCCTGTT
85721881 TGTACTTT-GGTACCCA
66 TGTA-TTTCGGTACCCA
* * * *
85721897 TGAATTGCACATACATGCCCCTGTTTGTACTTTGATACCCATGAATAGCACTTACGTGCCCT
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCATGAATTGCACATACGTGCCCT
85721959 TGTTCCCACT
Statistics
Matches: 119, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
81 87 0.73
82 32 0.27
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (81 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCATGAATTGCACATACGTGCCCTGTT
TGTATTTCGGTACCCA
Found at i:85721953 original size:122 final size:122
Alignment explanation
Indices: 85721733--85721962 Score: 327
Period size: 122 Copynumber: 1.9 Consensus size: 122
85721723 GATAATTATA
* * **
85721733 CCTGAATTGCACATACGTGCCCCTATTGTACTTTAGTACCCTTGAATTGCACATATGTGCCCCTG
1 CCTGAATTGCACATACATGCCCCTATTGTACTTTAGTACCCATGAATTGCACATACATGCCCCTG
* *
85721798 TTTGTATTTCGGTACCCATGAATTGCAAATACGTGACCTTGTTTGTACTTCGGTACC
66 TTTGTATTTCGATACCCATGAATAGCAAATACGTGACCTTGTTTGTACTTCGGTACC
** * *
85721855 CCTGAATTGCACATACATGCCTTTTTTGTACTTTGGTACCCATGAATTGCACATACATGCCCCTG
1 CCTGAATTGCACATACATGCCCCTATTGTACTTTAGTACCCATGAATTGCACATACATGCCCCTG
** *
85721920 TTTGTACTTT-GATACCCATGAATAGCACTTACGTGCCCTTGTT
66 TTTGTA-TTTCGATACCCATGAATAGCAAATACGTGACCTTGTT
85721963 CCCACTCTGG
Statistics
Matches: 94, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
122 91 0.97
123 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.36
Consensus pattern (122 bp):
CCTGAATTGCACATACATGCCCCTATTGTACTTTAGTACCCATGAATTGCACATACATGCCCCTG
TTTGTATTTCGATACCCATGAATAGCAAATACGTGACCTTGTTTGTACTTCGGTACC
Found at i:85728833 original size:55 final size:55
Alignment explanation
Indices: 85728772--85728886 Score: 221
Period size: 55 Copynumber: 2.1 Consensus size: 55
85728762 CAATCCAGTC
*
85728772 ACAAAATACATGGTAATTCTATACCATTTCCATTCGGGGACAATCACAGTCTGTA
1 ACAAAATACATGGTAATTCTATACCATTTCCATTCGGGCACAATCACAGTCTGTA
85728827 ACAAAATACATGGTAATTCTATACCATTTCCATTCGGGCACAATCACAGTCTGTA
1 ACAAAATACATGGTAATTCTATACCATTTCCATTCGGGCACAATCACAGTCTGTA
85728882 ACAAA
1 ACAAA
85728887 TCTGAAGGTA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.28
Consensus pattern (55 bp):
ACAAAATACATGGTAATTCTATACCATTTCCATTCGGGCACAATCACAGTCTGTA
Found at i:85731294 original size:79 final size:80
Alignment explanation
Indices: 85731126--85731310 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
85731116 GCTACTCGTT
* *
85731126 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
85731190 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* * **
85731207 CAATGCCTTC-GGTCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
85731270 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
85731286 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
85731311 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.66
80 24 0.27
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:85731310 original size:40 final size:40
Alignment explanation
Indices: 85731107--85731310 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
85731097 CGAAATTTAA
** *
85731107 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
85731147 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
85731187 CCGGATTTAGTAACTCGCACCAATGCCTTC-GGTCTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
85731226 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
85731266 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
85731306 CCGGA
1 CCGGA
85731311 CATCATTCGA
Statistics
Matches: 140, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
39 37 0.26
40 91 0.65
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:85733845 original size:45 final size:45
Alignment explanation
Indices: 85733776--85733865 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
85733766 TCCTATACGG
*
85733776 GGCAATAGAAATAGGTGTTGTTCCTTGCATCAACTCAATACCAAA
1 GGCAATAGAAATAGGTGTTGTTCCTGGCATCAACTCAATACCAAA
* *
85733821 GGCAATAGAAATAGTTGTTTTTCCTGGCATCAACTCAATACCAAA
1 GGCAATAGAAATAGGTGTTGTTCCTGGCATCAACTCAATACCAAA
85733866 CTCTACTTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (45 bp):
GGCAATAGAAATAGGTGTTGTTCCTGGCATCAACTCAATACCAAA
Found at i:85756786 original size:5 final size:5
Alignment explanation
Indices: 85756778--85756802 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
85756768 AAAATAAAAA
85756778 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
85756803 GGTTGGTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Done.