Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12616935
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 33 of 51
Found at i:8357230 original size:30 final size:28
Alignment explanation
Indices: 8357174--8357234 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
8357164 GATAATATTA
*
8357174 AAAATATATTTTATATTAAAATAAAAAT
1 AAAATATATTTAATATTAAAATAAAAAT
8357202 AAAATATATTTAATAAGTT-AAATAAAAAAT
1 AAAATATATTTAAT-A-TTAAAAT-AAAAAT
8357232 AAA
1 AAA
8357235 GGATATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 13 0.45
29 5 0.17
30 11 0.38
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (28 bp):
AAAATATATTTAATATTAAAATAAAAAT
Found at i:8364610 original size:18 final size:18
Alignment explanation
Indices: 8364579--8364613 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8364569 CATCTCTATA
*
8364579 ATATAAATTCCAAAAGTT
1 ATATAAATTACAAAAGTT
*
8364597 ATATAGATTACAAAAGT
1 ATATAAATTACAAAAGT
8364614 ATTTATAGAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (18 bp):
ATATAAATTACAAAAGTT
Found at i:8365978 original size:30 final size:31
Alignment explanation
Indices: 8365896--8365998 Score: 165
Period size: 31 Copynumber: 3.4 Consensus size: 31
8365886 GGGCCTGAGA
8365896 GCCTACCCAAGTAAAATCTCGGGGCTGCATG
1 GCCTACCCAAGTAAAATCTCGGGGCTGCATG
*
8365927 GCCTACCCGAGTAAAATCTCGGGGCTGCATG
1 GCCTACCCAAGTAAAATCTCGGGGCTGCATG
*
8365958 GCCTACCCAAG-AAGATCTCGGGGCTGCA-G
1 GCCTACCCAAGTAAAATCTCGGGGCTGCATG
8365987 AGCCTACCCAAG
1 -GCCTACCCAAG
8365999 GGTTGCCTTA
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
29 1 0.01
30 27 0.40
31 40 0.59
ACGTcount: A:0.25, C:0.31, G:0.27, T:0.17
Consensus pattern (31 bp):
GCCTACCCAAGTAAAATCTCGGGGCTGCATG
Found at i:8366858 original size:2 final size:2
Alignment explanation
Indices: 8366851--8366881 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8366841 GGACGATACA
8366851 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8366882 ACCATTGGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8367898 original size:48 final size:48
Alignment explanation
Indices: 8367825--8367929 Score: 174
Period size: 48 Copynumber: 2.2 Consensus size: 48
8367815 CATAGTACTG
** *
8367825 ATACAAAAATGCAACATATGGATTAAACAAAATCGGTCGATAACCATC
1 ATACAAAAATGCAACATATACATTAAACAAAATCGATCGATAACCATC
*
8367873 ATACAAAAATGCAACATATACATTAAACAAAATTGATCGATAACCATC
1 ATACAAAAATGCAACATATACATTAAACAAAATCGATCGATAACCATC
8367921 ATACAAAAA
1 ATACAAAAA
8367930 AGTATGTTGA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.52, C:0.18, G:0.09, T:0.21
Consensus pattern (48 bp):
ATACAAAAATGCAACATATACATTAAACAAAATCGATCGATAACCATC
Found at i:8367926 original size:24 final size:24
Alignment explanation
Indices: 8367851--8367928 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
8367841 TATGGATTAA
* *
8367851 ACAAAATCGGTCGATAACCATCAT
1 ACAAAATTGATCGATAACCATCAT
* * * *
8367875 ACAAAAATGCAAC-ATATA-CATTAA
1 ACAAAATTG-ATCGATA-ACCATCAT
8367899 ACAAAATTGATCGATAACCATCAT
1 ACAAAATTGATCGATAACCATCAT
8367923 ACAAAA
1 ACAAAA
8367929 AAGTATGTTG
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
23 3 0.08
24 35 0.88
25 2 0.05
ACGTcount: A:0.51, C:0.21, G:0.08, T:0.21
Consensus pattern (24 bp):
ACAAAATTGATCGATAACCATCAT
Found at i:8379512 original size:30 final size:31
Alignment explanation
Indices: 8379458--8379532 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 31
8379448 TTGGGGCCTG
**
8379458 AGAGCCTACCCAAGTAAAATCTCGGGGTTGC
1 AGAGCCTACCCAAGTAAAATCTCGGGGCAGC
* *
8379489 AGAGCCTACCCAAG-AAGATCTCGGGGCAGT
1 AGAGCCTACCCAAGTAAAATCTCGGGGCAGC
*
8379519 AGAGCCTATCCAAG
1 AGAGCCTACCCAAG
8379533 GGTCACCTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 25 0.64
31 14 0.36
ACGTcount: A:0.31, C:0.27, G:0.27, T:0.16
Consensus pattern (31 bp):
AGAGCCTACCCAAGTAAAATCTCGGGGCAGC
Found at i:8381705 original size:13 final size:14
Alignment explanation
Indices: 8381687--8381721 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
8381677 GTCAACTCGA
8381687 CTCGGTCAGGT-GG
1 CTCGGTCAGGTCGG
8381700 CTCGGTC-GGTCGG
1 CTCGGTCAGGTCGG
8381713 CTCGGTCAG
1 CTCGGTCAG
8381722 CTCAGTCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.15
13 16 0.80
14 1 0.05
ACGTcount: A:0.06, C:0.29, G:0.43, T:0.23
Consensus pattern (14 bp):
CTCGGTCAGGTCGG
Found at i:8383531 original size:42 final size:43
Alignment explanation
Indices: 8383460--8383591 Score: 142
Period size: 42 Copynumber: 3.1 Consensus size: 43
8383450 TTGTGATTTA
* * ** * *
8383460 TAGTGGCA-TTTTTACCCCAAGCATTGCTAATTATCTTATCTT
1 TAGTGGCATTTTTTACCACAAACACCGCTAATTCTCTTGTCTT
** * * *
8383502 TAGTGGTGTTTTTT-CCGCAAATACGGCTAATTCTCTTGTCTT
1 TAGTGGCATTTTTTACCACAAACACCGCTAATTCTCTTGTCTT
*
8383544 TAGTGGCATTTTTTACCACAAACGCCGCTAATTCTCTTGTCTT
1 TAGTGGCATTTTTTACCACAAACACCGCTAATTCTCTTGTCTT
8383587 TAGTG
1 TAGTG
8383592 TCGTTTGTAA
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
42 39 0.53
43 34 0.47
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.42
Consensus pattern (43 bp):
TAGTGGCATTTTTTACCACAAACACCGCTAATTCTCTTGTCTT
Found at i:8383610 original size:43 final size:43
Alignment explanation
Indices: 8383527--8383616 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
8383517 CGCAAATACG
* * **
8383527 GCTAATTCTCTTGTCTTTAGTGGCATTTTTTACCACAAACGCC
1 GCTAATTCTCTTGTCTTTAGTGGCAGTTTGTAAAACAAACGCC
*
8383570 GCTAATTCTCTTGTCTTTAGTGTC-GTTTGTAAAACTAAACGCC
1 GCTAATTCTCTTGTCTTTAGTGGCAGTTTGTAAAAC-AAACGCC
8383613 GCTA
1 GCTA
8383617 TATATTATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
42 7 0.17
43 34 0.83
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (43 bp):
GCTAATTCTCTTGTCTTTAGTGGCAGTTTGTAAAACAAACGCC
Found at i:8391480 original size:48 final size:48
Alignment explanation
Indices: 8391417--8391676 Score: 253
Period size: 44 Copynumber: 5.7 Consensus size: 48
8391407 CAGTAATAGT
* * *
8391417 ACCTTTATGCCAAAATGCATTGTTATGCATTTAAGTTTCATTTAAGGC
1 ACCTTTCTGCCAAAATGCACTGTTATGCATTTAAGTTTCATTTATGGC
* *
8391465 ACATTTCTGCCAAAATGCACTGTTATGCATTTAAGTTTCATTTGTGGC
1 ACCTTTCTGCCAAAATGCACTGTTATGCATTTAAGTTTCATTTATGGC
*
8391513 ACCTTTCTGCCAAAATGCACCGTTATGCA--T---TTTCATTTATGGC
1 ACCTTTCTGCCAAAATGCACTGTTATGCATTTAAGTTTCATTTATGGC
**
8391556 ACCTTTCTGCCAATAATGCACCATTATGCA--T---TTTCATTTATGGC
1 ACCTTTCTGCCAA-AATGCACTGTTATGCATTTAAGTTTCATTTATGGC
* ** * *
8391600 ACATTTCTGTTAATAATGCACCGTTATGCA--T---TTTCATTTATGGA
1 ACCTTTCTGCCAA-AATGCACTGTTATGCATTTAAGTTTCATTTATGGC
* *
8391644 ACCTTTATGCCAATAATGCACCGTTATGCATTT
1 ACCTTTCTGCCAA-AATGCACTGTTATGCATTT
8391677 TTATTTATTC
Statistics
Matches: 191, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
43 25 0.13
44 94 0.49
46 2 0.01
48 70 0.37
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (48 bp):
ACCTTTCTGCCAAAATGCACTGTTATGCATTTAAGTTTCATTTATGGC
Found at i:8391557 original size:25 final size:25
Alignment explanation
Indices: 8391529--8391653 Score: 67
Period size: 25 Copynumber: 5.5 Consensus size: 25
8391519 CTGCCAAAAT
*
8391529 GCACCGTTATGCATTTTCATTTATG
1 GCACCATTATGCATTTTCATTTATG
** * *
8391554 GCACC-TT-T-C--TGCCAATAAT-
1 GCACCATTATGCATTTTCATTTATG
8391573 GCACCATTATGCATTTTCATTTATG
1 GCACCATTATGCATTTTCATTTATG
* * *
8391598 GCA-CATT-T-C-TGTT-AATAAT-
1 GCACCATTATGCATTTTCATTTATG
*
8391617 GCACCGTTATGCATTTTCATTTATG
1 GCACCATTATGCATTTTCATTTATG
* *
8391642 GAACCTTTATGC
1 GCACCATTATGC
8391654 CAATAATGCA
Statistics
Matches: 71, Mismatches: 17, Indels: 24
0.63 0.15 0.21
Matches are distributed among these distances:
19 8 0.11
20 15 0.21
21 5 0.07
22 4 0.06
23 5 0.07
24 16 0.23
25 18 0.25
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.41
Consensus pattern (25 bp):
GCACCATTATGCATTTTCATTTATG
Found at i:8391589 original size:44 final size:44
Alignment explanation
Indices: 8391452--8391684 Score: 308
Period size: 44 Copynumber: 5.2 Consensus size: 44
8391442 TGCATTTAAG
* * *
8391452 TTTCATTTAAGGCACATTTCTGCCAA-AATGCACTGTTATGCATTT
1 TTTCATTTATGGCACCTTTCTGCCAATAATGCACCGTTATGCA--T
*
8391497 AAGTTTCATTTGTGGCACCTTTCTGCCAA-AATGCACCGTTATGCAT
1 ---TTTCATTTATGGCACCTTTCTGCCAATAATGCACCGTTATGCAT
*
8391543 TTTCATTTATGGCACCTTTCTGCCAATAATGCACCATTATGCAT
1 TTTCATTTATGGCACCTTTCTGCCAATAATGCACCGTTATGCAT
* **
8391587 TTTCATTTATGGCACATTTCTGTTAATAATGCACCGTTATGCAT
1 TTTCATTTATGGCACCTTTCTGCCAATAATGCACCGTTATGCAT
* *
8391631 TTTCATTTATGGAACCTTTATGCCAATAATGCACCGTTATGCAT
1 TTTCATTTATGGCACCTTTCTGCCAATAATGCACCGTTATGCAT
*
8391675 TTTTATTTAT
1 TTTCATTTAT
8391685 TCATTCATTT
Statistics
Matches: 168, Mismatches: 16, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
43 25 0.15
44 104 0.62
46 1 0.01
48 38 0.23
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (44 bp):
TTTCATTTATGGCACCTTTCTGCCAATAATGCACCGTTATGCAT
Found at i:8393317 original size:35 final size:34
Alignment explanation
Indices: 8393274--8393377 Score: 79
Period size: 37 Copynumber: 3.0 Consensus size: 34
8393264 TATTAGTACG
*
8393274 ATAA-TTATTCTTTTGAATATATCAAATTAAAAA
1 ATAATTTATTCTTTTAAATATATCAAATTAAAAA
* * *
8393307 ATATATTTATTATTTATTTAACTATA--AATATTAAAAT
1 ATA-ATTTA-T-TCT-TTTAAATATATCAA-ATTAAAAA
* *
8393344 ATAATTATATACTTTTAAATATTTCAAATTAAAA
1 ATAATT-TATTCTTTTAAATATATCAAATTAAAA
8393378 TCATATTTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
33 3 0.06
34 9 0.17
35 11 0.20
36 9 0.17
37 14 0.26
38 8 0.15
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.46
Consensus pattern (34 bp):
ATAATTTATTCTTTTAAATATATCAAATTAAAAA
Found at i:8398238 original size:37 final size:37
Alignment explanation
Indices: 8398197--8398276 Score: 88
Period size: 37 Copynumber: 2.2 Consensus size: 37
8398187 TTAGTCCTAC
* *
8398197 TAGGATAAAATTTTGCTAGGATTCAAACTCCTAAAAA
1 TAGGATAAAATTCTACTAGGATTCAAACTCCTAAAAA
* * ** * *
8398234 TAGGATAGAGTTCTACTATTATTTAAACTCCTAAAGA
1 TAGGATAAAATTCTACTAGGATTCAAACTCCTAAAAA
8398271 TAGGAT
1 TAGGAT
8398277 CCACAAGCAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (37 bp):
TAGGATAAAATTCTACTAGGATTCAAACTCCTAAAAA
Found at i:8402810 original size:18 final size:17
Alignment explanation
Indices: 8402764--8402811 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
8402754 ACAAAAAGGG
8402764 CAAAAATAAAAAAAGAA
1 CAAAAATAAAAAAAGAA
* *
8402781 GAAAACAAAAAAAAAGAA
1 CAAAA-ATAAAAAAAGAA
8402799 CAAAAATCAAAAA
1 CAAAAAT-AAAAA
8402812 GAAAATGGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.81, C:0.08, G:0.06, T:0.04
Consensus pattern (17 bp):
CAAAAATAAAAAAAGAA
Found at i:8404392 original size:106 final size:106
Alignment explanation
Indices: 8404249--8404972 Score: 1082
Period size: 106 Copynumber: 6.9 Consensus size: 106
8404239 TCTCCACAGT
* * *
8404249 TTCAACTTCACGACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTTAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTT
*
8404314 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGTAAG
66 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * * * * * *
8404355 TTCAACATCACGATGAATGGACCGATGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTT
** *
8404420 CAACTTCACAATGAAGGATATTGGACTCCAAACAACGCAAG
66 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * *
8404461 TTCAACTTCACTATGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTT
8404526 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
66 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* *
8404567 TTCAACTTCACGAGGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTT
*
8404632 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAC
66 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * *
8404673 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTC
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTT
*
8404738 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
66 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * * *
8404779 TTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAGAGTCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTT
* *
8404844 C-A----ACAGCGAAGGATATTGGACTCAAGACAACACAAG
66 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * *
8404880 TTCAACTTCAGGACGAAGGGACCACTGGTTGTCAATAAACAACTTCCCAATTCCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTT
* *
8404945 CAAATTCAC-GACGGAGGATATTGGACTC
66 CAACTTCACAG-CGAAGGATATTGGACTC
8404973 GGAACAATGC
Statistics
Matches: 561, Mismatches: 51, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
101 90 0.16
102 1 0.00
105 2 0.00
106 468 0.83
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTT
CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:8405812 original size:37 final size:37
Alignment explanation
Indices: 8405722--8405826 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
8405712 CCTTTTCATC
8405722 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
8405759 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
** * * *
8405796 CTACTATTATTTAAACTTCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
8405827 CCACAAGTAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:8409347 original size:260 final size:258
Alignment explanation
Indices: 8408875--8409348 Score: 580
Period size: 260 Copynumber: 1.8 Consensus size: 258
8408865 GATAAAGAAA
* * * * * * *
8408875 TTTTCAAAGTTTCTCATTTAATCTTTTTTGAAAATGAAATTTTAGAGAAGAAAGAAAGTGATTTT
1 TTTTAAAACTTTCTCATTTAATCTTTTCTAAAAATGAAATTTTAGAAAAGAAAGAAAGCGATTTC
* * * * * *
8408940 CAAAGTTTCTTACCAGTAGATTATTACCAATACTAATAAGTCATTCAGTCCATTAGTAAGTCTTC
66 CAAAGTTTCTTACCAATAGATAATTACCAAAAATAATAAGTCATTCAGGCCATCAGTAAGTCTTC
* * * *
8409005 TGAGCATGATGATTAAATCTTACGGTTCATTTGTAAGTCATCCAATCAAGATGATAAGTCATTCG
131 TGAGCATGACGATTAAATCTTACGGTTCATCTATAAGTCATCCAAGCAAGATGATAAGTCATTCG
8409070 AGCAATCTATAAGACCTTCAGCCATGATCTTTTCATATGGTTTTTTTAAAATATGAGAAAAGG
196 AGCAATCTATAAGACCTTCAGCCATGATCTTTTCATATGGTTTTTTTAAAATATGAGAAAAGG
* *
8409133 TTTTAAAACTTTCTCATTTAATCTTTTCTAAAAATGAAATTTTTGAAAAGTAAGAAAGCGATTTC
1 TTTTAAAACTTTCTCATTTAATCTTTTCTAAAAATGAAATTTTAGAAAAGAAAGAAAGCGATTTC
* * * * *
8409198 CAAAGTTTCTTACCCAATA-ATCAATTTCTAAAAATGATCAAGT-ATTGTAGGCCATCATTAAGT
66 CAAAGTTTCTTA-CCAATAGAT-AATTACCAAAAATAAT-AAGTCATT-CAGGCCATCAGTAAGT
* * * *
8409261 CTT-TCGAGCATGACGATTAAATGTTTCGAG-TCATCTATAAGTCTTTCAAGCAAGATGATAAGT
127 CTTCT-GAGCATGACGATTAAATCTTACG-GTTCATCTATAAGTCATCCAAGCAAGATGATAAGT
* *
8409324 CCTCTCGA-CCATCTATAAGACCTTC
190 CAT-TCGAGCAATCTATAAGACCTTC
8409349 TTGTAGGAAG
Statistics
Matches: 179, Mismatches: 30, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
258 70 0.39
259 19 0.11
260 85 0.47
261 5 0.03
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.36
Consensus pattern (258 bp):
TTTTAAAACTTTCTCATTTAATCTTTTCTAAAAATGAAATTTTAGAAAAGAAAGAAAGCGATTTC
CAAAGTTTCTTACCAATAGATAATTACCAAAAATAATAAGTCATTCAGGCCATCAGTAAGTCTTC
TGAGCATGACGATTAAATCTTACGGTTCATCTATAAGTCATCCAAGCAAGATGATAAGTCATTCG
AGCAATCTATAAGACCTTCAGCCATGATCTTTTCATATGGTTTTTTTAAAATATGAGAAAAGG
Found at i:8409444 original size:16 final size:14
Alignment explanation
Indices: 8409418--8409492 Score: 50
Period size: 13 Copynumber: 5.4 Consensus size: 14
8409408 CTGATTTCAT
*
8409418 AAAAATGAAATATGA
1 AAAAATAAAATA-GA
8409433 AGAAAATAAAATAGA
1 A-AAAATAAAATAGA
* *
8409448 AAAAACAAAA-ACA
1 AAAAATAAAATAGA
*
8409461 AAAAGA-AGAATA-A
1 AAAA-ATAAAATAGA
*
8409474 AAAAATAAAAGA-A
1 AAAAATAAAATAGA
8409487 AAAAAT
1 AAAAAT
8409493 TTTAGGTGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
12 1 0.02
13 25 0.50
14 10 0.20
15 4 0.08
16 10 0.20
ACGTcount: A:0.77, C:0.03, G:0.09, T:0.11
Consensus pattern (14 bp):
AAAAATAAAATAGA
Found at i:8409467 original size:19 final size:17
Alignment explanation
Indices: 8409435--8409491 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 17
8409425 AAATATGAAG
* *
8409435 AAAATAAAATAGAAAAA
1 AAAAAAAAAAAGAAAAA
8409452 ACAAAAACAAAAAGAAGAATA
1 A-AAAAA-AAAAAGAA-AA-A
*
8409473 AAAAAATAAAAGAAAAA
1 AAAAAAAAAAAGAAAAA
8409490 AA
1 AA
8409492 TTTTAGGTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
17 4 0.12
18 6 0.18
19 14 0.42
20 7 0.21
21 2 0.06
ACGTcount: A:0.82, C:0.04, G:0.07, T:0.07
Consensus pattern (17 bp):
AAAAAAAAAAAGAAAAA
Found at i:8409488 original size:13 final size:13
Alignment explanation
Indices: 8409435--8409492 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 13
8409425 AAATATGAAG
8409435 AAAATAAAATAGAA
1 AAAATAAAATA-AA
* *
8409449 AAAACAAAA-ACA
1 AAAATAAAATAAA
*
8409461 AAAAGAAGAATAAA
1 AAAATAA-AATAAA
*
8409475 AAAATAAAAGAAA
1 AAAATAAAATAAA
8409488 AAAAT
1 AAAAT
8409493 TTTAGGTGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
12 7 0.19
13 13 0.36
14 16 0.44
ACGTcount: A:0.81, C:0.03, G:0.07, T:0.09
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:8413872 original size:16 final size:16
Alignment explanation
Indices: 8413835--8413878 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
8413825 TCATACATTA
8413835 TTATATGATATTTTTG
1 TTATATGATATTTTTG
*
8413851 TAATATGATATTTTAT-
1 TTATATGATATTTT-TG
8413867 TTATATTGATAT
1 TTATA-TGATAT
8413879 ACTTTACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 17 0.71
17 7 0.29
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
TTATATGATATTTTTG
Found at i:8420341 original size:13 final size:13
Alignment explanation
Indices: 8420323--8420348 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8420313 AGATTCAATC
8420323 AGATTTGACCTAT
1 AGATTTGACCTAT
8420336 AGATTTGACCTAT
1 AGATTTGACCTAT
8420349 GAGGAAGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
AGATTTGACCTAT
Found at i:8424390 original size:139 final size:139
Alignment explanation
Indices: 8424136--8424425 Score: 383
Period size: 139 Copynumber: 2.1 Consensus size: 139
8424126 GTGTAGTCCC
*
8424136 TAATTAAAGCCTCACTTTAGATTAATTTCACTTTTAATCCCTTAATTTAGGTAAATATTCGATTT
1 TAATTAGAGCCTCACTTTAGATTAATTTCACTTTTAATCCCTTAATTTAGGTAAATATTCGATTT
*
8424201 GGTCCTCGCCTTAATTCCCAAGATTCCATTTCGATTATTCAATTCAATAATTAGTTAAAATCA-A
66 GGTCCTCGCCTTAATGCCCAAGATTCCATTTCGATTATTCAATTCAATAATTAGTTAAAA-CACA
8424265 TTAGGATTAA
130 TTAGGATTAA
* *
8424275 TAATTAGAGCCTCCACTTTAGATTAATTTCACTTTTAATCCTTTAATTTAGG-GAATATTC-ATT
1 TAATTAGAGCCT-CACTTTAGATTAATTTCACTTTTAATCCCTTAATTTAGGTAAATATTCGA-T
* * * * * * * *
8424338 TTGGTCCTCGCTTTAATGCTCGAGGTTCCATTTTGATTATTTGATTTC-ATAATTTGTTAAAACA
64 TTGGTCCTCGCCTTAATGCCCAAGATTCCATTTCGATTA-TTCAATTCAATAATTAGTTAAAACA
*
8424402 CGATTAGGATTGA
128 C-ATTAGGATTAA
8424415 T-ATTAGAGCCT
1 TAATTAGAGCCT
8424426 ATATTTTTAT
Statistics
Matches: 133, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
138 3 0.02
139 75 0.56
140 55 0.41
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (139 bp):
TAATTAGAGCCTCACTTTAGATTAATTTCACTTTTAATCCCTTAATTTAGGTAAATATTCGATTT
GGTCCTCGCCTTAATGCCCAAGATTCCATTTCGATTATTCAATTCAATAATTAGTTAAAACACAT
TAGGATTAA
Found at i:8429975 original size:82 final size:82
Alignment explanation
Indices: 8429838--8430007 Score: 313
Period size: 82 Copynumber: 2.1 Consensus size: 82
8429828 TATCCTTGTC
* *
8429838 AGTTTTTAAGCAGATGACGGGGTGTGGTAGTGAGTGATAATTCGTGTGCATCTTGAGAAAACTTT
1 AGTTTTTAAGAAGATGACGGGGTGTGGTAGTGAGTGATAATTCATGTGCATCTTGAGAAAACTTT
8429903 TATATTGAAATAAAGCT
66 TATATTGAAATAAAGCT
*
8429920 AGTTTTTAAGAAGATGACGTGGTGTGGTAGTGAGTGATAATTCATGTGCATCTTGAGAAAACTTT
1 AGTTTTTAAGAAGATGACGGGGTGTGGTAGTGAGTGATAATTCATGTGCATCTTGAGAAAACTTT
8429985 TATATTGAAATAAAGCT
66 TATATTGAAATAAAGCT
8430002 AGTTTT
1 AGTTTT
8430008 CTGTGCTAAC
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 85 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (82 bp):
AGTTTTTAAGAAGATGACGGGGTGTGGTAGTGAGTGATAATTCATGTGCATCTTGAGAAAACTTT
TATATTGAAATAAAGCT
Found at i:8444547 original size:15 final size:15
Alignment explanation
Indices: 8444523--8444553 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8444513 TTAGACATTG
*
8444523 GAAAAGTAAGTATCA
1 GAAAAATAAGTATCA
8444538 GAAAAATAAGTATCA
1 GAAAAATAAGTATCA
8444553 G
1 G
8444554 TATTCTCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.19, T:0.19
Consensus pattern (15 bp):
GAAAAATAAGTATCA
Found at i:8448373 original size:20 final size:21
Alignment explanation
Indices: 8448348--8448402 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 21
8448338 TATAATATTT
8448348 TAATTATAAAAAAATCATT-A
1 TAATTATAAAAAAATCATTAA
* *
8448368 TAATTATAAAACTAATTATTAAA
1 TAATTATAAAA-AAATCATT-AA
8448391 TAATTATAAAAA
1 TAATTATAAAAA
8448403 TAGTTATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 11 0.38
21 6 0.21
23 12 0.41
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (21 bp):
TAATTATAAAAAAATCATTAA
Found at i:8448386 original size:18 final size:16
Alignment explanation
Indices: 8448325--8448378 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 16
8448315 AAATTTTATC
*
8448325 AATATTATAATTATAT
1 AATATTATAATTATAA
*
8448341 AATATTTTAATTATAAAAA
1 AATATTATAATTAT---AA
8448360 AATCATTATAATTATAA
1 AAT-ATTATAATTATAA
8448377 AA
1 AA
8448379 CTAATTATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 13 0.42
17 4 0.13
19 4 0.13
20 10 0.32
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATTATAATTATAA
Found at i:8448396 original size:11 final size:11
Alignment explanation
Indices: 8448367--8448401 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
8448357 AAAAATCATT
8448367 ATAATTATAAA
1 ATAATTATAAA
*
8448378 ACTAATTATTAA
1 A-TAATTATAAA
8448390 ATAATTATAAA
1 ATAATTATAAA
8448401 A
1 A
8448402 ATAGTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAATTATAAA
Found at i:8448403 original size:12 final size:12
Alignment explanation
Indices: 8448367--8448410 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
8448357 AAAAATCATT
8448367 ATAATTATAAAA
1 ATAATTATAAAA
* *
8448379 CTAATTAT-TAA
1 ATAATTATAAAA
8448390 ATAATTATAAAA
1 ATAATTATAAAA
*
8448402 ATAGTTATA
1 ATAATTATA
8448411 TTTTTCCTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (12 bp):
ATAATTATAAAA
Found at i:8448583 original size:20 final size:20
Alignment explanation
Indices: 8448556--8448640 Score: 125
Period size: 20 Copynumber: 4.2 Consensus size: 20
8448546 ACTGTGTTTA
*
8448556 GCGATTCTGACTATCGCAAC
1 GCGATGCTGACTATCGCAAC
* *
8448576 GAGATTCTGACTATCGCAAC
1 GCGATGCTGACTATCGCAAC
8448596 GCGATGCTGACTATCGCAAC
1 GCGATGCTGACTATCGCAAC
* *
8448616 GCGATGCTGACTATCACAAT
1 GCGATGCTGACTATCGCAAC
8448636 GCGAT
1 GCGAT
8448641 TTTCAAAGCG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (20 bp):
GCGATGCTGACTATCGCAAC
Found at i:8448825 original size:22 final size:22
Alignment explanation
Indices: 8448800--8448842 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
8448790 GGCGACATTC
8448800 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
8448822 GTCCCCATCTCCGACGAAATC
1 GTCCCCATCTCCGACGAAATC
8448843 CGTCTATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.26, C:0.42, G:0.14, T:0.19
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:8449211 original size:19 final size:19
Alignment explanation
Indices: 8449187--8449234 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
8449177 TGAAACCGAT
8449187 AATCGCAACGTAAAATGAA
1 AATCGCAACGTAAAATGAA
8449206 AATCGCAACGTAAAATGAA
1 AATCGCAACGTAAAATGAA
*
8449225 AATCACAACG
1 AATCGCAACG
8449235 ACAGAATCGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.52, C:0.19, G:0.15, T:0.15
Consensus pattern (19 bp):
AATCGCAACGTAAAATGAA
Found at i:8449248 original size:33 final size:33
Alignment explanation
Indices: 8449206--8449279 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 33
8449196 GTAAAATGAA
* *
8449206 AATCGCAACGTAAAATGAAAATC-ACAACGACAG
1 AATCGCAACGCAAAATGAAAAGCGA-AACGACAG
*
8449239 AATCGCAACGCGAAATGAAAAGCGAAACGACAG
1 AATCGCAACGCAAAATGAAAAGCGAAACGACAG
8449272 AATCGCAA
1 AATCGCAA
8449280 TGCGATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 36 0.97
34 1 0.03
ACGTcount: A:0.50, C:0.22, G:0.19, T:0.09
Consensus pattern (33 bp):
AATCGCAACGCAAAATGAAAAGCGAAACGACAG
Found at i:8451789 original size:2 final size:2
Alignment explanation
Indices: 8451653--8451770 Score: 134
Period size: 2 Copynumber: 59.0 Consensus size: 2
8451643 ACACACACCC
*
8451653 AT AT AT AT AT AT AT AT AT AT -T AA ACT AT AT AT AT AT CAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT -AT AT AT
* * * *
8451696 GT AT AT GT -T AT A- AT AT AT AT AT AT CAT AT AT GT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
*
8451737 AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8451771 GTTATACATG
Statistics
Matches: 99, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
1 3 0.03
2 91 0.92
3 5 0.05
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8452197 original size:14 final size:15
Alignment explanation
Indices: 8452178--8452206 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8452168 ATATTTTATT
8452178 TTTAAAA-AATAAAA
1 TTTAAAATAATAAAA
8452192 TTTAAAATAATAAAA
1 TTTAAAATAATAAAA
8452207 AATTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TTTAAAATAATAAAA
Found at i:8465495 original size:18 final size:18
Alignment explanation
Indices: 8465472--8465509 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8465462 TGCACCCAAG
*
8465472 TGTCACAATTTACCGAAA
1 TGTCACAATGTACCGAAA
*
8465490 TGTCACAATGTACCGCAA
1 TGTCACAATGTACCGAAA
8465508 TG
1 TG
8465510 CAACTGTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (18 bp):
TGTCACAATGTACCGAAA
Found at i:8468912 original size:20 final size:21
Alignment explanation
Indices: 8468875--8468913 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
8468865 GATGGTCTTG
*
8468875 ATGAAGGATGTTGATGATGAA
1 ATGAAGGATGGTGATGATGAA
*
8468896 ATGAA-GATGGTGGTGATG
1 ATGAAGGATGGTGATGATG
8468914 TTGTATCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.38, T:0.28
Consensus pattern (21 bp):
ATGAAGGATGGTGATGATGAA
Found at i:8471182 original size:20 final size:21
Alignment explanation
Indices: 8471145--8471183 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
8471135 GATGATGGTG
*
8471145 ATGAAGGATGTTGATGATGAA
1 ATGAAGGATGGTGATGATGAA
*
8471166 ATGAA-GATGGTGGTGATG
1 ATGAAGGATGGTGATGATG
8471184 TTGTATCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.38, T:0.28
Consensus pattern (21 bp):
ATGAAGGATGGTGATGATGAA
Found at i:8471562 original size:19 final size:20
Alignment explanation
Indices: 8471521--8471571 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
8471511 GAAACCCCTT
*
8471521 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
8471541 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
8471560 TGAAGATACATG
1 TGAAAATACATG
8471572 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:8474766 original size:278 final size:281
Alignment explanation
Indices: 8474367--8474926 Score: 1090
Period size: 278 Copynumber: 2.0 Consensus size: 281
8474357 TAATTTTCTA
8474367 ATTTATTCTAATTAAGACCCTTAACATTTTTAAATTTATTTTTTAAAATTTAATTTATTTATTTG
1 ATTTATTCTAATTAAGACCCTTAACATTTTTAAATTTATTTTTTAAAATTTAATTTATTTATTTG
8474432 GTTTTTTCTTTCACGTCTATATTTATTTTTACAGAGCTAATTCATTGTTTTAATTTTGAGATCTA
66 GTTTTTTCTTTCACGTCTATATTTATTTTTACAGAGCTAATTCATTGTTTTAATTTTGAGATCTA
8474497 TTGTTGTTATCTTATTTTTACTGATACGATCTTTTTTTGTTCTTTCTCATTTTTAGTTGAATTCT
131 TTGTTGTTATCTTATTTTTACTGATACGATCTTTTTTTGTTCTTTCTCATTTTTAGTTGAATTCT
8474562 CCTATTCATTCTTAAGTGAAAACTACTTCCATGGTACAAGCGGGATG-TAAGGGACCATAAATGA
196 CCTATTCATTCTTAAGTGAAAACTACTTCCATGGTACAAGCGGGATGTTAAGGGACCATAAATGA
8474626 AA-TAAAGTTTGAA-TCATCT
261 AATTAAAGTTTGAATTCATCT
8474645 ATTTATTCTAATTAAGACCCTTAACATTTTTAAATTTATTTTTTAAAATTTAATTTATTTATTTG
1 ATTTATTCTAATTAAGACCCTTAACATTTTTAAATTTATTTTTTAAAATTTAATTTATTTATTTG
8474710 GTTTTTTCTTTCACGTCTATATTTATTTTTACAGAGCTAATTCATTGTTTTAATTTTGAGATCTA
66 GTTTTTTCTTTCACGTCTATATTTATTTTTACAGAGCTAATTCATTGTTTTAATTTTGAGATCTA
8474775 TTGTTGTTATCTTATTTTTACTGATACGATCTTTTTTTGTTCTTTCTCATTTTTAGTTGAATTCT
131 TTGTTGTTATCTTATTTTTACTGATACGATCTTTTTTTGTTCTTTCTCATTTTTAGTTGAATTCT
8474840 CCTATTCATTCTTAAGTGAAAACTACTTCCATGGTACAAGCGGGATGTTTAAGGGACCATAAATG
196 CCTATTCATTCTTAAGTGAAAACTACTTCCATGGTACAAGCGGGATG-TTAAGGGACCATAAATG
8474905 AAATTAAAGTTTGAATTCATCT
260 AAATTAAAGTTTGAATTCATCT
8474927 CTAAGGACAA
Statistics
Matches: 278, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
278 242 0.87
280 19 0.07
281 11 0.04
282 6 0.02
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.49
Consensus pattern (281 bp):
ATTTATTCTAATTAAGACCCTTAACATTTTTAAATTTATTTTTTAAAATTTAATTTATTTATTTG
GTTTTTTCTTTCACGTCTATATTTATTTTTACAGAGCTAATTCATTGTTTTAATTTTGAGATCTA
TTGTTGTTATCTTATTTTTACTGATACGATCTTTTTTTGTTCTTTCTCATTTTTAGTTGAATTCT
CCTATTCATTCTTAAGTGAAAACTACTTCCATGGTACAAGCGGGATGTTAAGGGACCATAAATGA
AATTAAAGTTTGAATTCATCT
Found at i:8478559 original size:17 final size:17
Alignment explanation
Indices: 8478537--8478589 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
8478527 AATTAAGAAT
8478537 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* *
8478554 TAGTTTGATGAATGAAC
1 TAGTTTAATAAATGAAC
* * *
8478571 CAATTTAATTAATGAAC
1 TAGTTTAATAAATGAAC
8478588 TA
1 TA
8478590 ACTTTCTTCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:8478684 original size:17 final size:17
Alignment explanation
Indices: 8478664--8478705 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
8478654 ACTACTTCCC
8478664 TAAATGAAATACATGCT
1 TAAATGAAATACATGCT
* *
8478681 TAAATGCAATGCATGCT
1 TAAATGAAATACATGCT
*
8478698 TGAATGAA
1 TAAATGAA
8478706 CAACTTACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.29
Consensus pattern (17 bp):
TAAATGAAATACATGCT
Found at i:8494592 original size:45 final size:44
Alignment explanation
Indices: 8494501--8494644 Score: 116
Period size: 45 Copynumber: 3.2 Consensus size: 44
8494491 GTGCCGATAA
* * *
8494501 TGTGTGACCTAGACC-TATCCTAAGGTATTTGGGATG-TGCTAGTGT
1 TGTGTGACCTAGACCTTA-CCTGAGGTACTTGGGA-GATGATA-TGT
*
8494546 TGTGTGACCTGGACCTTACCTGAGGTACTTGGGAGATGATGATGT
1 TGTGTGACCTAGACCTTACCTGAGGTACTTGGGAGATGAT-ATGT
* * * *
8494591 TGTGTAACTTAGACCTCT-CCTGAGGTACATGAGAGAT-ATTTATGT
1 TGTGTGACCTAGACCT-TACCTGAGGTACTTGGGAGATGA--TATGT
*
8494636 TGTATGACC
1 TGTGTGACC
8494645 CATGTCTTAC
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
44 2 0.02
45 74 0.91
46 5 0.06
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (44 bp):
TGTGTGACCTAGACCTTACCTGAGGTACTTGGGAGATGATATGT
Found at i:8495722 original size:18 final size:18
Alignment explanation
Indices: 8495699--8495737 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
8495689 TGTGAAAAAA
8495699 ATTCCCACAAATAAAGTG
1 ATTCCCACAAATAAAGTG
8495717 ATTCCCACAAATAAAGTG
1 ATTCCCACAAATAAAGTG
8495735 ATT
1 ATT
8495738 TTTTTAGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.26
Consensus pattern (18 bp):
ATTCCCACAAATAAAGTG
Found at i:8505842 original size:30 final size:30
Alignment explanation
Indices: 8505806--8505870 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
8505796 CAGAACCAGT
* * *
8505806 GGTTCACACTGGTTGTGCCGGTTTTTAGCC
1 GGTTCACACCGGTTGTACCGGTTTTCAGCC
* *
8505836 GGTTCACCCCGGTTTTACCGGTTTTCAGCC
1 GGTTCACACCGGTTGTACCGGTTTTCAGCC
*
8505866 AGTTC
1 GGTTC
8505871 TATCGGTTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.11, C:0.28, G:0.26, T:0.35
Consensus pattern (30 bp):
GGTTCACACCGGTTGTACCGGTTTTCAGCC
Found at i:8508876 original size:169 final size:172
Alignment explanation
Indices: 8508569--8508910 Score: 530
Period size: 169 Copynumber: 2.0 Consensus size: 172
8508559 AAAATGAAGA
* *
8508569 CTTTGAATAAGGATGTGAATGTATATTTGAGGCCAGAGTGATATTAATAGATGATCAAGATCTTG
1 CTTTAAATAAGGATGTGAATGTAGATTTGAGGCCAGAGTGATATTAATAGATGATCAAGATCTTG
*
8508634 TTAAGGTGCATACATGGTAATCTAAGAAAACTATAGAAATCATGTATGGTCCCGGAGAGCATAAT
66 TTAAGGTG-A-ACATGGTAATCTAAGAAAACTATAGAAATCATGTATGGTCCCGGAGAGCATAAC
*
8508699 AGATGTCATGCTAGAAAAAAACAACAATTAAGGATGAAGTTTCTG
129 AAATGTCATGCTAG-AAAAAACAACAATTAAGGATGAAGTTTCTG
*
8508744 CTTTAAATAAGGATGTGAATGTAGGTTTGAGGCCAGAGTGATATTAA-AGATGATCAAGATCTTG
1 CTTTAAATAAGGATGTGAATGTAGATTTGAGGCCAGAGTGATATTAATAGATGATCAAGATCTTG
* ** * *
8508808 TTAA-G-G-AGATGGTAATCTAAGCCAATTATAGAAATCATGTATGGTCCCGGAGTGCATAACAA
66 TTAAGGTGAACATGGTAATCTAAGAAAACTATAGAAATCATGTATGGTCCCGGAGAGCATAACAA
*
8508870 ATGTCATGCTAGGAAAAACAACAATTAAGGATGAAGTTTCT
131 ATGTCATGCTAGAAAAAACAACAATTAAGGATGAAGTTTCT
8508911 AACATAAAAA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
168 28 0.18
169 61 0.39
172 1 0.01
173 1 0.01
174 21 0.13
175 44 0.28
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (172 bp):
CTTTAAATAAGGATGTGAATGTAGATTTGAGGCCAGAGTGATATTAATAGATGATCAAGATCTTG
TTAAGGTGAACATGGTAATCTAAGAAAACTATAGAAATCATGTATGGTCCCGGAGAGCATAACAA
ATGTCATGCTAGAAAAAACAACAATTAAGGATGAAGTTTCTG
Found at i:8510401 original size:11 final size:10
Alignment explanation
Indices: 8510372--8510413 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
8510362 ATTGAAAGTA
*
8510372 TTTTATTTTG
1 TTTTATTTTT
8510382 TTTTA-TTTT
1 TTTTATTTTT
*
8510391 TTTCATTTTT
1 TTTTATTTTT
*
8510401 TTTTGTTTTT
1 TTTTATTTTT
8510411 TTT
1 TTT
8510414 AGATTTTTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 7 0.26
10 20 0.74
ACGTcount: A:0.07, C:0.02, G:0.05, T:0.86
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:8510404 original size:19 final size:18
Alignment explanation
Indices: 8510372--8510412 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
8510362 ATTGAAAGTA
8510372 TTTTATTTTGTTTTATTT
1 TTTTATTTTGTTTTATTT
* *
8510390 TTTTCATTTTTTTTTGTTT
1 TTTT-ATTTTGTTTTATTT
8510409 TTTT
1 TTTT
8510413 TAGATTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.07, C:0.02, G:0.05, T:0.85
Consensus pattern (18 bp):
TTTTATTTTGTTTTATTT
Found at i:8522439 original size:18 final size:18
Alignment explanation
Indices: 8522416--8522461 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
8522406 AGAAAGTCCC
8522416 AGCCCACTGAAGCAGAAG
1 AGCCCACTGAAGCAGAAG
* *
8522434 AGCCCACTGAAGCTGAGG
1 AGCCCACTGAAGCAGAAG
*
8522452 ATCCCACTGA
1 AGCCCACTGA
8522462 CCCTGATCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.33, C:0.30, G:0.26, T:0.11
Consensus pattern (18 bp):
AGCCCACTGAAGCAGAAG
Found at i:8525880 original size:39 final size:39
Alignment explanation
Indices: 8525814--8525990 Score: 194
Period size: 39 Copynumber: 4.5 Consensus size: 39
8525804 GTTATTAGGC
* * *
8525814 AAGTGTAATAAAGGCGATAATGTCTAAGGTGAGGATGCT
1 AAGTGCAATAAAGGCGATAATGCCTAAGGTGAGGATGAT
** * *
8525853 AAGTGCAATAAAGGTAAGAATGCCTAAGCTGAGGATGAT
1 AAGTGCAATAAAGGCGATAATGCCTAAGGTGAGGATGAT
* ** *
8525892 GAA-TACAATAAAAACGATAATGCCTAAGGTGAGGATGTT
1 -AAGTGCAATAAAGGCGATAATGCCTAAGGTGAGGATGAT
*
8525931 GAGTGCAATAAAGGCGATAATGCCTAAGGTGAGGATGAT
1 AAGTGCAATAAAGGCGATAATGCCTAAGGTGAGGATGAT
* ** *
8525970 GAGTTTAATAAGGGCGATAAT
1 AAGTGCAATAAAGGCGATAAT
8525991 ATCCAAGAAT
Statistics
Matches: 113, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
38 1 0.01
39 110 0.97
40 2 0.02
ACGTcount: A:0.39, C:0.09, G:0.29, T:0.23
Consensus pattern (39 bp):
AAGTGCAATAAAGGCGATAATGCCTAAGGTGAGGATGAT
Found at i:8525988 original size:78 final size:78
Alignment explanation
Indices: 8525819--8525990 Score: 227
Period size: 78 Copynumber: 2.2 Consensus size: 78
8525809 TAGGCAAGTG
* *
8525819 TAATAAAGGCGATAATGTCTAAGGTGAGGATGCTAAGTGCAATAAAGGTAAGAATGCCTAAGCTG
1 TAATAAAGGCGATAATGCCTAAGGTGAGGATGCTAAGTGCAATAAAGGCAAGAATGCCTAAGCTG
8525884 AGGATGATGAATA
66 AGGATGATGAATA
* ** * * * * *
8525897 CAATAAAAACGATAATGCCTAAGGTGAGGATGTTGAGTGCAATAAAGGCGATAATGCCTAAGGTG
1 TAATAAAGGCGATAATGCCTAAGGTGAGGATGCTAAGTGCAATAAAGGCAAGAATGCCTAAGCTG
* *
8525962 AGGATGATGAGTT
66 AGGATGATGAATA
*
8525975 TAATAAGGGCGATAAT
1 TAATAAAGGCGATAAT
8525991 ATCCAAGAAT
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.39, C:0.09, G:0.28, T:0.23
Consensus pattern (78 bp):
TAATAAAGGCGATAATGCCTAAGGTGAGGATGCTAAGTGCAATAAAGGCAAGAATGCCTAAGCTG
AGGATGATGAATA
Found at i:8528044 original size:21 final size:22
Alignment explanation
Indices: 8528018--8528058 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8528008 TTCAAAACAG
*
8528018 GGGGTATCGATACT-CCTTTAT
1 GGGGTATCAATACTACCTTTAT
8528039 GGGGTATCAATACTACCTTT
1 GGGGTATCAATACTACCTTT
8528059 GTTAAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (22 bp):
GGGGTATCAATACTACCTTTAT
Found at i:8532634 original size:19 final size:20
Alignment explanation
Indices: 8532610--8532647 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
8532600 TAAAGATAAA
8532610 TCGATTTTAAAAAT-AAAAG
1 TCGATTTTAAAAATCAAAAG
8532629 TCGATTTTAAAAATCAAAA
1 TCGATTTTAAAAATCAAAA
8532648 TGAAATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.32
Consensus pattern (20 bp):
TCGATTTTAAAAATCAAAAG
Found at i:8535564 original size:18 final size:16
Alignment explanation
Indices: 8535526--8535571 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 16
8535516 GGTAGACCTA
8535526 AAAAAGAA-GAACGAG
1 AAAAAGAAGGAACGAG
*
8535541 ACAAAGAAGGAGACAGAG
1 AAAAAGAAGGA-AC-GAG
8535559 AAAAAGAA-GAACG
1 AAAAAGAAGGAACG
8535572 TTAGAGTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 8 0.31
16 4 0.15
17 4 0.15
18 10 0.38
ACGTcount: A:0.63, C:0.09, G:0.28, T:0.00
Consensus pattern (16 bp):
AAAAAGAAGGAACGAG
Found at i:8540388 original size:21 final size:20
Alignment explanation
Indices: 8540364--8540409 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
8540354 TAAAAAAAAA
8540364 GTTTTTGATTTTAA-AACTGTT
1 GTTTTTGA-TTTAATAA-TGTT
*
8540385 GTTTTTTATTTAATAATGTT
1 GTTTTTGATTTAATAATGTT
8540405 GTTTT
1 GTTTT
8540410 CATGAAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.22, C:0.02, G:0.13, T:0.63
Consensus pattern (20 bp):
GTTTTTGATTTAATAATGTT
Found at i:8540463 original size:12 final size:12
Alignment explanation
Indices: 8540434--8540467 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
8540424 GTATTATAAT
*
8540434 TTTTCAAACATTG
1 TTTTCAAA-ATAG
8540447 TTTTCAAAATAG
1 TTTTCAAAATAG
8540459 TTTTCAAAA
1 TTTTCAAAA
8540468 ATTTCCCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (12 bp):
TTTTCAAAATAG
Found at i:8541979 original size:13 final size:13
Alignment explanation
Indices: 8541961--8541985 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8541951 ACCATTACAC
8541961 ATTGATTATGAAT
1 ATTGATTATGAAT
8541974 ATTGATTATGAA
1 ATTGATTATGAA
8541986 CTAATGGCTA
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:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
ATTGATTATGAAT
Found at i:8543429 original size:18 final size:21
Alignment explanation
Indices: 8543405--8543455 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 21
8543395 ATATATTTTC
8543405 AACAATTGGTAT-CTTTT-T-
1 AACAATTGGTATCCTTTTGTA
* *
8543423 AATAATTGATATCCTTTTGTA
1 AACAATTGGTATCCTTTTGTA
8543444 AACAATTGGTAT
1 AACAATTGGTAT
8543456 AATTTTCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 10 0.38
19 5 0.19
20 1 0.04
21 10 0.38
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (21 bp):
AACAATTGGTATCCTTTTGTA
Found at i:8543702 original size:22 final size:22
Alignment explanation
Indices: 8543673--8543780 Score: 171
Period size: 22 Copynumber: 4.9 Consensus size: 22
8543663 AATATTAAGA
*
8543673 GGTACCGATACCCCTATGAATG
1 GGTATCGATACCCCTATGAATG
* * *
8543695 TGTACCGATACCCCTACGAATG
1 GGTATCGATACCCCTATGAATG
8543717 GGTATCGATACCCCTATGAATG
1 GGTATCGATACCCCTATGAATG
8543739 GGTATCGATACCCCTATGAATG
1 GGTATCGATACCCCTATGAATG
*
8543761 GGTATCGATATCCCTATGAA
1 GGTATCGATACCCCTATGAA
8543781 GGCTCAAATT
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 80 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (22 bp):
GGTATCGATACCCCTATGAATG
Found at i:8547094 original size:19 final size:20
Alignment explanation
Indices: 8547063--8547139 Score: 54
Period size: 19 Copynumber: 3.8 Consensus size: 20
8547053 TTTAAAATAA
8547063 TATATTC-ATAATAATTTAT
1 TATATTCTATAATAATTTAT
8547082 TATATTCTA-AAT-ATTTAAAAT
1 TATATTCTATAATAATTT---AT
*
8547103 AATATATTTTATAATAATTTAT
1 --TATATTCTATAATAATTTAT
* *
8547125 TACATTTTA-AATAAT
1 TATATTCTATAATAAT
8547140 AAAAAACTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
18 4 0.08
19 16 0.33
20 9 0.19
21 2 0.04
22 2 0.04
23 8 0.17
24 3 0.06
25 4 0.08
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (20 bp):
TATATTCTATAATAATTTAT
Found at i:8547117 original size:43 final size:43
Alignment explanation
Indices: 8547048--8547155 Score: 141
Period size: 43 Copynumber: 2.5 Consensus size: 43
8547038 TAAATATATT
* *
8547048 AATATTTTAAAATAATATA-TTCATAATAATTTATTATATTCTA
1 AATA-TTTAAAATAATATATTTTATAATAATTTATTACATTCTA
*
8547091 AATATTTAAAATAATATATTTTATAATAATTTATTACATTTTA
1 AATATTTAAAATAATATATTTTATAATAATTTATTACATTCTA
*
8547134 AATA-ATAAAA-AACTATATTTTA
1 AATATTTAAAATAA-TATATTTTA
8547156 ATATTATAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
41 2 0.03
42 28 0.47
43 29 0.49
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (43 bp):
AATATTTAAAATAATATATTTTATAATAATTTATTACATTCTA
Found at i:8547143 original size:42 final size:43
Alignment explanation
Indices: 8547055--8547155 Score: 136
Period size: 42 Copynumber: 2.4 Consensus size: 43
8547045 ATTAATATTT
* * *
8547055 TAAAATAATATA-TTCATAATAATTTATTATATTCTAAATATT
1 TAAAATAATATATTTTATAATAATTTATTACATTCTAAATATA
*
8547097 TAAAATAATATATTTTATAATAATTTATTACATTTTAAATA-A
1 TAAAATAATATATTTTATAATAATTTATTACATTCTAAATATA
8547139 TAAAA-AACTATATTTTA
1 TAAAATAA-TATATTTTA
8547156 ATATTATAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
41 2 0.04
42 26 0.49
43 25 0.47
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.47
Consensus pattern (43 bp):
TAAAATAATATATTTTATAATAATTTATTACATTCTAAATATA
Found at i:8548716 original size:14 final size:14
Alignment explanation
Indices: 8548668--8548717 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
8548658 GTGGGGTTTG
*
8548668 TTCCATTTTCC-TC
1 TTCCATCTTCCTTC
*
8548681 TT-CATCTTCTTTC
1 TTCCATCTTCCTTC
**
8548694 TTCTTTCTTCCTTC
1 TTCCATCTTCCTTC
8548708 TTCCATCTTC
1 TTCCATCTTC
8548718 TCCTCCAAGC
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
12 6 0.21
13 6 0.21
14 16 0.57
ACGTcount: A:0.06, C:0.36, G:0.00, T:0.58
Consensus pattern (14 bp):
TTCCATCTTCCTTC
Found at i:8557968 original size:3 final size:3
Alignment explanation
Indices: 8557960--8557989 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
8557950 TTTCGCACTA
8557960 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8557990 AAACTCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8558234 original size:17 final size:16
Alignment explanation
Indices: 8558178--8558237 Score: 57
Period size: 19 Copynumber: 3.3 Consensus size: 16
8558168 AACCAACCAC
8558178 AAAATCAAATCAAAACATA
1 AAAATCAAAT-AAAA-A-A
8558197 AAAATCAAATAAAAAA
1 AAAATCAAATAAAAAA
8558213 TAAAATCAAATTTAATAAAA
1 -AAAATCAAA--TAA-AAAA
8558233 AAAAT
1 AAAAT
8558238 TCAATTTAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
16 1 0.03
17 10 0.27
18 4 0.11
19 18 0.49
20 4 0.11
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAATCAAATAAAAAA
Found at i:8558393 original size:20 final size:20
Alignment explanation
Indices: 8558355--8558395 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8558345 GCAAGATACG
**
8558355 AAAAGAAAAAGAATCGAAAA
1 AAAAGAAAAAGAAAAGAAAA
*
8558375 AAAAGGAAAAGAAAAGAAAA
1 AAAAGAAAAAGAAAAGAAAA
8558395 A
1 A
8558396 GAGAGGGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.02
Consensus pattern (20 bp):
AAAAGAAAAAGAAAAGAAAA
Found at i:8559012 original size:20 final size:20
Alignment explanation
Indices: 8558987--8559140 Score: 211
Period size: 20 Copynumber: 7.7 Consensus size: 20
8558977 TTTTCCAAAT
8558987 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
8559007 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
8559028 TCGCAATGC-AATTACGTAAA
1 TCGCAATGCGAA-TACGTAAA
* *
8559048 TCACAATGTGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
8559068 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
8559088 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
8559108 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
*
8559128 TCGTAATGCGAAT
1 TCGCAATGCGAAT
8559141 CTGACTATCG
Statistics
Matches: 118, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
20 103 0.87
21 15 0.13
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:8559150 original size:20 final size:20
Alignment explanation
Indices: 8559140--8559233 Score: 152
Period size: 20 Copynumber: 4.7 Consensus size: 20
8559130 GTAATGCGAA
* * *
8559140 TCTGACTATCGCAATGCGAA
1 TCTGACTATCGCAACGAGAT
*
8559160 TCTGACTATCGCAACAAGAT
1 TCTGACTATCGCAACGAGAT
8559180 TCTGACTATCGCAACGAGAT
1 TCTGACTATCGCAACGAGAT
8559200 TCTGACTATCGCAACGAGAT
1 TCTGACTATCGCAACGAGAT
8559220 TCTGACTATCGCAA
1 TCTGACTATCGCAA
8559234 TACTGAATTT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (20 bp):
TCTGACTATCGCAACGAGAT
Found at i:8559151 original size:60 final size:59
Alignment explanation
Indices: 8558987--8559160 Score: 217
Period size: 60 Copynumber: 2.9 Consensus size: 59
8558977 TTTTCCAAAT
* *
8558987 TCGCAATGCGAATACGTAAATCGCAACGCGAATTTGGAAAATCGCAATGC-AATTACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATCT-G-AAATCGCAATGCGAA-TACGTAAA
* *
8559048 TCACAATGTGAATACGTAAATCGCAATGCGAATAC-GTAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAAT-CTG-AAATCGCAATGCGAATACGTAAA
* * *
8559108 TCGCAATGCGAATATGTAAATCGTAATGCGAATCTGACTATCGCAATGCGAAT
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATCTGA-AATCGCAATGCGAAT
8559161 CTGACTATCG
Statistics
Matches: 99, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
59 2 0.02
60 65 0.66
61 32 0.32
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.23
Consensus pattern (59 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGAATCTGAAATCGCAATGCGAATACGTAAA
Found at i:8560102 original size:24 final size:24
Alignment explanation
Indices: 8560075--8560128 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
8560065 GTATTCGAAA
8560075 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
8560099 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
8560123 TTTGAT
1 TTTGAT
8560129 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:8562569 original size:20 final size:20
Alignment explanation
Indices: 8562544--8562635 Score: 141
Period size: 20 Copynumber: 4.6 Consensus size: 20
8562534 GACATTCATT
8562544 TGACTATCGCAACGC-GAATA
1 TGACTATCGCAACGCGGAA-A
* *
8562564 TGACTATCACAACACGGAAA
1 TGACTATCGCAACGCGGAAA
*
8562584 TGACTATCGCAACGCGGAAT
1 TGACTATCGCAACGCGGAAA
8562604 TGACTATCGCAACGCGGAAA
1 TGACTATCGCAACGCGGAAA
8562624 TGACTATCGCAA
1 TGACTATCGCAA
8562636 TGAGAGAATC
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
20 62 0.95
21 3 0.05
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (20 bp):
TGACTATCGCAACGCGGAAA
Found at i:8562659 original size:33 final size:33
Alignment explanation
Indices: 8562609--8562704 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
8562599 GGAATTGACT
* **
8562609 ATCGCAACGCGGAAATGACTATCGCAATGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAATGAGAGA
* *
8562643 ATCGCAATGCGAAATGAAAATCGCAAGGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAATGAGAGA
8562676 ATCGCAATGCGAAAATGAAAATCGCAATG
1 ATCGCAATGCG-AAATGAAAATCGCAATG
8562705 CGAAAATGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 30 0.55
34 25 0.45
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAATGAGAGA
Found at i:8562700 original size:20 final size:20
Alignment explanation
Indices: 8562642--8562728 Score: 107
Period size: 20 Copynumber: 4.7 Consensus size: 20
8562632 GCAATGAGAG
8562642 AATCGCAATGCG-AAATGAA
1 AATCGCAATGCGAAAATGAA
*
8562661 AATCGCAA-G-G--AGTG--
1 AATCGCAATGCGAAAATGAA
8562675 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCGAAAATGAA
8562695 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCGAAAATGAA
*
8562715 AATCGCAACGCGAA
1 AATCGCAATGCGAA
8562729 TTTAGTTTCG
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
14 8 0.14
15 1 0.02
16 4 0.07
17 1 0.02
18 4 0.07
19 8 0.14
20 33 0.56
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (20 bp):
AATCGCAATGCGAAAATGAA
Found at i:8562759 original size:20 final size:19
Alignment explanation
Indices: 8562734--8562801 Score: 83
Period size: 20 Copynumber: 3.8 Consensus size: 19
8562724 GCGAATTTAG
*
8562734 TTTCGCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
8562753 TTTTCGCATTGCGA--TTC-
1 -TTTCGCATTGCGATTTTCA
8562770 TTTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
8562787 TTTCGCATTGCGATT
1 TTTCGCATTGCGATT
8562802 CTCTCGTTGC
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
14 6 0.14
16 8 0.19
17 5 0.12
18 3 0.07
19 8 0.19
20 12 0.29
ACGTcount: A:0.12, C:0.21, G:0.19, T:0.49
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:8562779 original size:34 final size:34
Alignment explanation
Indices: 8562739--8562834 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
8562729 TTTAGTTTCG
*
8562739 CGTTGCGATTTTCATTTTCGCATTGCGATTCTTT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
8562773 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
** * *
8562806 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
8562835 AGTCTGTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:8562780 original size:14 final size:14
Alignment explanation
Indices: 8562761--8562814 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
8562751 CATTTTCGCA
8562761 TTGCGATTCTTTCG
1 TTGCGATTCTTTCG
8562775 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TTTCG
*
8562792 CATTGCGATTCTCTCG
1 --TTGCGATTCTTTCG
8562808 TTGCGAT
1 TTGCGAT
8562815 AGTCATTTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 13 0.38
16 7 0.21
17 8 0.24
19 6 0.18
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.46
Consensus pattern (14 bp):
TTGCGATTCTTTCG
Found at i:8562959 original size:14 final size:14
Alignment explanation
Indices: 8562940--8562976 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
8562930 CATCAATTAA
8562940 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
8562954 ACAAATCATCTTTT
1 ACAAATCAACATTT
8562968 ACAAATCAA
1 ACAAATCAA
8562977 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:8563272 original size:20 final size:20
Alignment explanation
Indices: 8563249--8563368 Score: 123
Period size: 20 Copynumber: 6.0 Consensus size: 20
8563239 TTGCAATAGT
*
8563249 CATATTTGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
*
8563269 CATATTCGCATTACGATTTA
1 CATATTCGCATTGCGATTTA
*
8563289 CGTATTCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
* * *
8563309 CGTATTTGCATTGTGATTTA
1 CATATTCGCATTGCGATTTA
* * * *
8563329 CGTAATCGCGTTGCGATTTTC
1 CATATTCGCATTGCGA-TTTA
* *
8563350 CAAATTCGCGTTGCGATTT
1 CATATTCGCATTGCGATTT
8563369 TCCTAATTCG
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
20 69 0.81
21 16 0.19
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (20 bp):
CATATTCGCATTGCGATTTA
Found at i:8563278 original size:40 final size:40
Alignment explanation
Indices: 8563234--8563321 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
8563224 TTATTGTAAA
*
8563234 TCGCATTGCAATAGT-CATATTTGCATTGCGATTTACATAT
1 TCGCATTGCAAT-GTACATATTCGCATTGCGATTTACATAT
* * * * *
8563274 TCGCATTACGATTTACGTATTCGCATTGCGATTTACGTAT
1 TCGCATTGCAATGTACATATTCGCATTGCGATTTACATAT
*
8563314 TTGCATTG
1 TCGCATTG
8563322 TGATTTACGT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
39 1 0.03
40 38 0.97
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (40 bp):
TCGCATTGCAATGTACATATTCGCATTGCGATTTACATAT
Found at i:8563359 original size:21 final size:21
Alignment explanation
Indices: 8563334--8563379 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
8563324 ATTTACGTAA
8563334 TCGCGTTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCCAAAT
*
8563355 TCGCGTTGCGATTTTCCTAAT
1 TCGCGTTGCGATTTTCCAAAT
8563376 TCGC
1 TCGC
8563380 AACGCAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.39
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCAAAT
Found at i:8566531 original size:26 final size:27
Alignment explanation
Indices: 8566495--8566564 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
8566485 ACCTTTTTCA
*
8566495 TTGCCTTCACAT-TTGT-ATATTTACAG
1 TTGCATTCACATCTT-TAATATTTACAG
*
8566521 TTGCATTCACATCTTTACATATTTACAT
1 TTGCATTCACATCTTTA-ATATTTACAG
*
8566549 TTGCGTTCACATCTTT
1 TTGCATTCACATCTTT
8566565 GAATTTGCAC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 12 0.32
27 2 0.05
28 24 0.63
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.47
Consensus pattern (27 bp):
TTGCATTCACATCTTTAATATTTACAG
Found at i:8566552 original size:28 final size:28
Alignment explanation
Indices: 8566511--8566564 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
8566501 TCACATTTGT
8566511 ATATTTACAGTTGCATTCACATCTTTAC
1 ATATTTACAGTTGCATTCACATCTTTAC
* *
8566539 ATATTTACATTTGCGTTCACATCTTT
1 ATATTTACAGTTGCATTCACATCTTT
8566565 GAATTTGCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.26, C:0.20, G:0.07, T:0.46
Consensus pattern (28 bp):
ATATTTACAGTTGCATTCACATCTTTAC
Found at i:8567973 original size:21 final size:21
Alignment explanation
Indices: 8567949--8567988 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8567939 GGCGGAACAA
*
8567949 AAAAAAGAAAAAAATAAAAAT
1 AAAAAAGAAAAAAAGAAAAAT
*
8567970 AAAAAAGAAAGAAAGAAAA
1 AAAAAAGAAAAAAAGAAAA
8567989 TCAATCAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (21 bp):
AAAAAAGAAAAAAAGAAAAAT
Found at i:8570104 original size:54 final size:54
Alignment explanation
Indices: 8569895--8570614 Score: 704
Period size: 54 Copynumber: 13.1 Consensus size: 54
8569885 CCAAATTATA
* * *
8569895 TGATGTTTTTAAATGAATGTTTTAAAGAAGTTAAGCCTAATTTTTAGGGGTTTCT
1 TGATGTTTTCAAATGAAT-TTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* * * * * * *
8569950 TGATAATAATTGT-AAATAGATTTTTTTAAAGAAGCTACGTCTGATTTTCAGGGGTTTCT
1 TGAT-GT--TT-TCAAAT-GA-ATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* * * *
8570009 TGATGATTACTTAAAAAGAATTTTTAAAGAAGCTTAA-CCTAATTTTTAGAGGTTTCT
1 TGATG-TT--TTCAAATGAATTTTGAAAGAAGC-TAAGCCTAATTTTTAGGGGTTTCT
* * * * *
8570066 TGGTGTTTACAAATGGATTTTGAAATAAGCTAAGCCTAATTTTTAGAGGTTTCT
1 TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* * *
8570120 TGATGTTTTCAAATGAATGTTT-AAAGGAGATAAGCCTAATTTTTAGGGGTTTTT
1 TGATGTTTTCAAATGAAT-TTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* * * * *
8570174 TAATGATTACTTAAAAAGAATTTTTAAAGAAGCTTAA-CCTAATTTTTAGAGGTTTCT
1 TGATG-TT--TTCAAATGAATTTTGAAAGAAGC-TAAGCCTAATTTTTAGGGGTTTCT
* * * *
8570231 TGGTGTTTACAAATGGATTTTGAAATAAGCTAAGCCTAATTTTTAGGGGTTTCT
1 TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* *
8570285 TGATGTTTTCAAATGAATGTTT-AAAGGAGATAAGCCTAA-TTTTAGGGGTTTCT
1 TGATGTTTTCAAATGAAT-TTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* * * * * * * * *
8570338 CGATGTTTTTAAAAGATTTTTTAGAGGAGCTAAGCCTAGTTTTTAGGAGTTTCT
1 TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* *
8570392 TGATGTCTTCAAATGAATTTTGAAAGAAACTAAGCCTAATTTTTAGGGGTTTCT
1 TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* *
8570446 TGATGTTTTCAAA-CAATTTTTGAAAGAATCTAAGCCTAA-TTTTAGGGGTTTCT
1 TGATGTTTTCAAATGAA-TTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
*
8570499 TGATGTTTTCAAATGAATGTTT-AAA-ATAGTTAAGCCTAATTTTTAGGGGTTTCT
1 TGATGTTTTCAAATGAAT-TTTGAAAGA-AGCTAAGCCTAATTTTTAGGGGTTTCT
* * * *
8570553 TGATGATTACTTCAAATGAATTTTTAAAGATGCTAGGCCTAATTTTAAGGGGTTTCT
1 TGATG-TT--TTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
8570610 TGATG
1 TGATG
8570615 ATAACTGTAA
Statistics
Matches: 552, Mismatches: 81, Indels: 62
0.79 0.12 0.09
Matches are distributed among these distances:
52 4 0.01
53 91 0.16
54 261 0.47
55 14 0.03
56 11 0.02
57 112 0.20
58 15 0.03
59 43 0.08
60 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.42
Consensus pattern (54 bp):
TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
Found at i:8570203 original size:165 final size:162
Alignment explanation
Indices: 8569895--8570614 Score: 801
Period size: 165 Copynumber: 4.4 Consensus size: 162
8569885 CCAAATTATA
** * * *
8569895 TGATGTTTTTAAATGAATGTTTTAAAGAAGTTAAGCCTAATTTTTAGGGGTTTCTTGATAATAAT
1 TGATGTTTACAAATGAAT-TTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGAT-GT--T
* * * * * * *
8569960 TGT-AAATAGATTTTTTTAAAGAAGCTACGTCTGATTTTCAGGGGTTTCTTGATGATTACTTAAA
62 T-TCAAAT-GA-ATGTTTAAAGGAGATAAGCCTAATTTT-AGGGGTTTCTTGATG-TT--TTAAA
8570024 AAGAATTTTTAAAGAAGCTTAA-CCTAATTTTTAGAGGTTTCT
120 AAGAATTTTTAAAGAAGCTTAAGCCTAATTTTTAGAGGTTTCT
* * * *
8570066 TGGTGTTTACAAATGGATTTTGAAATAAGCTAAGCCTAATTTTTAGAGGTTTCTTGATGTTTTCA
1 TGATGTTTACAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCA
* *
8570131 AATGAATGTTTAAAGGAGATAAGCCTAATTTTTAGGGGTTTTTTAATGATTACTTAAAAAGAATT
66 AATGAATGTTTAAAGGAGATAAGCCTAA-TTTTAGGGGTTTCTTGATG-TT--TTAAAAAGAATT
8570196 TTTAAAGAAGCTTAA-CCTAATTTTTAGAGGTTTCT
127 TTTAAAGAAGCTTAAGCCTAATTTTTAGAGGTTTCT
* * *
8570231 TGGTGTTTACAAATGGATTTTGAAATAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCA
1 TGATGTTTACAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCA
* * *
8570296 AATGAATGTTTAAAGGAGATAAGCCTAATTTTAGGGGTTTCTCGATGTTTTTAAAAGATTTTTTA
66 AATGAATGTTTAAAGGAGATAAGCCTAATTTTAGGGGTTTCTTGATGTTTTAAAAAGAATTTTTA
* * *
8570361 GAGGAGC-TAAGCCTAGTTTTTAG-GAGTTTCT
131 AAGAAGCTTAAGCCTAATTTTTAGAG-GTTTCT
*
8570392 TGATGTCTT-CAAATGAATTTTGAAAGAAACTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTC
1 TGATGT-TTACAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTC
* * * ** * * *
8570456 AAA-CAATTTTTGAAAGAATCTAAGCCTAATTTTAGGGGTTTCTTGATGTTTTCAAATGAATGTT
65 AAATGAATGTTT-AAAGGAGATAAGCCTAATTTTAGGGGTTTCTTGATGTTTTAAAAAGAATTTT
*
8570520 TAAA-ATAG-TTAAGCCTAATTTTTAGGGGTTTCT
129 TAAAGA-AGCTTAAGCCTAATTTTTAGAGGTTTCT
* * * * *
8570553 TGATGATTACTTCAAATGAATTTTTAAAGATGCTAGGCCTAATTTTAAGGGGTTTCTTGATG
1 TGATG-TT--TACAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATG
8570615 ATAACTGTAA
Statistics
Matches: 487, Mismatches: 49, Indels: 33
0.86 0.09 0.06
Matches are distributed among these distances:
160 10 0.02
161 172 0.35
162 4 0.01
163 3 0.01
164 61 0.13
165 173 0.36
166 7 0.01
167 6 0.01
169 1 0.00
170 36 0.07
171 14 0.03
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.42
Consensus pattern (162 bp):
TGATGTTTACAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCA
AATGAATGTTTAAAGGAGATAAGCCTAATTTTAGGGGTTTCTTGATGTTTTAAAAAGAATTTTTA
AAGAAGCTTAAGCCTAATTTTTAGAGGTTTCT
Found at i:8570369 original size:107 final size:107
Alignment explanation
Indices: 8569895--8570614 Score: 691
Period size: 107 Copynumber: 6.6 Consensus size: 107
8569885 CCAAATTATA
* * * *
8569895 TGATGTTTTTAAATGAATGTTTTAAAGAAGTTAAGCCTAATTTTTAGGGGTTTCTTGATAATAAT
1 TGATGTTTTCAAAAGAAT-TTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGAT-GT--T
* * * * * *
8569960 TGT-AAATAGATTTTTTTAAAGAAGCTACGTCTGATTTTCAGGGGTTTCT
62 T-TCAAAT-GA--ATTTTAAAGAAGATAAGCCTAATTTTTAGGGGTTTCT
* * *
8570009 TGATGATTACTTAAAAAGAATTTTTAAAGAAGCTTAA-CCTAATTTTTAGAGGTTTCTTGGTGTT
1 TGATG-TT--TTCAAAAGAATTTTTAAAGAAGC-TAAGCCTAATTTTTAGGGGTTTCTTGATGTT
* * * * *
8570073 TACAAATGGATTTTGAAATAAGCTAAGCCTAATTTTTAGAGGTTTCT
62 TTCAAATGAATTTT-AAAGAAGATAAGCCTAATTTTTAGGGGTTTCT
* * * * * *
8570120 TGATGTTTTCAAATGAATGTTTAAAGGAGATAAGCCTAATTTTTAGGGGTTTTTTAATGATTACT
1 TGATGTTTTCAAAAGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATG-TT--T
* * * *
8570185 TAAAAAGAATTTTTAAAGAAGCTTAA-CCTAATTTTTAGAGGTTTCT
63 TCAAATGAA-TTTTAAAGAAG-ATAAGCCTAATTTTTAGGGGTTTCT
* * * * * *
8570231 TGGTGTTTACAAATGGATTTTGAAATAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCA
1 TGATGTTTTCAAAAGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCA
*
8570296 AATGAATGTTTAAAGGAGATAAGCCTAA-TTTTAGGGGTTTCT
66 AATGAAT-TTTAAAGAAGATAAGCCTAATTTTTAGGGGTTTCT
* * * * * * * *
8570338 CGATGTTTTTAAAAGATTTTTTAGAGGAGCTAAGCCTAGTTTTTAGGAGTTTCTTGATGTCTTCA
1 TGATGTTTTCAAAAGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCA
8570403 AATGAATTTTGAAAGAA-ACTAAGCCTAATTTTTAGGGGTTTCT
66 AATGAATTTT-AAAGAAGA-TAAGCCTAATTTTTAGGGGTTTCT
* *
8570446 TGATGTTTTC-AAACAATTTTTGAAAGAATCTAAGCCTAA-TTTTAGGGGTTTCTTGATGTTTTC
1 TGATGTTTTCAAAAGAATTTTT-AAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTC
*
8570509 AAATGAATGTTTAAA-ATAGTTAAGCCTAATTTTTAGGGGTTTCT
65 AAATGAAT-TTTAAAGA-AGATAAGCCTAATTTTTAGGGGTTTCT
* * * *
8570553 TGATGATTACTTCAAATGAATTTTTAAAGATGCTAGGCCTAATTTTAAGGGGTTTCTTGATG
1 TGATG-TT--TTCAAAAGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATG
8570615 ATAACTGTAA
Statistics
Matches: 503, Mismatches: 77, Indels: 55
0.79 0.12 0.09
Matches are distributed among these distances:
106 5 0.01
107 164 0.33
108 101 0.20
109 2 0.00
110 25 0.05
111 139 0.28
112 8 0.02
113 6 0.01
114 5 0.01
115 3 0.01
116 33 0.07
117 12 0.02
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.42
Consensus pattern (107 bp):
TGATGTTTTCAAAAGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCA
AATGAATTTTAAAGAAGATAAGCCTAATTTTTAGGGGTTTCT
Found at i:8570797 original size:11 final size:11
Alignment explanation
Indices: 8570781--8570811 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8570771 CAGTAGTTAT
8570781 GATGTTGAGAC
1 GATGTTGAGAC
8570792 GATGTTGAGAC
1 GATGTTGAGAC
*
8570803 AATGTTGAG
1 GATGTTGAG
8570812 TTCATAAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.06, G:0.35, T:0.29
Consensus pattern (11 bp):
GATGTTGAGAC
Found at i:8572268 original size:119 final size:118
Alignment explanation
Indices: 8572102--8572403 Score: 390
Period size: 119 Copynumber: 2.5 Consensus size: 118
8572092 TCAAATGAAA
* * * *
8572102 AAGTTCCTAATAAGAATAACTTGTTCATCATTTCACTCGATTCCATCACAGAAGGAGGTGGATCA
1 AAGTTCCTAATGAGAAAAACTTGTTCAACA-TTCACTCAATTCCATCACAGAAGGAGGTGGATCA
* * *
8572167 ACATTTCCAATGGAAGGGTTCGTAATAAGAATAACTCA-TCTGATAAGGGAGAAG
65 ACATTTCAAATGGAAGGATTCGTAATAAGAAGAACTCATTC-GATAAGGGAGAAG
* * *
8572221 AAGTTCCTAATGAGAAGAACTTATTCAACATTGCACTCAATTCCATCATAGAAGGAGGTGGATCA
1 AAGTTCCTAATGAGAAAAACTTGTTCAACATT-CACTCAATTCCATCACAGAAGGAGGTGGATCA
* * *
8572286 ACATTTTAAATGGAAGGATTCGTAATGAGAAGAACTCATTCGATGAGGGAGAAG
65 ACATTTCAAATGGAAGGATTCGTAATAAGAAGAACTCATTCGATAAGGGAGAAG
* * * * * **
8572340 AAGTTCATAATGAGAAAAACTTGTTTAACCTTAACTCAATTCCATCACATAAGGAATTGGATCA
1 AAGTTCCTAATGAGAAAAACTTGTTCAACATTCACTCAATTCCATCACAGAAGGAGGTGGATCA
8572404 TTATTACCTT
Statistics
Matches: 159, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
118 29 0.18
119 128 0.81
120 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (118 bp):
AAGTTCCTAATGAGAAAAACTTGTTCAACATTCACTCAATTCCATCACAGAAGGAGGTGGATCAA
CATTTCAAATGGAAGGATTCGTAATAAGAAGAACTCATTCGATAAGGGAGAAG
Found at i:8572796 original size:3 final size:3
Alignment explanation
Indices: 8572788--8572835 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
8572778 CTTTATATAT
8572788 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8572836 CAAACCCAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8573023 original size:14 final size:15
Alignment explanation
Indices: 8572998--8573028 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
8572988 CCACTTAATC
8572998 AAATCAAAATAAAAA
1 AAATCAAAATAAAAA
8573013 AAATC-AAATAAAAA
1 AAATCAAAATAAAAA
8573027 AA
1 AA
8573029 CAAAATCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (15 bp):
AAATCAAAATAAAAA
Found at i:8573052 original size:18 final size:17
Alignment explanation
Indices: 8572994--8573039 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
8572984 CCAACCACTT
8572994 AATCAAATCAAAATAAAAAA
1 AATCAAAT--AAA-AAAAAA
8573014 AATCAAATAAAAAAACAA
1 AATCAAATAAAAAAA-AA
8573032 AATCAAAT
1 AATCAAAT
8573040 TTAATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.16
18 13 0.52
20 8 0.32
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.15
Consensus pattern (17 bp):
AATCAAATAAAAAAAAA
Found at i:8576948 original size:20 final size:19
Alignment explanation
Indices: 8576887--8576938 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
8576877 AATGATTTTG
*
8576887 TTTTGAAAACTAAATTAGA
1 TTTTGAAAAATAAATTAGA
8576906 TTTTGAAAAATAAATTAGA
1 TTTTGAAAAATAAATTAGA
8576925 TTTTGAAAAATAAA
1 TTTTGAAAAATAAA
8576939 ATGAAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.37
Consensus pattern (19 bp):
TTTTGAAAAATAAATTAGA
Found at i:8579365 original size:29 final size:29
Alignment explanation
Indices: 8579309--8579365 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
8579299 ATTAAAAAAT
*
8579309 AAATTATAAAAAATAAAAATAATTAAGTG
1 AAATTATAAAAAATAAAAATAATAAAGTG
* *
8579338 AAATTTTAAAAACATAAAAA-CATAAAGT
1 AAATTATAAAAA-ATAAAAATAATAAAGT
8579366 TATTTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.65, C:0.04, G:0.05, T:0.26
Consensus pattern (29 bp):
AAATTATAAAAAATAAAAATAATAAAGTG
Found at i:8580935 original size:19 final size:17
Alignment explanation
Indices: 8580913--8580956 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
8580903 AACATTTATT
8580913 TAAAATAGATATAGTTTTA
1 TAAAATA-ATATA-TTTTA
*
8580932 TAAAAGTAATATATTTTT
1 TAAAA-TAATATATTTTA
8580950 TAAAATA
1 TAAAATA
8580957 TCAGAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 2 0.09
18 9 0.39
19 10 0.43
20 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (17 bp):
TAAAATAATATATTTTA
Found at i:8581032 original size:11 final size:12
Alignment explanation
Indices: 8581017--8581045 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
8581007 AAAACATAAT
8581017 TAAAATAATTTA
1 TAAAATAATTTA
8581029 -AAAATAATTTA
1 TAAAATAATTTA
8581040 TAAAAT
1 TAAAAT
8581046 TTATAAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TAAAATAATTTA
Found at i:8581165 original size:2 final size:2
Alignment explanation
Indices: 8581158--8581184 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8581148 ACTAAAATCA
8581158 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
8581185 AATAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8582065 original size:20 final size:20
Alignment explanation
Indices: 8582036--8582073 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8582026 GTAAAGGGTG
* *
8582036 GCTATTTGGTGAGTCACCGA
1 GCTATGTGGTGACTCACCGA
8582056 GCTATGTGGTGACTCACC
1 GCTATGTGGTGACTCACC
8582074 CTAATAGCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (20 bp):
GCTATGTGGTGACTCACCGA
Found at i:8582383 original size:3 final size:3
Alignment explanation
Indices: 8582375--8582435 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
8582365 AATTATTTAG
8582375 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
8582423 CAA TAA TAA TAA T
1 TAA TAA TAA TAA T
8582436 CAAATAAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8582881 original size:124 final size:122
Alignment explanation
Indices: 8582664--8583308 Score: 696
Period size: 124 Copynumber: 5.4 Consensus size: 122
8582654 TTTGCTCCTT
** * *
8582664 CTTCTTCAGATGAGTTCTTCTCATTATGAACACT-TCT-GAAAATGTTGATGCTGGTCTATCTCA
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAA-GTTGATGCTGATCTAAC-C-
*
8582727 TTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
63 TTCTGTGATAGAGTCATACAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
* * *
8582787 CTTCTTCAGATGAGTTATTCTTATTATGAACTTTCTCTGGAAAAGTTGATGCTGATATAACTTCT
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTAAC--CT
8582852 TCTGTGATAGAGTCATACAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
64 TCTGTGATAGAGTCATACAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
* * * * *
8582911 CTT-TTCAGATAAGTTCTTATCATTATGAACTTT-TCTGGAAAAGTTCAT-C-CATCGAA-----
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTAACCTTC
* * ** * * *
8582967 --TGAT-GAATTCAAACAAAAGGTTTGAACAAATTCTTCTTATTGTGAATTTCTTCTTC
66 TGTGATAG-AGTCATACAAAAGG-TTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
* * * *
8583023 CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAATGCTGAT-C-CATC-AA-----
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTAACCTTC
* * * * * *
8583080 -GTGAT-GAAT-TTGAGCAAAAGGTTAAACAAGTTTTTCACATTATGAACTTCTTCTTC
66 TGTGATAGAGTCAT-A-CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
*
8583136 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCT
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTA--ACCT
*
8583201 TCTGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
64 TCTGTGATAGAGTCATACAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
*
8583260 CTTCTTCAGATGAGTTCTTCTCATTATGAACTATTC-C-GGAAATGTTGAT
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGTTGAT
8583309 CCATCGAATG
Statistics
Matches: 446, Mismatches: 52, Indels: 48
0.82 0.10 0.09
Matches are distributed among these distances:
110 1 0.00
111 16 0.04
112 33 0.07
113 107 0.24
114 30 0.07
115 3 0.01
116 1 0.00
120 4 0.01
121 1 0.00
122 14 0.03
123 67 0.15
124 155 0.35
125 13 0.03
126 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (122 bp):
CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTAACCTTC
TGTGATAGAGTCATACAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC
Found at i:8583613 original size:3 final size:3
Alignment explanation
Indices: 8583605--8583652 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
8583595 TTTCATCCCG
* * *
8583605 TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTTA TTA ATA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
8583651 TT
1 TT
8583653 GCTTTTGTAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:8589781 original size:11 final size:11
Alignment explanation
Indices: 8589763--8589804 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
8589753 CAACACCTCG
8589763 TATTGCATTCA
1 TATTGCATTCA
*
8589774 TCTTGCATTCA
1 TATTGCATTCA
*
8589785 TATTGCATTTA
1 TATTGCATTCA
*
8589796 CATTGCATT
1 TATTGCATT
8589805 TCCTTTTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.24, C:0.19, G:0.10, T:0.48
Consensus pattern (11 bp):
TATTGCATTCA
Found at i:8593305 original size:4 final size:4
Alignment explanation
Indices: 8593296--8593349 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
8593286 TTTCCATTCT
* *
8593296 TTTA TTTA TTTA TTTA TTTA TTTC TTT- TTTA TATA -TTA -TTA TTTCA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT-A
8593342 TTCTA TTT
1 TT-TA TTT
8593350 TGATATGGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
3 8 0.19
4 28 0.65
5 6 0.14
6 1 0.02
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:8593345 original size:25 final size:25
Alignment explanation
Indices: 8593285--8593355 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
8593275 AAATATCATC
8593285 ATTTCCATTCTTTTATT-TATTTATTT
1 ATTT-CATTCTTTT-TTATATTTATTT
8593311 ATTT-ATTTCTTTTTTATATATTA-TT
1 ATTTCA-TTCTTTTTTATAT-TTATTT
*
8593336 ATTTCATTCTATTTTGATAT
1 ATTTCATTCT-TTTTTATAT
8593356 GGGATAGATT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
24 3 0.08
25 20 0.51
26 16 0.41
ACGTcount: A:0.23, C:0.08, G:0.01, T:0.68
Consensus pattern (25 bp):
ATTTCATTCTTTTTTATATTTATTT
Found at i:8595768 original size:27 final size:27
Alignment explanation
Indices: 8595738--8595800 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
8595728 CTTGATGGTG
8595738 AGGTCTTGTACAAGAAAAGTCATGATC
1 AGGTCTTGTACAAGAAAAGTCATGATC
8595765 AGGTCTTGTACAAGAAAAGTCATGATC
1 AGGTCTTGTACAAGAAAAGTCATGATC
8595792 AGGTCTTGT
1 AGGTCTTGT
8595801 TACGGTGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (27 bp):
AGGTCTTGTACAAGAAAAGTCATGATC
Found at i:8596937 original size:21 final size:23
Alignment explanation
Indices: 8596913--8596961 Score: 75
Period size: 21 Copynumber: 2.2 Consensus size: 23
8596903 AATGAATGGA
8596913 AAAAAATGAAGAAAAA-G-AAAG
1 AAAAAATGAAGAAAAAGGAAAAG
*
8596934 AAAAAATGAGGAAAAAGGAAAAG
1 AAAAAATGAAGAAAAAGGAAAAG
8596957 AAAAA
1 AAAAA
8596962 TAAAAGAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 15 0.60
22 1 0.04
23 9 0.36
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (23 bp):
AAAAAATGAAGAAAAAGGAAAAG
Found at i:8598079 original size:66 final size:66
Alignment explanation
Indices: 8597973--8598883 Score: 1664
Period size: 66 Copynumber: 13.8 Consensus size: 66
8597963 TTCGATCCCA
8597973 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
8598038 G
66 G
8598039 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
8598104 G
66 G
*
8598105 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTACTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
8598170 G
66 G
8598171 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
8598236 G
66 G
* *
8598237 ATTCAATGGATCAACTTCTCCAAGATTTGACATTCCCTTCAGAGTAAGTGGAACAAGTCTACTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
8598302 G
66 G
* *
8598303 ATTCAATGGATCAACTTCTCCAAGATTTGAGATTCCCTTCAGAGTAAGTGGAACAAGTCTACTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
8598368 G
66 G
8598369 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
8598434 G
66 G
* *
8598435 ATTCAATGGATCAACTTCTCCAAGATTTGACATTCCCTTCAGAGTAAGTGGAACAAGTCTACTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
8598500 G
66 G
*
8598501 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAAAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
8598566 G
66 G
8598567 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
8598632 G
66 G
8598633 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
8598698 G
66 G
*
8598699 ATTCAATGGACCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
8598764 G
66 G
* * *
8598765 ATTCAATGGATCAATTTCTCCAAGATTTGATATTCCATTCAGAGTAAGTGGAACAAGTCTGCTTT
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
8598830 G
66 G
* * * *
8598831 ATTCAATGAATCAACTT-TCCCAGATCTGATATTCCC-TCAGAGGAAGTGGAACA
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACA
8598884 TATCCCTCTC
Statistics
Matches: 821, Mismatches: 24, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
64 16 0.02
65 16 0.02
66 789 0.96
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (66 bp):
ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
G
Found at i:8599070 original size:109 final size:111
Alignment explanation
Indices: 8598814--8599281 Score: 618
Period size: 111 Copynumber: 4.2 Consensus size: 111
8598804 CAGAGTAAGT
* *
8598814 GGAACAAGTCTGCTTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAGGAAGTG
1 GGAACAAGTCTACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAGGAAGTG
* * * *
8598879 GAACATATCCCTCTCTTTCAAGATTTGGTATTCCTTGAGTGATAGC
66 GAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGC
*
8598925 GGAACAAGTCTACCTTGATTCAATGAATCAATTTTCCCAGATCTGATATTCCCTCAGAGGAAGTG
1 GGAACAAGTCTACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAGGAAGTG
* * *
8598990 GAACATAT-CC-CTCTTTCAATATTTGATATTCCCTGAATGACAGC
66 GAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGC
* * * * *
8599034 GGAACAAGTCTACCTTGATTCAATAAATCAACTTTCCCATATATGATTTTCCCTCAGAGGAAGCG
1 GGAACAAGTCTACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAGGAAGTG
* *
8599099 GAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGCGACAGT
66 GAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGC
* * * *
8599145 GGAACAAGTCTACCCTGATTCAATGGATCAACTTTCCTAGATCTGATATATTCCCTCAGAAGAAG
1 GGAACAAGTCTACCTTGATTCAATGAATCAACTTTCCCAGATCTG--ATATTCCCTCAGAGGAAG
** * * * * **
8599210 TGGAACAGATCAAATCTCTTTCAAGATTTGATATTTCATAAGTGATAAT
64 TGGAACAGATC-CCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGC
*
8599259 GGAACAAGTCTACCCT-ATTCAAT
1 GGAACAAGTCTACCTTGATTCAAT
8599282 CTTCCCTGAA
Statistics
Matches: 316, Mismatches: 36, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
109 95 0.30
110 4 0.01
111 139 0.44
113 33 0.10
114 45 0.14
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (111 bp):
GGAACAAGTCTACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAGGAAGTG
GAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGC
Found at i:8599490 original size:3 final size:3
Alignment explanation
Indices: 8599482--8599532 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
8599472 TTTCATCGCG
* *
8599482 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
*
8599528 ATA TT
1 TTA TT
8599533 GCTTTTGTAG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:8603283 original size:18 final size:18
Alignment explanation
Indices: 8603260--8603294 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
8603250 TATATGAAAC
8603260 AAATTGAATTTCAAAAAT
1 AAATTGAATTTCAAAAAT
8603278 AAATTGAATTTCAAAAA
1 AAATTGAATTTCAAAAA
8603295 GATAAACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (18 bp):
AAATTGAATTTCAAAAAT
Found at i:8603702 original size:14 final size:13
Alignment explanation
Indices: 8603672--8603732 Score: 54
Period size: 14 Copynumber: 4.6 Consensus size: 13
8603662 TTTTTTCATT
*
8603672 TTATTTTTCTTTTA
1 TTATTTTTC-TTCA
8603686 TTAGTTTTTCTTCA
1 TTA-TTTTTCTTCA
8603700 TTA--TTTCTTCA
1 TTATTTTTCTTCA
*
8603711 TTATTTTTTTTCCA
1 TTATTTTTCTT-CA
*
8603725 TCATTTTT
1 TTATTTTT
8603733 TTTTCTTCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 11 0.28
13 5 0.12
14 18 0.45
15 6 0.15
ACGTcount: A:0.15, C:0.13, G:0.02, T:0.70
Consensus pattern (13 bp):
TTATTTTTCTTCA
Found at i:8603706 original size:11 final size:11
Alignment explanation
Indices: 8603692--8603716 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8603682 TTTATTAGTT
8603692 TTTCTTCATTA
1 TTTCTTCATTA
8603703 TTTCTTCATTA
1 TTTCTTCATTA
8603714 TTT
1 TTT
8603717 TTTTTCCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTCTTCATTA
Found at i:8613464 original size:25 final size:24
Alignment explanation
Indices: 8613427--8613477 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
8613417 GAACACACAA
** *
8613427 AAAGAAATGAATTAGTTTACATAAT
1 AAAGAAAAAAATTAATTTA-ATAAT
8613452 AAAGAAAAAAATTAATTTAATAAT
1 AAAGAAAAAAATTAATTTAATAAT
8613476 AA
1 AA
8613478 TGTCTACCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (24 bp):
AAAGAAAAAAATTAATTTAATAAT
Found at i:8614970 original size:2 final size:2
Alignment explanation
Indices: 8614963--8614993 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8614953 ACTAAAATCA
8614963 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8614994 ATAATAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8615934 original size:20 final size:20
Alignment explanation
Indices: 8615905--8615942 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8615895 GTAAAGGGTG
* *
8615905 GCTATTTGGTGAGTCACCGA
1 GCTATGTGGTGACTCACCGA
8615925 GCTATGTGGTGACTCACC
1 GCTATGTGGTGACTCACC
8615943 CTAATAGCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (20 bp):
GCTATGTGGTGACTCACCGA
Found at i:8616252 original size:3 final size:3
Alignment explanation
Indices: 8616244--8616280 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
8616234 AATTATTTAG
8616244 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
8616281 CAAATAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:8616761 original size:31 final size:31
Alignment explanation
Indices: 8616726--8616806 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
8616716 TGCAAAGGTT
8616726 AAATTGATATTTTATCT-AGAATTGAAAGATC
1 AAATTGATATTTTATCTAAG-ATTGAAAGATC
* * * * *
8616757 AAATTGGTATTTTATGTAAGATTTAGATATC
1 AAATTGATATTTTATCTAAGATTGAAAGATC
8616788 AAATTGATATTTTATCTAA
1 AAATTGATATTTTATCTAA
8616807 TCAAATAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 40 0.95
32 2 0.05
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.43
Consensus pattern (31 bp):
AAATTGATATTTTATCTAAGATTGAAAGATC
Found at i:8617737 original size:18 final size:20
Alignment explanation
Indices: 8617714--8617752 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8617704 AAAAACACAT
8617714 GTTTTT-ATGAAGATTCATG
1 GTTTTTAATGAAGATTCATG
*
8617733 GTTTTTAATGAATATTCATG
1 GTTTTTAATGAAGATTCATG
8617753 CCTTAAGCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (20 bp):
GTTTTTAATGAAGATTCATG
Found at i:8625973 original size:23 final size:23
Alignment explanation
Indices: 8625943--8625986 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
8625933 TGATGAACAA
8625943 TATCGATACTGATGTGAGTATTG
1 TATCGATACTGATGTGAGTATTG
8625966 TATCGATACTGATGTGAGTAT
1 TATCGATACTGATGTGAGTAT
8625987 CGATAATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (23 bp):
TATCGATACTGATGTGAGTATTG
Done.