Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_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: 4568288
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 24
Found at i:360711 original size:22 final size:22
Alignment explanation
Indices: 360686--360728 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
360676 TGTATGAGTG
360686 TTGGGATCGTTACAAGAGTTTA
1 TTGGGATCGTTACAAGAGTTTA
360708 TTGGGATCGTTACAAGAGTTT
1 TTGGGATCGTTACAAGAGTTT
360729 GCTTCGGAAG
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:0.09, G:0.28, T:0.37
Consensus pattern (22 bp):
TTGGGATCGTTACAAGAGTTTA
Found at i:366017 original size:20 final size:18
Alignment explanation
Indices: 365970--366020 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 18
365960 TCCCTCCCAA
*
365970 ATTTTTACTTTTCTTTTC
1 ATTTTAACTTTTCTTTTC
365988 ATTATTAACTTTGTCTCTTTC
1 ATT-TTAACTTT-TCT-TTTC
366009 ATTTTAACTTTT
1 ATTTTAACTTTT
366021 ATTCTCTCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 3 0.10
19 8 0.28
20 11 0.38
21 7 0.24
ACGTcount: A:0.18, C:0.16, G:0.02, T:0.65
Consensus pattern (18 bp):
ATTTTAACTTTTCTTTTC
Found at i:370757 original size:19 final size:20
Alignment explanation
Indices: 370718--370753 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
370708 ATGTATTATT
370718 TCAATCTCATATACACTCTA
1 TCAATCTCATATACACTCTA
370738 TCAA-CTCATAT-CACTC
1 TCAATCTCATATACACTC
370754 CTATTTATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.31
19 7 0.44
20 4 0.25
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (20 bp):
TCAATCTCATATACACTCTA
Found at i:371692 original size:64 final size:64
Alignment explanation
Indices: 371607--371744 Score: 240
Period size: 64 Copynumber: 2.2 Consensus size: 64
371597 GGTAAGAGTA
* *
371607 GTACCAATACCACTAGGTAGTATCGATACTACCATGAAGGCTCAAATTCTAAAACCACGAAATG
1 GTACCGATACCACTAGGTAGTATCGATACTACCATAAAGGCTCAAATTCTAAAACCACGAAATG
* *
371671 GTATCGATACCACTAGGTAGTATCGATACTACCATAAAGGCTCAAATTCTAGAACCACGAAATG
1 GTACCGATACCACTAGGTAGTATCGATACTACCATAAAGGCTCAAATTCTAAAACCACGAAATG
371735 GTACCGATAC
1 GTACCGATAC
371745 TATGCACAGT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 69 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (64 bp):
GTACCGATACCACTAGGTAGTATCGATACTACCATAAAGGCTCAAATTCTAAAACCACGAAATG
Found at i:371882 original size:21 final size:21
Alignment explanation
Indices: 371858--371905 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
371848 TAACAAAGGT
371858 AGTACCGATACCCCATATTGG
1 AGTACCGATACCCCATATTGG
*
371879 AGTATCGATACCCCATATTGG
1 AGTACCGATACCCCATATTGG
*
371900 TGTACC
1 AGTACC
371906 AATAATTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (21 bp):
AGTACCGATACCCCATATTGG
Found at i:375244 original size:35 final size:34
Alignment explanation
Indices: 375201--375270 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 34
375191 AATCGTCATG
*
375201 GGGTATCGATACTCAA-GTGATAGTATCGGTACCAT
1 GGGTATCGATAC-CAAGGGGA-AGTATCGGTACCAT
375236 GGGTATCGATACCAATGGGGAAGTATCGGTACCAT
1 GGGTATCGATACCAA-GGGGAAGTATCGGTACCAT
375271 TATTGCAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 3 0.09
35 26 0.81
36 3 0.09
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (34 bp):
GGGTATCGATACCAAGGGGAAGTATCGGTACCAT
Found at i:375994 original size:16 final size:16
Alignment explanation
Indices: 375975--376007 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
375965 TAAAAACAGT
375975 AAATAA-AAGATAAATA
1 AAATAAGAAGA-AAATA
375991 AAATAAGAAGAAAATA
1 AAATAAGAAGAAAATA
376007 A
1 A
376008 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAGAAGAAAATA
Found at i:377055 original size:12 final size:12
Alignment explanation
Indices: 377038--377062 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
377028 GAGACAGTTG
377038 TCCAGTGCCAGC
1 TCCAGTGCCAGC
377050 TCCAGTGCCAGC
1 TCCAGTGCCAGC
377062 T
1 T
377063 GTCCTTATGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.40, G:0.24, T:0.20
Consensus pattern (12 bp):
TCCAGTGCCAGC
Found at i:388438 original size:20 final size:20
Alignment explanation
Indices: 388413--388454 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
388403 CCAAGAGCCT
*
388413 ATTTAGGACCATTTAGATGC
1 ATTTAGGACCATATAGATGC
* *
388433 ATTTAGGAGCATATAGTTGC
1 ATTTAGGACCATATAGATGC
388453 AT
1 AT
388455 GTGGTGGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (20 bp):
ATTTAGGACCATATAGATGC
Found at i:394344 original size:23 final size:23
Alignment explanation
Indices: 394276--394344 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
394266 ACATCTTATA
*
394276 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTCGGTGCATTTCTATG
* * *
394299 CGGCACTTAGGTGCAATTCTATG
1 TGGCACTTCGGTGCATTTCTATG
*
394322 TGGCACTTCGGTGCATTTATATG
1 TGGCACTTCGGTGCATTTCTATG
394345 ACCTGCGGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (23 bp):
TGGCACTTCGGTGCATTTCTATG
Found at i:395616 original size:20 final size:20
Alignment explanation
Indices: 395591--395658 Score: 127
Period size: 20 Copynumber: 3.4 Consensus size: 20
395581 TTAAAGAAAC
395591 TAGAGGACTAAACCTAAAAA
1 TAGAGGACTAAACCTAAAAA
395611 TAGAGGACTAAACCTAAAAA
1 TAGAGGACTAAACCTAAAAA
*
395631 TAGAGGATTAAACCTAAAAA
1 TAGAGGACTAAACCTAAAAA
395651 TAGAGGAC
1 TAGAGGAC
395659 CTAATATTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.53, C:0.13, G:0.18, T:0.16
Consensus pattern (20 bp):
TAGAGGACTAAACCTAAAAA
Found at i:396313 original size:17 final size:18
Alignment explanation
Indices: 396291--396337 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
396281 CCATCTTCTT
*
396291 CTTTTCTTCTTC-GTTCA
1 CTTTTCTTCTTCTCTTCA
396308 CTTTTCTTCTTTTCTCTTCA
1 CTTTTCTTC--TTCTCTTCA
396328 CTTTTCTTCT
1 CTTTTCTTCT
396338 CCTCGCCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 9 0.35
18 1 0.04
19 3 0.12
20 13 0.50
ACGTcount: A:0.04, C:0.30, G:0.02, T:0.64
Consensus pattern (18 bp):
CTTTTCTTCTTCTCTTCA
Found at i:399920 original size:39 final size:38
Alignment explanation
Indices: 399856--399963 Score: 121
Period size: 38 Copynumber: 2.9 Consensus size: 38
399846 ACTAGAATTG
* *
399856 TTTTGAAGAAAAACAGTCTCAAGTAAGATAAAAATTCA
1 TTTTGAGGAAAAACAATCTCAAGTAAGATAAAAATTCA
* * **
399894 TTTTGAGGAAGAAACAATCTCGAGTAAGA-CAAAATTTG
1 TTTTGAGGAA-AAACAATCTCAAGTAAGATAAAAATTCA
* *
399932 TTTTAAGG-AAAACAATCTCAAGTGAGATAAAA
1 TTTTGAGGAAAAACAATCTCAAGTAAGATAAAA
399964 TCTTGAATGA
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
36 16 0.28
37 4 0.07
38 22 0.38
39 16 0.28
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.26
Consensus pattern (38 bp):
TTTTGAGGAAAAACAATCTCAAGTAAGATAAAAATTCA
Found at i:399964 original size:36 final size:36
Alignment explanation
Indices: 399853--399964 Score: 116
Period size: 36 Copynumber: 3.0 Consensus size: 36
399843 GAAACTAGAA
* *
399853 TTGTTTTGAAGAAAAACAGTCTCAAGTAAGATAAAAAT
1 TTGTTTT-AAGGAAAACAATCTCAAGTAAGAT-AAAAT
** * * *
399891 TCATTTTGAGGAAGAAACAATCTCGAGTAAGACAAAAT
1 TTGTTTTAAGG-A-AAACAATCTCAAGTAAGATAAAAT
*
399929 TTGTTTTAAGGAAAACAATCTCAAGTGAGATAAAAT
1 TTGTTTTAAGGAAAACAATCTCAAGTAAGATAAAAT
399965 CTTGAATGAA
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
36 21 0.36
37 3 0.05
38 19 0.32
39 16 0.27
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.28
Consensus pattern (36 bp):
TTGTTTTAAGGAAAACAATCTCAAGTAAGATAAAAT
Found at i:400104 original size:43 final size:44
Alignment explanation
Indices: 400021--400134 Score: 126
Period size: 43 Copynumber: 2.6 Consensus size: 44
400011 GTTGACACTG
* * * *
400021 ATCCAACTCCTTATGTGATGGAA-CAAAGCGAAATGGTGATGTTA
1 ATCCAACTCCTTATGTGATGGAATC-GAGCAAAATAGTGATGCTA
* *
400065 ATCCAACTCCTTAT-TGATGGAATCGAGCAAAATATTGATGCTG
1 ATCCAACTCCTTATGTGATGGAATCGAGCAAAATAGTGATGCTA
*
400108 ATCCAACT-CTATATGTGATGCAATCGA
1 ATCCAACTCCT-TATGTGATGGAATCGA
400135 ACGAAATTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 2 0.03
43 32 0.53
44 26 0.43
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (44 bp):
ATCCAACTCCTTATGTGATGGAATCGAGCAAAATAGTGATGCTA
Found at i:400147 original size:44 final size:44
Alignment explanation
Indices: 400018--400147 Score: 140
Period size: 44 Copynumber: 3.0 Consensus size: 44
400008 CGAGTTGACA
* **
400018 CTGATCCAACTCCTTATGTGATGGAA-CAAAGCGAAATGGTGATG
1 CTGATCCAACTCCTTATGTGATGGAATCGAA-CGAAATATTGATG
* * * *
400062 TTAATCCAACTCCTTAT-TGATGGAATCGAGCAAAATATTGATG
1 CTGATCCAACTCCTTATGTGATGGAATCGAACGAAATATTGATG
* *
400105 CTGATCCAACT-CTATATGTGATGCAATCGAACGAAATTTTGAT
1 CTGATCCAACTCCT-TATGTGATGGAATCGAACGAAATATTGAT
400148 CTACTTTCTT
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
42 2 0.03
43 30 0.43
44 38 0.54
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (44 bp):
CTGATCCAACTCCTTATGTGATGGAATCGAACGAAATATTGATG
Found at i:407442 original size:24 final size:24
Alignment explanation
Indices: 407415--407463 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
407405 TAATTATTTA
*
407415 TTTTATGTTCAT-ATTCTTAGTCTT
1 TTTTATCTTCATGA-TCTTAGTCTT
*
407439 TTTTATCTTTATGATCTTAGTCTT
1 TTTTATCTTCATGATCTTAGTCTT
407463 T
1 T
407464 ATTGTCTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.16, C:0.12, G:0.08, T:0.63
Consensus pattern (24 bp):
TTTTATCTTCATGATCTTAGTCTT
Found at i:412950 original size:23 final size:23
Alignment explanation
Indices: 412924--412972 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
412914 AGTAAAGAGC
*
412924 TTAT-AATGGGTAGATAAACAATG
1 TTATAAATGAGTAGATAAAC-ATG
*
412947 TTATAAATTAGTAGATAAACATG
1 TTATAAATGAGTAGATAAACATG
412970 TTA
1 TTA
412973 ATAACGAGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.45, C:0.04, G:0.16, T:0.35
Consensus pattern (23 bp):
TTATAAATGAGTAGATAAACATG
Found at i:422325 original size:432 final size:426
Alignment explanation
Indices: 421556--422415 Score: 1607
Period size: 432 Copynumber: 2.0 Consensus size: 426
421546 TTACACTATC
421556 CTGAATTTATACAGATCATGTAATATATACCATAATATAATTTATATCACTTATCTAATATTATT
1 CTGAATTTATACAGATCATGTAATATATACCATAATATAATTTATATCACTTATCTAATATTATT
*
421621 TATATACTAAGTTAATCTATTTATTTAGTTCAATTTCACATGACTCTTATATTATAGTTTTCTTT
66 TATATACTAAGTTAATCTATTTATTTAGTTCAATTTCACATGACTCTTATATCATAGTTTTCTTT
421686 AAGTATAAATCATCCTATAATACTTGTCCCATAGTTTGATATCATCATTTATATTTAGCCCCTAA
131 AAGTATAAATCATCCTATAATACTTGTCCCATAGTTTGATATCATCATTTATATTTAGCCCCTAA
421751 TTTACATATTATTCTCATAAGCCTTATAACCTTTCTTGTATAATCACTTATACCATATAATATAA
196 TTTACATATTATTCTCATAAGCCTTATAACCTTTCTTGTATAATCACTTATACCATATAATATAA
421816 CTTATACTTGATTATATTATTCTCACATATTTTTATATCAAATGATTCTTTAACTTATAGCCTAT
261 CTTATACTTGATTATATTATTCTCACATATTTTTATATCAAATGATTCTTTAACTTATAGCCTAT
421881 GTCACGTGTTCATTTCATTCATTATGTCCATATCACATAGCATATTTCATATTCTTATATAATCA
326 GTCACGTGTTCATTTCATTCATTATGTCCATA-CACATAGCATATTTCATATTCTTATATAATCA
421946 TATAGATCATTTATACCATTTCACATAACTTATCACA
390 TATAGATCATTTATACCATTTCACATAACTTATCACA
421983 CTGAATTTATACAGATCATGT-A-ATATACCATAACATATAATTTATATCACTTATCTAATATTA
1 CTGAATTTATACAGATCATGTAATATATACCAT-A-ATATAATTTATATCACTTATCTAATATTA
422046 TTTATATACTAAGTTAATCTATTTATTTAGTTCAATTTCACATGACTCTTATATCATAGTTTTCT
64 TTTATATACTAAGTTAATCTATTTATTTAGTTCAATTTCACATGACTCTTATATCATAGTTTTCT
422111 TTAAGTATATAATACATCCCTATAATACTTGTCCCATAGTTTGATATCATCATTTATATTTATGC
129 TTAAGTATA-AAT-CAT-CCTATAATACTTGTCCCATAGTTTGATATCATCATTTATATTTA-GC
422176 CCCTAATTTACATATTATTCTCATTAAGCCTTATAACCTTTCTTGTATAATCACTTATACCATAT
190 CCCTAATTTACATATTATTCTCA-TAAGCCTTATAACCTTTCTTGTATAATCACTTATACCATAT
422241 AATATAACTTATACTTGATTATATTATTCTCACATATTTTTATATCAAATGATTCTTTAACTTAT
254 AATATAACTTATACTTGATTATATTATTCTCACATATTTTTATATCAAATGATTCTTTAACTTAT
*
422306 AGCCTATGTCACGTGTTCATTTCATTCCTTATGTCCATACACATAGCATATTTCATATTCTTATA
319 AGCCTATGTCACGTGTTCATTTCATTCATTATGTCCATACACATAGCATATTTCATATTCTTATA
*
422371 TAATCATATAGATCATTTATACTATTTCACATAACTTATCACA
384 TAATCATATAGATCATTTATACCATTTCACATAACTTATCACA
422414 CT
1 CT
422416 AGCATGTACT
Statistics
Matches: 423, Mismatches: 3, Indels: 10
0.97 0.01 0.02
Matches are distributed among these distances:
425 9 0.02
426 2 0.00
427 123 0.29
428 3 0.01
429 3 0.01
430 44 0.10
431 95 0.22
432 144 0.34
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.44
Consensus pattern (426 bp):
CTGAATTTATACAGATCATGTAATATATACCATAATATAATTTATATCACTTATCTAATATTATT
TATATACTAAGTTAATCTATTTATTTAGTTCAATTTCACATGACTCTTATATCATAGTTTTCTTT
AAGTATAAATCATCCTATAATACTTGTCCCATAGTTTGATATCATCATTTATATTTAGCCCCTAA
TTTACATATTATTCTCATAAGCCTTATAACCTTTCTTGTATAATCACTTATACCATATAATATAA
CTTATACTTGATTATATTATTCTCACATATTTTTATATCAAATGATTCTTTAACTTATAGCCTAT
GTCACGTGTTCATTTCATTCATTATGTCCATACACATAGCATATTTCATATTCTTATATAATCAT
ATAGATCATTTATACCATTTCACATAACTTATCACA
Found at i:430860 original size:18 final size:18
Alignment explanation
Indices: 430834--430875 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
430824 TATTAAGGCT
430834 GTTAAAGCT-GCAGTTGCA
1 GTTAAAGCTAGCAG-TGCA
* *
430852 GTTACAGCTAGTAGTGCA
1 GTTAAAGCTAGCAGTGCA
430870 GTTAAA
1 GTTAAA
430876 AGTCGTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (18 bp):
GTTAAAGCTAGCAGTGCA
Found at i:442579 original size:20 final size:20
Alignment explanation
Indices: 442556--442607 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
442546 AAAAGAGACC
442556 AAGA-AAATAAAAAATAAAGT
1 AAGAGAAATAAAAAATAAA-T
* *
442576 AAGATAAA-AAAAAGTAAAT
1 AAGAGAAATAAAAAATAAAT
*
442595 AAAAGAAATAAAA
1 AAGAGAAATAAAA
442608 TTAAAATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 7 0.26
20 17 0.63
21 3 0.11
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (20 bp):
AAGAGAAATAAAAAATAAAT
Found at i:442703 original size:15 final size:15
Alignment explanation
Indices: 442560--442705 Score: 59
Period size: 15 Copynumber: 9.5 Consensus size: 15
442550 GAGACCAAGA
442560 AAATAAAAAATAAAG
1 AAATAAAAAATAAAG
442575 TAAGAT-AAAAA-AAAG
1 -AA-ATAAAAAATAAAG
*
442590 TAAATAAAAGAA-ATA-
1 -AAATAAAA-AATAAAG
* *
442605 AAATTAAAATTAAAG
1 AAATAAAAAATAAAG
*
442620 AAAATAATAGAATAAA-
1 -AAATAA-AAAATAAAG
* * * *
442636 AAATATATATATATAT
1 AAATA-AAAAATAAAG
* * *
442652 ATATAATAAATAAAC
1 AAATAAAAAATAAAG
* *
442667 AAATAAGAACAAGAATG
1 AAATAA-AA-AATAAAG
442684 AAATAAAAAATAAAG
1 AAATAAAAAATAAAG
442699 AAATAAA
1 AAATAAA
442706 TAAAATAAAT
Statistics
Matches: 97, Mismatches: 22, Indels: 23
0.68 0.15 0.16
Matches are distributed among these distances:
13 1 0.01
14 11 0.11
15 43 0.44
16 24 0.25
17 18 0.19
ACGTcount: A:0.71, C:0.01, G:0.07, T:0.21
Consensus pattern (15 bp):
AAATAAAAAATAAAG
Found at i:442719 original size:15 final size:15
Alignment explanation
Indices: 442699--442777 Score: 61
Period size: 15 Copynumber: 5.0 Consensus size: 15
442689 AAAAATAAAG
442699 AAATAAATAAAATAA
1 AAATAAATAAAATAA
* ** *
442714 ATATAAAGGACATAA
1 AAATAAATAAAATAA
442729 AAATAAAGTAAAGATCAA
1 AAATAAA-TAAA-AT-AA
*
442747 GAAA-AAATAAATTAAA
1 -AAATAAATAAAAT-AA
442763 AAATAAATAAAATAA
1 AAATAAATAAAATAA
442778 GTATAAAGAA
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
15 22 0.46
16 12 0.25
17 6 0.12
18 5 0.10
19 3 0.06
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.19
Consensus pattern (15 bp):
AAATAAATAAAATAA
Found at i:442765 original size:12 final size:11
Alignment explanation
Indices: 442560--442774 Score: 61
Period size: 12 Copynumber: 18.7 Consensus size: 11
442550 GAGACCAAGA
442560 AAATAAAAAAT
1 AAATAAAAAAT
*
442571 AAAGT--AAGAT
1 AAA-TAAAAAAT
*
442581 AAA-AAAAAGT
1 AAATAAAAAAT
442591 AAATAAAAGAAAT
1 AAAT-AAA-AAAT
* *
442604 AAAATTAAAATT
1 -AAATAAAAAAT
*
442616 AAAGAAAATAAT
1 AAATAAAA-AAT
442628 AGAATAAAAAAT
1 A-AATAAAAAAT
* *
442640 ATATATATATATAT
1 A-A-ATA-AAAAAT
*
442654 ATAATAAATAAAC
1 A-AATAAA-AAAT
442667 AAATAAGAACAA-
1 AAATAA-AA-AAT
*
442679 GAATGAAATAAA-
1 AAAT-AAA-AAAT
442691 AAATAAAGAAAT
1 AAATAAA-AAAT
442703 AAAT--AAAAT
1 AAATAAAAAAT
* **
442712 AAATATAAAGG
1 AAATAAAAAAT
*
442723 ACAT-AAAAAT
1 AAATAAAAAAT
*
442733 AAAGT-AAAGAT
1 AAA-TAAAAAAT
* *
442744 CAAGAAAAAAT
1 AAATAAAAAAT
442755 AAATTAAAAAAT
1 AAA-TAAAAAAT
442767 AAATAAAA
1 AAATAAAA
442775 TAAGTATAAA
Statistics
Matches: 150, Mismatches: 32, Indels: 44
0.66 0.14 0.19
Matches are distributed among these distances:
9 8 0.05
10 19 0.13
11 41 0.27
12 45 0.30
13 26 0.17
14 11 0.07
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:442784 original size:22 final size:21
Alignment explanation
Indices: 442750--442811 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
442740 AGATCAAGAA
*
442750 AAAATAA-ATTAAAAAATAAAT
1 AAAATAATA-TAAAAAATAAAG
442771 AAAATAAGTATAAAGAAA-AAAG
1 AAAATAA-TATAAA-AAATAAAG
*
442793 AAAACAATAGTAAAAAATA
1 AAAATAATA-TAAAAAATA
442812 TTTATATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
21 12 0.35
22 18 0.53
23 4 0.12
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.18
Consensus pattern (21 bp):
AAAATAATATAAAAAATAAAG
Found at i:443241 original size:19 final size:18
Alignment explanation
Indices: 443203--443261 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 18
443193 AAAAGTGAAA
*
443203 AAAATAATAAATAAACAAT
1 AAAAT-ATAAATAAAAAAT
*
443222 ATAATATAAATAAATAAAT
1 AAAATATAAATAAA-AAAT
443241 AAAATATACATATAAAAAAT
1 AAAATATA-A-ATAAAAAAT
443261 A
1 A
443262 GTATTAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 9 0.26
19 14 0.41
20 6 0.18
21 5 0.15
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAATATAAATAAAAAAT
Found at i:445335 original size:84 final size:84
Alignment explanation
Indices: 445127--445923 Score: 986
Period size: 84 Copynumber: 9.5 Consensus size: 84
445117 GAATTTGACA
* * * * * *** *
445127 TGCCCTTGAGCTAAATGTAATCGAACTCGAAGGT-ATTTGTTGACAGATAAATCTTCTCGCCTTG
1 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCACCTTG
* * *
445191 AGTTATGCTGTAAAATGGATA
66 AGCTATGCTG-CAAAT-GATG
* * * *
445212 TGTCTTTGAGCTGAATATAATCGAACTCAAAGGTCTTTTGTTGGCAGATAGCCCTTCTCACCTTG
1 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCACCTTG
*
445277 AGCTATGTTGCAAATGATG
66 AGCTATGCTGCAAATGATG
* * *
445296 TGCCTTTGAGCTTAGTGTAATCAAACTCGAAGGTTTTTTGTTGGCAGATAGCCCTTCTCACCTTG
1 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCACCTTG
*
445361 AGCTATGCTGCAAATTATG
66 AGCTATGCTGCAAATGATG
* * * * * *
445380 CGCCTTTGAGCTGAGTATAATCAAACTCGAAGGTC-TTGGTTGACAGATAACCCTTCTCACCTTG
1 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCACCTTG
* * * *
445444 AGTTGTGTTGTAAATGATG
66 AGCTATGCTGCAAATGATG
* * *
445463 TGCATTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTG
1 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCACCTTG
445528 AGCTATGCTGCAAATGATG
66 AGCTATGCTGCAAATGATG
* **
445547 TGCCTTTAAGCTGAGTGTAATTAAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCACCTTG
1 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCACCTTG
* * * *
445612 AGATATACTACAAATAATG
66 AGCTATGCTGCAAATGATG
* * * *
445631 TGTCTTTGAGCTGAGTGTAATTGAACTCGAAGGTCTTTTGTTAGTAGATAGCCCTTCTCACCTTG
1 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCACCTTG
* *
445696 AGTTATGATGCAAATGATG
66 AGCTATGCTGCAAATGATG
* * * * * **
445715 TGCCTTTAAGATGAGTGTAATCGAACTCGAAGGTATTTTATTGGCAGATAGCCCTTTTTGCCTTG
1 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCACCTTG
*
445780 AGCTATGCTACAAATGATG
66 AGCTATGCTGCAAATGATG
* * *
445799 TGCCTTTAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGACCTTCTCGCCTTG
1 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCACCTTG
* * *
445864 AGCTATACTACAAATAATG
66 AGCTATGCTGCAAATGATG
* * *
445883 CGCCTTTGAGCTGAGTGTAATCGAACTTGAAGGTATTTTGT
1 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGT
445924 AGAAGGTGTT
Statistics
Matches: 617, Mismatches: 93, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
83 71 0.12
84 481 0.78
85 33 0.05
86 32 0.05
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.34
Consensus pattern (84 bp):
TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCACCTTG
AGCTATGCTGCAAATGATG
Found at i:445804 original size:252 final size:252
Alignment explanation
Indices: 445132--445923 Score: 1104
Period size: 252 Copynumber: 3.1 Consensus size: 252
445122 TGACATGCCC
* * * ** *
445132 TTGAGCTAAATGTAATCGAACTCGAAGGT-ATTTGTTGACAGATAAATCTTCTCGCCTTGAGTTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCACCTTGAGTTA
* * * * * *
445196 TGCTGTAAAATGGATATGTCTTTGAGCTGAATATAATCGAACTCAAAGGTCTTTTGTTGGCAGAT
66 TGATG-AAAAT-GATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGAT
* * * *
445261 AGCCCTTCTCACCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTTAGTGTAATCAAACTCGA
129 AGCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTAAGCTGAGTGTAATCAAACTCGA
* * * *
445326 AGGTTTTTTGTTGGCAGATAGCCCTTCTCACCTTGAGCTATGCTGCAAATTATGCGCCT
194 AGGTCTTTTGTTGGCAGATAGCCCTTCTCACCTTGAGCTATACTACAAATAATGCGCCT
* * * *
445385 TTGAGCTGAGTATAATCAAACTCGAAGGTC-TTGGTTGACAGATAACCCTTCTCACCTTGAGTTG
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCACCTTGAGTTA
* * * *
445449 TGTTGTAAATGATGTGCATTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAA
66 TGATGAAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAG
*
445514 CCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTAAGCTGAGTGTAATTAAACTCGAAG
131 CCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTAAGCTGAGTGTAATCAAACTCGAAG
* * *
445579 GTCTTTTGTTGGCAGATAGCCCTTCTCACCTTGAGATATACTACAAATAATGTGTCT
196 GTCTTTTGTTGGCAGATAGCCCTTCTCACCTTGAGCTATACTACAAATAATGCGCCT
* * *
445636 TTGAGCTGAGTGTAATTGAACTCGAAGGTCTTTTGTT-AGTAGATAGCCCTTCTCACCTTGAGTT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGA-CAGATAACCCTTCTCACCTTGAGTT
* * * * *
445700 ATGATGCAAATGATGTGCCTTTAAGATGAGTGTAATCGAACTCGAAGGTATTTTATTGGCAGATA
65 ATGATGAAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATA
* * * *
445765 GCCCTTTTTGCCTTGAGCTATGCTACAAATGATGTGCCTTTAAGCTGAGTGTAATCGAACTCGAA
130 GCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTAAGCTGAGTGTAATCAAACTCGAA
* *
445830 GGTCTTTTGTTGGCAGATAGACCTTCTCGCCTTGAGCTATACTACAAATAATGCGCCT
195 GGTCTTTTGTTGGCAGATAGCCCTTCTCACCTTGAGCTATACTACAAATAATGCGCCT
* *
445888 TTGAGCTGAGTGTAATCGAACTTGAAGGTATTTTGT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGT
445924 AGAAGGTGTT
Statistics
Matches: 478, Mismatches: 58, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
251 186 0.39
252 234 0.49
253 58 0.12
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (252 bp):
TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCACCTTGAGTTA
TGATGAAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAG
CCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTAAGCTGAGTGTAATCAAACTCGAAG
GTCTTTTGTTGGCAGATAGCCCTTCTCACCTTGAGCTATACTACAAATAATGCGCCT
Found at i:446296 original size:3 final size:3
Alignment explanation
Indices: 446288--446338 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
446278 ATATTTAATT
* *
446288 TTA TTA TTA TTA TTA TTA TTA TTA -AA CTA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
446334 TTA TT
1 TTA TT
446339 TAATACATGT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 3 0.07
3 41 0.93
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:446826 original size:29 final size:29
Alignment explanation
Indices: 446784--446841 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
446774 CATATCTGAT
446784 GAACGCATCAACAACAGTGACCAAAATCC
1 GAACGCATCAACAACAGTGACCAAAATCC
446813 GAACGCATCAACAACAGTGACCAAAATCC
1 GAACGCATCAACAACAGTGACCAAAATCC
446842 CTCAAACAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.31, G:0.14, T:0.10
Consensus pattern (29 bp):
GAACGCATCAACAACAGTGACCAAAATCC
Found at i:449941 original size:31 final size:32
Alignment explanation
Indices: 449905--449966 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
449895 ATTTTACATG
449905 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
449936 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
449967 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:452102 original size:11 final size:11
Alignment explanation
Indices: 452065--452094 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
452055 AAGAGCAAAG
452065 AGAAAAATCAA
1 AGAAAAATCAA
452076 AGCAAAAATCAA
1 AG-AAAAATCAA
452088 AGAAAAA
1 AGAAAAA
452095 GTAAAGAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.73, C:0.10, G:0.10, T:0.07
Consensus pattern (11 bp):
AGAAAAATCAA
Found at i:453289 original size:4 final size:4
Alignment explanation
Indices: 453280--453321 Score: 70
Period size: 4 Copynumber: 11.0 Consensus size: 4
453270 AAGAGTATAC
453280 ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
453322 GATACATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
4 34 0.94
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:453730 original size:37 final size:36
Alignment explanation
Indices: 453673--453794 Score: 120
Period size: 35 Copynumber: 3.4 Consensus size: 36
453663 ATTTTGAGAA
*
453673 TTTTAAAACAAATTTTTGTCTCGCTTGAGACAATTTT
1 TTTTAAAACAAA-TTTTGTCTCGATTGAGACAATTTT
* * **
453710 TTTTCAAAGCAAATTTTGTCTCGATTGAGA-TAGCTT
1 TTTT-AAAACAAATTTTGTCTCGATTGAGACAATTTT
* * * *
453746 TCTAAAAACAAATTTTGTCTCGTTTGAGACAATTTC
1 TTTTAAAACAAATTTTGTCTCGATTGAGACAATTTT
**
453782 TTGAAAAACAAAT
1 TTTTAAAACAAAT
453795 CCCACCTCAC
Statistics
Matches: 68, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
35 23 0.34
36 18 0.26
37 20 0.29
38 7 0.10
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (36 bp):
TTTTAAAACAAATTTTGTCTCGATTGAGACAATTTT
Found at i:453979 original size:36 final size:36
Alignment explanation
Indices: 453898--453979 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
453888 ATTTTGTTTT
* * *
453898 GCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATC
1 GCTTGAGACAAATTCTTTAAAAACAAACTTCGTATC
* * *
453934 ACTTAAGACAAATTCTCTT-AAAACAAACTTCGTCTC
1 GCTTGAGACAAATTCT-TTAAAAACAAACTTCGTATC
453970 GCTTGAGACA
1 GCTTGAGACA
453980 TTTTTCCTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
36 35 0.95
37 2 0.05
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32
Consensus pattern (36 bp):
GCTTGAGACAAATTCTTTAAAAACAAACTTCGTATC
Found at i:454078 original size:105 final size:102
Alignment explanation
Indices: 453953--454191 Score: 290
Period size: 105 Copynumber: 2.3 Consensus size: 102
453943 AAATTCTCTT
* *
453953 AAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAACTTT-GAATTTGATTCAC
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAA-TTTCGAATTTGATTCAC
*
454017 -TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
65 ATT-AAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* * *
454058 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
* *
454123 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
454160 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
454192 TCTAAAAACA
Statistics
Matches: 119, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
101 2 0.02
102 26 0.22
103 7 0.06
104 7 0.06
105 75 0.63
106 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:454182 original size:36 final size:34
Alignment explanation
Indices: 454137--454255 Score: 114
Period size: 36 Copynumber: 3.4 Consensus size: 34
454127 ACAAAGTTGA
*
454137 TCTCACTTGAGATCGTTTTCTCAAAAACAAACTTTG
1 TCTCACTTGAGA-C-TTTTCTCAAAAACAAATTTTG
* *
454173 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGAC-TTTTCTC-AAAAACAAATTTTG
* * * *
454209 TCTCATTTGAGACTATATCT-TAAAGCAAATTTTG
1 TCTCACTTGAGACT-TTTCTCAAAAACAAATTTTG
*
454243 TCTCGCTTGAGAC
1 TCTCACTTGAGAC
454256 ATCATTTTCT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
34 23 0.33
35 7 0.10
36 39 0.57
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (34 bp):
TCTCACTTGAGACTTTTCTCAAAAACAAATTTTG
Found at i:454243 original size:34 final size:36
Alignment explanation
Indices: 454155--454256 Score: 129
Period size: 36 Copynumber: 2.9 Consensus size: 36
454145 GAGATCGTTT
* *
454155 TCTC-AAAAACAAACTTTGTCTCGCTTGAGACAATT
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
** *
454190 TCTCTAAAAACAAATTTTGTCTCATTTGAGACTATA
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
*
454226 TCT-T-AAAGCAAATTTTGTCTCGCTTGAGACA
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
454257 TCATTTTCTC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
34 23 0.40
35 5 0.09
36 29 0.51
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (36 bp):
TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
Found at i:454569 original size:57 final size:56
Alignment explanation
Indices: 454498--454633 Score: 193
Period size: 57 Copynumber: 2.4 Consensus size: 56
454488 AAGACAATTT
454498 CTTTTGGAAAAAAATCTTTGAGTTTGTTCCTCTTGAA-AAAAATCTTTGAGTTTGTTC
1 CTTTT-GAAAAAAATCTTTGAGTTTGTTCCTCTTGAATAAAAATCTTTGAG-TTGTTC
* * * *
454555 CTTTTGAATAAAAATCTTGGAGTTTGTTCCTTTTGAATAAAAGTCTTTGAGTTGTTT
1 CTTTTGAA-AAAAATCTTTGAGTTTGTTCCTCTTGAATAAAAATCTTTGAGTTGTTC
*
454612 CGTTTGAAAAAAATCTTTGAGT
1 CTTTTGAAAAAAATCTTTGAGT
454634 CTATTTATTT
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
56 16 0.23
57 43 0.61
58 12 0.17
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (56 bp):
CTTTTGAAAAAAATCTTTGAGTTTGTTCCTCTTGAATAAAAATCTTTGAGTTGTTC
Found at i:454648 original size:28 final size:28
Alignment explanation
Indices: 454498--454633 Score: 193
Period size: 29 Copynumber: 4.8 Consensus size: 28
454488 AAGACAATTT
454498 CTTTTGGAAAAAAATCTTTGAGTTTGTTC
1 CTTTT-GAAAAAAATCTTTGAGTTTGTTC
*
454527 CTCTTGAAAAAAATCTTTGAGTTTGTTC
1 CTTTTGAAAAAAATCTTTGAGTTTGTTC
*
454555 CTTTTGAATAAAAATCTTGGAGTTTGTTC
1 CTTTTGAA-AAAAATCTTTGAGTTTGTTC
* *
454584 CTTTTGAATAAAAGTCTTTGAG-TTGTTT
1 CTTTTGAA-AAAAATCTTTGAGTTTGTTC
*
454612 CGTTTGAAAAAAATCTTTGAGT
1 CTTTTGAAAAAAATCTTTGAGT
454634 CTATTTATTT
Statistics
Matches: 97, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
27 12 0.12
28 42 0.43
29 43 0.44
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (28 bp):
CTTTTGAAAAAAATCTTTGAGTTTGTTC
Found at i:454767 original size:67 final size:64
Alignment explanation
Indices: 454609--454834 Score: 296
Period size: 67 Copynumber: 3.5 Consensus size: 64
454599 CTTTGAGTTG
* * * * * *
454609 TTTCGTTTGAAAAAAATCTTTGAGTCTATTTATTTTGAAACAAAGTTTTGTCTCTCTTGAGACAA
1 TTTC-TTTGAAAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
* *
454674 TTT-TGTGAAAAAAATC--TGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
1 TTTCTTTGAAAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
*
454735 TTTCTTTGGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAAGAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTT-G-AA-AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
454800 AA
63 AA
*
454802 TTTCTTTTGAAAAAAATCTTTGAATCTGTTTCT
1 TTTC-TTTGAAAAAAATCTTTGAGTCTGTTTCT
454835 CTTAAAATGA
Statistics
Matches: 142, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
61 41 0.29
62 2 0.01
63 13 0.09
64 2 0.01
65 31 0.22
66 2 0.01
67 48 0.34
68 3 0.02
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.44
Consensus pattern (64 bp):
TTTCTTTGAAAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
Found at i:454876 original size:64 final size:64
Alignment explanation
Indices: 454615--454895 Score: 207
Period size: 67 Copynumber: 4.4 Consensus size: 64
454605 GTTGTTTCGT
* * * * * * * *
454615 TTGAAAAAAATCTTTGAGTCTATTTATTTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTT-T-
1 TTGAAAAAAATCTTTGAATCTGTTT-CTTTGAAAGAAAATTTTGTATCACTTAAGACAATTTCTC
* * * * * * *
454678 GTGAAAAAAATC--TGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCT-
1 TTGAAAAAAATCTTTGAATCTGTTTCTTT-GAAAGAAAATTTTGTATCACTTAAGACAATTTCTC
* * * *
454740 TTGGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAAGAAAATTTTGTCTCTCTTAAGATAATTT
1 TT-G-AA-AAAAATCTTTGAATCTGTTTCTTT-GAAAGAAAATTTTGTATCACTTAAGACAATTT
*
454805 CTT
62 CTC
* * *
454808 TTGAAAAAAATCTTTGAATCTGTTTCTCTT-AAA-ATGAATTTTGTATCACTTGAGACAGTTTCT
1 TTGAAAAAAATCTTTGAATCTGTTTCT-TTGAAAGA-AAATTTTGTATCACTTAAGACAATTTCT
454871 C
64 C
** *
454872 TTGAAGTAAATCTTTGAATATGTT
1 TTGAAAAAAATCTTTGAATCTGTT
454896 CATTTTGAAA
Statistics
Matches: 187, Mismatches: 21, Indels: 19
0.82 0.09 0.08
Matches are distributed among these distances:
60 3 0.02
61 38 0.20
62 2 0.01
63 13 0.07
64 48 0.26
65 28 0.15
66 4 0.02
67 49 0.26
68 2 0.01
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (64 bp):
TTGAAAAAAATCTTTGAATCTGTTTCTTTGAAAGAAAATTTTGTATCACTTAAGACAATTTCTC
Found at i:455073 original size:120 final size:119
Alignment explanation
Indices: 454935--455158 Score: 276
Period size: 120 Copynumber: 1.9 Consensus size: 119
454925 TTAACAAAAT
* * *
454935 CATCTTTGAGTCTATTTCTTTAAAAAC-AAATGTTGTCTCTCTT-GAGACAGTTTCTAATGAAAA
1 CATCTTTGAGTCTATTTCTTTAAAAACAAAAT-TT-TATCTCTTAAAGACAATTTCTAATGAAAA
454998 ACTAA-CTTTTGAGATTGTTTCATTTGAAAC-AAATTTGGTCTCACTTAAGATGTGATC
64 A--AATC-TTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTCACTTAAGATGTGATC
* ** **
455055 CATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAAAA
1 CATCTTTGAGTCTATTTCTTTAAAAACAAAATTTTATCTCTTAAAGACAATTTCTAATGAAAAAA
* * *
455120 ATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTC
66 ATCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTC
455159 TCGAGACAAC
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
118 23 0.26
119 19 0.21
120 43 0.48
121 4 0.04
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (119 bp):
CATCTTTGAGTCTATTTCTTTAAAAACAAAATTTTATCTCTTAAAGACAATTTCTAATGAAAAAA
ATCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTCACTTAAGATGTGATC
Found at i:455135 original size:64 final size:63
Alignment explanation
Indices: 455056--455180 Score: 187
Period size: 64 Copynumber: 2.0 Consensus size: 63
455046 GATGTGATCC
* *
455056 ATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAAAA
1 ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTC-TAAAGACAACTTCTTTTGAAAAAA
* * **
455120 ATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTCGAGACAACTTCTTTTGAAAA
1 ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTAAAGACAACTTCTTTTGAAAA
455181 TACCCACATT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
63 19 0.35
64 36 0.65
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (63 bp):
ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTAAAGACAACTTCTTTTGAAAAAA
Found at i:455235 original size:41 final size:40
Alignment explanation
Indices: 455162--455242 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 40
455152 TTGTCTCTCG
*
455162 AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
1 AGACAACTTCTTTTAAAAATACCCACATTTGAGATCGTTT
* * *
455202 AGACAATTTCTTTTAAAAACTACCCACCTTTGAGATTGTTT
1 AGACAACTTCTTTTAAAAA-TACCCACATTTGAGATCGTTT
455243 TTATTAAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 17 0.47
41 19 0.53
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (40 bp):
AGACAACTTCTTTTAAAAATACCCACATTTGAGATCGTTT
Found at i:455361 original size:15 final size:15
Alignment explanation
Indices: 455338--455381 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
455328 TTTTGAGTCG
*
455338 TTTCACTTGAAACAT
1 TTTCTCTTGAAACAT
*
455353 TTTCTCTTGAAGCAT
1 TTTCTCTTGAAACAT
*
455368 TTTCTCTTAAAACA
1 TTTCTCTTGAAACA
455382 AGATCACCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (15 bp):
TTTCTCTTGAAACAT
Found at i:455886 original size:28 final size:28
Alignment explanation
Indices: 455815--455896 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
455805 TAAAAATATC
* * *
455815 ATCTTTGAGTTTATTTTTCTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
** *
455843 ATCTTTGGGTTTGTTTCTTTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
455871 ATCTTT-AATTTGGTTTCTCTTGAAAC
1 ATCTTTGAATTT-GTTTCTCTTGAAAC
455897 CATAACTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
27 3 0.07
28 43 0.93
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.50
Consensus pattern (28 bp):
ATCTTTGAATTTGTTTCTCTTGAAACAA
Found at i:456068 original size:89 final size:83
Alignment explanation
Indices: 455915--456075 Score: 223
Period size: 83 Copynumber: 1.9 Consensus size: 83
455905 CTAAAGATGG
* * *
455915 CCAGCCGTCCTTATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCTTCATCACGTATGAGC
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGAACTCTTCATCACGTATGAGC
455980 CGTGTCAACCATAGATAA
66 CGTGTCAACCATAGATAA
* *
455998 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATC-CC--CAGA---CCAGAACTCTTCATCACGT
456063 ATGAGCCGTGTCA
60 ATGAGCCGTGTCA
456076 TTCCCCGACC
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
83 31 0.46
84 2 0.03
86 3 0.04
89 31 0.46
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (83 bp):
CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGAACTCTTCATCACGTATGAGC
CGTGTCAACCATAGATAA
Found at i:456231 original size:133 final size:132
Alignment explanation
Indices: 455903--456236 Score: 468
Period size: 129 Copynumber: 2.5 Consensus size: 132
455893 AAACCATAAC
* * * *
455903 TCCTAAAGATGGCCAG-CCGTCCTT-ATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCTT
1 TCCTAAAGATGGCCAGAAC-T-CTTCATCACGTATGAGCCGTGTCATCCCCA-ACCAGATCTCTT
455966 CATCACGTATGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTAT
63 CATCACGTATGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTAT
456031 CACCT
128 CACCT
*
456036 T--T--AGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCA
1 TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCA-TCCCCAACCAGATCTCTTCA
* *
456097 TCACGTATGAGTCGTGTC-ACCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCA
65 TCACGTATGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCA
456161 CCCT
130 -CCT
* *
456165 TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCATGTCATCCACCAACCAG-TCGTCCTC
1 TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCC-CCAACCAGATC-TCTTC
456229 ATCACGTA
64 ATCACGTA
456237 GGAACCGAGT
Statistics
Matches: 181, Mismatches: 10, Indels: 20
0.86 0.05 0.09
Matches are distributed among these distances:
128 48 0.27
129 63 0.35
130 6 0.03
131 2 0.01
132 5 0.03
133 57 0.31
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (132 bp):
TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAACCAGATCTCTTCAT
CACGTATGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCAC
CT
Found at i:456243 original size:91 final size:92
Alignment explanation
Indices: 456081--456291 Score: 255
Period size: 91 Copynumber: 2.3 Consensus size: 92
456071 TGTCATTCCC
* * * *
456081 CGACCAGATCTCTTCATCACGTATGAGTCGTGTCACCCTAGATAACCAGCCGTCCTCATCACGTA
1 CGACCAGAACTCTTCATCACGTATGAGCCATGTCACCCTAGACAACCAGCCGTCCTCATCACGTA
* ***
456146 GGAACCGTGTTATCACCCTTCCTAAAGA
66 GGAACCGAGTTATCACCAACCCT-AAGA
* * * * *
456174 TGGCCAGAACTCTTCATCACGTATGAGCCATGTCATCC-A-CCAACCAGTCGTCCTCATCACGTA
1 CGACCAGAACTCTTCATCACGTATGAGCCATGTCACCCTAGACAACCAGCCGTCCTCATCACGTA
* *
456237 GGAACCGAGTTATCATCAACCCTTAGA
66 GGAACCGAGTTATCACCAACCCTAAGA
*
456264 CGACCAGACCTCTTCATCACGTATGAGC
1 CGACCAGAACTCTTCATCACGTATGAGC
456292 AGTGTCGTCC
Statistics
Matches: 100, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
90 28 0.28
91 39 0.39
92 1 0.01
93 32 0.32
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.24
Consensus pattern (92 bp):
CGACCAGAACTCTTCATCACGTATGAGCCATGTCACCCTAGACAACCAGCCGTCCTCATCACGTA
GGAACCGAGTTATCACCAACCCTAAGA
Found at i:456466 original size:3 final size:3
Alignment explanation
Indices: 456458--456507 Score: 75
Period size: 3 Copynumber: 16.7 Consensus size: 3
456448 ATATTTAATT
*
456458 TTA TTA TTA TTA TTA TTA TTA TTAA CTA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
456503 TTA TT
1 TTA TT
456508 TAATACATGT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
2 2 0.05
3 40 0.91
4 2 0.05
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:456988 original size:29 final size:29
Alignment explanation
Indices: 456949--457006 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
456939 TCATATCTGA
456949 TGAACGCATCAACAACAGTGACCAAAATC
1 TGAACGCATCAACAACAGTGACCAAAATC
456978 TGAACGCATCAACAACAGTGACCAAAATC
1 TGAACGCATCAACAACAGTGACCAAAATC
457007 CCAAACAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.28, G:0.14, T:0.14
Consensus pattern (29 bp):
TGAACGCATCAACAACAGTGACCAAAATC
Found at i:463558 original size:17 final size:16
Alignment explanation
Indices: 463538--463744 Score: 63
Period size: 17 Copynumber: 11.9 Consensus size: 16
463528 AATAAAGGGC
463538 AAAAATGAAATAAATAA
1 AAAAAT-AAATAAATAA
*
463555 AAAAGATGCAAAGAAAATAA
1 AAAA-AT--AAA-TAAATAA
463575 TAAATAA-AAGATAAAGTAA
1 -AAA-AATAA-ATAAA-TAA
*
463594 GATAAA-AAATAAAATAA
1 -AAAAATAAAT-AAATAA
463611 AAGAAAT-AA-AAATAA
1 AA-AAATAAATAAATAA
*
463626 AACAAAGATAA-AAATAA
1 AA-AAATA-AATAAATAA
463643 AGAAAAT-AATAGAATAA
1 A-AAAATAAATA-AATAA
463660 AGAAAAT-AATAATATATA
1 A-AAAATAAATAA-ATA-A
*
463678 TAATAAATAAACAAATAA
1 -AA-AAATAAATAAATAA
* *
463696 GAACAA-GAATGAAAT-A
1 -AAAAATAAAT-AAATAA
*
463712 AAAAATAAATAAAGAA
1 AAAAATAAATAAATAA
463728 ATAAAATAAAATAAATA
1 A-AAAAT-AAATAAATA
463745 TAAAGGACAT
Statistics
Matches: 147, Mismatches: 18, Indels: 49
0.69 0.08 0.23
Matches are distributed among these distances:
15 20 0.14
16 11 0.07
17 56 0.38
18 28 0.19
19 17 0.12
20 10 0.07
21 4 0.03
22 1 0.01
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (16 bp):
AAAAATAAATAAATAA
Found at i:463612 original size:12 final size:12
Alignment explanation
Indices: 463568--463738 Score: 75
Period size: 12 Copynumber: 13.8 Consensus size: 12
463558 AGATGCAAAG
*
463568 AAAATAATAAAT
1 AAAATAAAAAAT
* * *
463580 AAAAGATAAAGT
1 AAAATAAAAAAT
*
463592 AAGATAAAAAAT
1 AAAATAAAAAAT
463604 AAAATAAAAGAAAT
1 AAAAT-AAA-AAAT
*
463618 AAAAATAAAACA-
1 -AAAATAAAAAAT
*
463630 AAGAT-AAAAAT
1 AAAATAAAAAAT
*
463641 AAAGA-AAATAAT
1 AAA-ATAAAAAAT
*
463653 AGAATAAAGAAAAT
1 AAAAT-AA-AAAAT
*
463667 AATAATATATATAAT
1 AA-AATA-A-AAAAT
463682 -AAATAAACAAAT
1 AAAATAAA-AAAT
* *
463694 AAGAA-CAAGAAT
1 AA-AATAAAAAAT
*
463706 GAAATAAAAAAT
1 AAAATAAAAAAT
463718 -AAATAAAGAAAT
1 AAAATAAA-AAAT
463730 AAAATAAAA
1 AAAATAAAA
463739 TAAATATAAA
Statistics
Matches: 117, Mismatches: 25, Indels: 34
0.66 0.14 0.19
Matches are distributed among these distances:
10 4 0.03
11 17 0.15
12 46 0.39
13 21 0.18
14 16 0.14
15 13 0.11
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.18
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:463643 original size:44 final size:46
Alignment explanation
Indices: 463576--463771 Score: 129
Period size: 44 Copynumber: 4.2 Consensus size: 46
463566 AGAAAATAAT
463576 AAATAAAAGATAAAGTAAGATAAA-AAATAAAATAAAAGAAATAAAAATA
1 AAAT-AAAGAT-AA-TAA-ATAAACAAATAAAATAAAAGAAATAAAAATA
* * * * * *
463625 AAACAAAGATAA-AAATAAAGAAA-ATAATAGAATAAA-GAAAATA
1 AAATAAAGATAATAAATAAACAAATAAAATAAAAGAAATAAAAATA
* * *
463668 ATAATATATATAATAAATAAACAAATAAGAACAAGAATGAAATAAAAA-A
1 A-AATAAAGATAATAAATAAACAAATAA-AATAA-AA-GAAATAAAAATA
* * *
463717 TAAATAAAGA-AATAAA-ATA-AAATAAATATAAAGGACATAAAAATA
1 -AAATAAAGATAATAAATAAACAAATAAA-ATAAAAGAAATAAAAATA
*
463762 AAGTAAAGAT
1 AAATAAAGAT
463772 CAAGAAAATA
Statistics
Matches: 114, Mismatches: 21, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
43 7 0.06
44 40 0.35
45 18 0.16
46 10 0.09
47 7 0.06
48 14 0.12
49 13 0.11
50 5 0.04
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.18
Consensus pattern (46 bp):
AAATAAAGATAATAAATAAACAAATAAAATAAAAGAAATAAAAATA
Found at i:463695 original size:36 final size:36
Alignment explanation
Indices: 463655--463741 Score: 88
Period size: 36 Copynumber: 2.4 Consensus size: 36
463645 AAAATAATAG
* *
463655 AATAAAGAAAATAAT-AATATATATAATAAATAAACA
1 AATAAAGAAAATAATGAA-ATAAAAAATAAATAAACA
* *
463691 AAT-AAGAACAAGAATGAAATAAAAAATAAATAAAGA
1 AATAAAGAA-AATAATGAAATAAAAAATAAATAAACA
*
463727 AATAAAATAAAATAA
1 AAT-AAAGAAAATAA
463742 ATATAAAGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
35 5 0.12
36 26 0.63
37 6 0.15
38 4 0.10
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (36 bp):
AATAAAGAAAATAATGAAATAAAAAATAAATAAACA
Found at i:463782 original size:26 final size:26
Alignment explanation
Indices: 463599--463783 Score: 78
Period size: 26 Copynumber: 6.9 Consensus size: 26
463589 AGTAAGATAA
463599 AAAATAAA-ATAAA-AGAAATAAAAAT
1 AAAATAAAGATAAAGA-AAATAAAAAT
* * *
463624 AAAACAAAGATAAAAATAAAGAAAATAAT
1 AAAATAAAGATAAAGA-AAA-TAAA-AAT
* *
463653 AGAATAAAGA-AAATAATAATATATATAAT
1 AAAATAAAGATAAAGAA-AATA-A-A-AAT
* * *
463682 -AAATAAACAAATAAGAACAAGAATGAAAT
1 AAAATAAAGATA-AAGAA-AATAA--AAAT
*
463711 AAAA-AATAAATAAAG-AAAT-AAAAT
1 AAAATAA-AGATAAAGAAAATAAAAAT
* * *
463735 AAAATAAATATAAAGGACATAAAAAT
1 AAAATAAAGATAAAGAAAATAAAAAT
* *
463761 AAAGTAAAGATCAAGAAAATAAA
1 AAAATAAAGATAAAGAAAATAAA
463784 TAAATTAATA
Statistics
Matches: 122, Mismatches: 23, Indels: 29
0.70 0.13 0.17
Matches are distributed among these distances:
24 15 0.12
25 12 0.10
26 29 0.24
27 8 0.07
28 18 0.15
29 26 0.21
30 14 0.11
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.17
Consensus pattern (26 bp):
AAAATAAAGATAAAGAAAATAAAAAT
Found at i:464195 original size:25 final size:27
Alignment explanation
Indices: 464149--464212 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 27
464139 GAAACCAAAA
*
464149 AATAGTAAAAAATATAAAAAT-A-AGT
1 AATAATAAAAAATATAAAAATAATAGT
*
464174 AA-AATAAAAAATATTAACAATAATAGT
1 AATAATAAAAAATA-TAAAAATAATAGT
464201 AATAATAAAAAA
1 AATAATAAAAAA
464213 ACAAAAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 10 0.30
25 8 0.24
26 1 0.03
27 5 0.15
28 9 0.27
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (27 bp):
AATAATAAAAAATATAAAAATAATAGT
Found at i:464284 original size:9 final size:9
Alignment explanation
Indices: 464249--464281 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
464239 AGAAAAAAAT
464249 AATAAATAA
1 AATAAATAA
464258 AATAAATAAA
1 AATAAAT-AA
464268 AATAAAT-A
1 AATAAATAA
464276 AATAAA
1 AATAAA
464282 ATATACATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 7 0.30
9 7 0.30
10 9 0.39
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AATAAATAA
Found at i:464941 original size:2 final size:2
Alignment explanation
Indices: 464934--464963 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
464924 AAATGAAATA
464934 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
464964 GTTATATGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:467883 original size:22 final size:22
Alignment explanation
Indices: 467849--467894 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
467839 AATCCTATAC
*
467849 GAATTCATCGGAGAGGACAAAT
1 GAATTCATCGGAGAAGACAAAT
* * *
467871 GAATTTATTGGAGAAGACAGAT
1 GAATTCATCGGAGAAGACAAAT
467893 GA
1 GA
467895 CAAGACAAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.09, G:0.28, T:0.22
Consensus pattern (22 bp):
GAATTCATCGGAGAAGACAAAT
Found at i:467972 original size:26 final size:28
Alignment explanation
Indices: 467940--467995 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 28
467930 TAAATTCTTT
467940 TATATATTTA-TATTTTATTATTTGTGCA
1 TATAT-TTTAGTATTTTATTATTTGTGCA
467968 TATATTTTTAGTTATTTTATTATTTGTG
1 TATA-TTTTAG-TATTTTATTATTTGTG
467996 GATGGAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 8 0.32
29 1 0.04
30 16 0.64
ACGTcount: A:0.25, C:0.02, G:0.09, T:0.64
Consensus pattern (28 bp):
TATATTTTAGTATTTTATTATTTGTGCA
Found at i:472791 original size:16 final size:16
Alignment explanation
Indices: 472772--472805 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
472762 CAATATACGA
472772 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
472788 ATAAATTTATATTTAT
1 ATAAAAATATATTTAT
472804 AT
1 AT
472806 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:472879 original size:16 final size:18
Alignment explanation
Indices: 472847--472880 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
472837 TATTAATTTA
472847 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
472865 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
472881 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:473389 original size:16 final size:16
Alignment explanation
Indices: 473370--473404 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
473360 GTGACATGTG
473370 TCACCAATAACATATA
1 TCACCAATAACATATA
473386 TCACCAATAACATATA
1 TCACCAATAACATATA
473402 TCA
1 TCA
473405 TGATCATGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (16 bp):
TCACCAATAACATATA
Found at i:474072 original size:35 final size:36
Alignment explanation
Indices: 474010--474086 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 36
474000 AATTGAATTT
* *
474010 AATTGAATTATTTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTATCTTTGGAAATTAGGGTTTAGAATGA
*
474046 AATTGAATTA-CTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTATCTTTGGAAATTAGGGTTTAGAATGA
474081 AATTGA
1 AATTGA
474087 GGACTATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 28 0.74
36 10 0.26
ACGTcount: A:0.35, C:0.01, G:0.23, T:0.40
Consensus pattern (36 bp):
AATTGAATTATCTTTGGAAATTAGGGTTTAGAATGA
Found at i:475140 original size:307 final size:308
Alignment explanation
Indices: 474791--475403 Score: 1156
Period size: 307 Copynumber: 2.0 Consensus size: 308
474781 CTAACTATTC
*
474791 TATGTCATTATTTTTGACATGTGTTATATGTTATATTATTATTATTATTATTTTGACATATAACA
1 TATGTCATTATTTTTGACATGTGTTATATGTTATATTATTATTATTATTATTTTGACATAGAACA
474856 TACATTAATCGTTAATTAAATAATGATCTTTGTCGAATTAGAGTGTTGAACTATATTTTGATATA
66 TACATTAATCGTTAATTAAATAATGATCTTTGTCGAATTAGAGTGTTGAACTATATTTTGATATA
*
474921 ACAATTAAGGCAAAATGTTTTTAAATTTAAATTGAATTTATTCAAAGTTTTTAAAAATAATTCAA
131 ACAATTAAGGCAAAATGTTTTTAAATTTAAATTGAATTTATTCAAAGTTTTCAAAAATAATTCAA
474986 AGTCCATTTAACTTGGAATTGAGCACAAAATGCTTTTCTGGACATGCAATATTGATATTGTTCTT
196 AGTCCATTTAACTTGGAATTGAGCACAAAATGCTTTTCTGGACATGCAATATTGATATTGTTCTT
*
475051 ACAGTATCGAT-ATCTTATGAACATTACTGATACTATTCATATGGTTA
261 ACACTATCGATAATCTTATGAACATTACTGATACTATTCATATGGTTA
475098 TATGTCATTATTTTTGACATGTGTTATATGTTATATTATTATTATTATTATTTTGACATAGAACA
1 TATGTCATTATTTTTGACATGTGTTATATGTTATATTATTATTATTATTATTTTGACATAGAACA
475163 TACATTAATCGTTAATTAAATAATGATCTTTGTCGAATTAGAGTGTTGAACTATATTTTGATATA
66 TACATTAATCGTTAATTAAATAATGATCTTTGTCGAATTAGAGTGTTGAACTATATTTTGATATA
** *
475228 ACAATTAAGGCAAAATGTTTTTGGATTTGAATTGAATTTATTCAAAGTTTTCAAAAATAATTCAA
131 ACAATTAAGGCAAAATGTTTTTAAATTTAAATTGAATTTATTCAAAGTTTTCAAAAATAATTCAA
*
475293 AGTTCATTTAACTTGGAATTGAGCACAAAATGCTTTTCTGGACATGCAATATTGATATTGTTCTT
196 AGTCCATTTAACTTGGAATTGAGCACAAAATGCTTTTCTGGACATGCAATATTGATATTGTTCTT
475358 ACACTATCGATAATCTTATGAACATTACTGATACTATTCATATGGT
261 ACACTATCGATAATCTTATGAACATTACTGATACTATTCATATGGT
475404 ATCGACACCT
Statistics
Matches: 298, Mismatches: 7, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
307 264 0.89
308 34 0.11
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.43
Consensus pattern (308 bp):
TATGTCATTATTTTTGACATGTGTTATATGTTATATTATTATTATTATTATTTTGACATAGAACA
TACATTAATCGTTAATTAAATAATGATCTTTGTCGAATTAGAGTGTTGAACTATATTTTGATATA
ACAATTAAGGCAAAATGTTTTTAAATTTAAATTGAATTTATTCAAAGTTTTCAAAAATAATTCAA
AGTCCATTTAACTTGGAATTGAGCACAAAATGCTTTTCTGGACATGCAATATTGATATTGTTCTT
ACACTATCGATAATCTTATGAACATTACTGATACTATTCATATGGTTA
Found at i:478035 original size:15 final size:15
Alignment explanation
Indices: 478007--478040 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
477997 GGAGTTTTGC
*
478007 CAAAAACAGTTTTTT
1 CAAAAACAATTTTTT
478022 CAAAAACAATTTTTT
1 CAAAAACAATTTTTT
478037 CAAA
1 CAAA
478041 TGTTTTGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (15 bp):
CAAAAACAATTTTTT
Found at i:479985 original size:11 final size:10
Alignment explanation
Indices: 479960--480018 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
479950 TTCATTTTTT
*
479960 TAAAAATAAA
1 TAAAAATGAA
*
479970 GAAAAATGCAA
1 TAAAAATG-AA
479981 TAAAAATGAA
1 TAAAAATGAA
479991 TTAAAAATGAA
1 -TAAAAATGAA
* *
480002 TAAAATTTAA
1 TAAAAATGAA
480012 TAAAAAT
1 TAAAAAT
480019 ATAATGTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
10 22 0.54
11 19 0.46
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.24
Consensus pattern (10 bp):
TAAAAATGAA
Found at i:479986 original size:21 final size:21
Alignment explanation
Indices: 479960--480006 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
479950 TTCATTTTTT
479960 TAAAAAT-AAAGAAAAATGCAA
1 TAAAAATGAAAGAAAAATG-AA
**
479981 TAAAAATGAATTAAAAATGAA
1 TAAAAATGAAAGAAAAATGAA
480002 TAAAA
1 TAAAA
480007 TTTAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (21 bp):
TAAAAATGAAAGAAAAATGAA
Found at i:480017 original size:21 final size:22
Alignment explanation
Indices: 479971--480017 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
479961 AAAAATAAAG
*
479971 AAAAATGCAATAAAAATGAATT
1 AAAAATGCAATAAAAATGAATA
* *
479993 AAAAATG-AATAAAATTTAATA
1 AAAAATGCAATAAAAATGAATA
480014 AAAA
1 AAAA
480018 TATAATGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.23
Consensus pattern (22 bp):
AAAAATGCAATAAAAATGAATA
Found at i:481408 original size:10 final size:10
Alignment explanation
Indices: 481384--481441 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
481374 CATTTTTTAA
* *
481384 AAAAATAAAG
1 AAAAATGAAT
481394 AAAAATGTAAT
1 AAAAATG-AAT
481405 AAAAATGAATT
1 AAAAATGAA-T
481416 AAAAATGAAT
1 AAAAATGAAT
* *
481426 AAAATTCAAT
1 AAAAATGAAT
481436 AAAAAT
1 AAAAAT
481442 ATAATGTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
10 22 0.54
11 19 0.46
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (10 bp):
AAAAATGAAT
Found at i:481408 original size:11 final size:11
Alignment explanation
Indices: 481394--481446 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
481384 AAAAATAAAG
481394 AAAAATGTAAT
1 AAAAATGTAAT
481405 AAAAATG-AATT
1 AAAAATGTAA-T
481416 AAAAATG-AAT
1 AAAAATGTAAT
481426 -AAAAT-TCAAT
1 AAAAATGT-AAT
*
481436 AAAAATATAAT
1 AAAAATGTAAT
481447 GTAAAGCTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
9 5 0.14
10 6 0.16
11 25 0.68
12 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (11 bp):
AAAAATGTAAT
Found at i:481409 original size:21 final size:21
Alignment explanation
Indices: 481384--481429 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
481374 CATTTTTTAA
481384 AAAAAT-AAAGAAAAATGTAAT
1 AAAAATGAAAGAAAAATG-AAT
**
481405 AAAAATGAATTAAAAATGAAT
1 AAAAATGAAAGAAAAATGAAT
481426 AAAA
1 AAAA
481430 TTCAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.20
Consensus pattern (21 bp):
AAAAATGAAAGAAAAATGAAT
Found at i:481440 original size:21 final size:22
Alignment explanation
Indices: 481394--481440 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
481384 AAAAATAAAG
* *
481394 AAAAATGTAATAAAAATGAATT
1 AAAAATGTAATAAAAATCAATA
*
481416 AAAAATG-AATAAAATTCAATA
1 AAAAATGTAATAAAAATCAATA
481437 AAAA
1 AAAA
481441 TATAATGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.23
Consensus pattern (22 bp):
AAAAATGTAATAAAAATCAATA
Found at i:482020 original size:11 final size:10
Alignment explanation
Indices: 481982--482018 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
481972 TTTACATTAT
481982 ATTTTTATTG
1 ATTTTTATTG
481992 ATTTTTATTG
1 ATTTTTATTG
*
482002 AATTTTTATTC
1 -ATTTTTATTG
482013 ATTTTT
1 ATTTTT
482019 TAAAAATTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (10 bp):
ATTTTTATTG
Found at i:483534 original size:3 final size:3
Alignment explanation
Indices: 483516--483563 Score: 64
Period size: 3 Copynumber: 16.3 Consensus size: 3
483506 CTACAAAAAA
*
483516 TAT TA- TAT TA- TAT TAT TAT TAT TAT TAT TAAT TTT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
483560 TAT T
1 TAT T
483564 TTTGCAGGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.82
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:483560 original size:19 final size:20
Alignment explanation
Indices: 483516--483563 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
483506 CTACAAAAAA
483516 TATTA-TATTATATTATTAT
1 TATTATTATTATATTATTAT
*
483535 TATTATTATTA-ATTTTTAT
1 TATTATTATTATATTATTAT
483554 TATTATTATT
1 TATTATTATT
483564 TTTGCAGGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTATTATTATATTATTAT
Found at i:484942 original size:13 final size:13
Alignment explanation
Indices: 484924--484953 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
484914 AGATGTTATG
*
484924 TATTCATTTCTTT
1 TATTCATTTCGTT
484937 TATTCATTTCGTT
1 TATTCATTTCGTT
484950 TATT
1 TATT
484954 TTAGTACTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.13, G:0.03, T:0.67
Consensus pattern (13 bp):
TATTCATTTCGTT
Found at i:485004 original size:16 final size:16
Alignment explanation
Indices: 484966--485003 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
484956 AGTACTTCCA
484966 AAATTTTAATTTATTT
1 AAATTTTAATTTATTT
*
484982 TAATTTTAATTT-TTT
1 AAATTTTAATTTATTT
484997 AAATTTT
1 AAATTTT
485004 TTTTCATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
AAATTTTAATTTATTT
Found at i:489762 original size:529 final size:529
Alignment explanation
Indices: 488764--489825 Score: 2124
Period size: 529 Copynumber: 2.0 Consensus size: 529
488754 GATGAAGGCT
488764 ACTCGACTTGTAAGCGCCTTTAAAGAACGATGGTGGTTCCTTAACTCGGCCAATTTCAGATAGGT
1 ACTCGACTTGTAAGCGCCTTTAAAGAACGATGGTGGTTCCTTAACTCGGCCAATTTCAGATAGGT
488829 TCGAGAACCAGTTCAAAACAAGTCGAGTTCGACTCAAACTCAACCATGAGCAGCATGTTTCCAGT
66 TCGAGAACCAGTTCAAAACAAGTCGAGTTCGACTCAAACTCAACCATGAGCAGCATGTTTCCAGT
488894 TGACACTTTCAAGCCAGATTTCAATTCCACGACGGAAGACATCCGACTCACAAAATTTGGCGAAA
131 TGACACTTTCAAGCCAGATTTCAATTCCACGACGGAAGACATCCGACTCACAAAATTTGGCGAAA
488959 GGGGCCATCATTCATTTAAAGGAAATTTACAGCACATCTTAAGTCAAGAAAAGTTGTCTGTCAAC
196 GGGGCCATCATTCATTTAAAGGAAATTTACAGCACATCTTAAGTCAAGAAAAGTTGTCTGTCAAC
489024 AAACAACTTTCCAATTTCATTCAGAGTCTATTTCAACTTCGCAGCGAAGAAAATTGGACTCGAAA
261 AAACAACTTTCCAATTTCATTCAGAGTCTATTTCAACTTCGCAGCGAAGAAAATTGGACTCGAAA
489089 TGACACAATTAGCTCGAGAGTAGATTTTAACTTCACGACGAAGGATATCTAGCTCGAAGCCAAAC
326 TGACACAATTAGCTCGAGAGTAGATTTTAACTTCACGACGAAGGATATCTAGCTCGAAGCCAAAC
489154 TCCACAATAAAGGGGTCTCCACGATTTCAACTTCACGGCGAAGGGAATTGTGTCCACCAACAACA
391 TCCACAATAAAGGGGTCTCCACGATTTCAACTTCACGGCGAAGGGAATTGTGTCCACCAACAACA
489219 TACAATACTTGAATTTCAACTTCATGACGAAAGATATTCAAGTCAAGGTTCAACTTCACAACGAA
456 TACAATACTTGAATTTCAACTTCATGACGAAAGATATTCAAGTCAAGGTTCAACTTCACAACGAA
489284 GGATATTGG
521 GGATATTGG
489293 ACTCGACTTGTAAGCGCCTTTAAAGAACGATGGTGGTTCCTTAACTCGGCCAATTTCAGATAGGT
1 ACTCGACTTGTAAGCGCCTTTAAAGAACGATGGTGGTTCCTTAACTCGGCCAATTTCAGATAGGT
489358 TCGAGAACCAGTTCAAAACAAGTCGAGTTCGACTCAAACTCAACCATGAGCAGCATGTTTCCAGT
66 TCGAGAACCAGTTCAAAACAAGTCGAGTTCGACTCAAACTCAACCATGAGCAGCATGTTTCCAGT
489423 TGACACTTTCAAGCCAGATTTCAATTCCACGACGGAAGACATCCGACTCACAAAATTTGGCGAAA
131 TGACACTTTCAAGCCAGATTTCAATTCCACGACGGAAGACATCCGACTCACAAAATTTGGCGAAA
489488 GGGGCCATCATTCATTTAAAGGAAATTTACAGCACATCTTAAGTCAAGAAAAGTTGTCTGTCAAC
196 GGGGCCATCATTCATTTAAAGGAAATTTACAGCACATCTTAAGTCAAGAAAAGTTGTCTGTCAAC
489553 AAACAACTTTCCAATTTCATTCAGAGTCTATTTCAACTTCGCAGCGAAGAAAATTGGACTCGAAA
261 AAACAACTTTCCAATTTCATTCAGAGTCTATTTCAACTTCGCAGCGAAGAAAATTGGACTCGAAA
489618 TGACACAATTAGCTCGAGAGTAGATTTTAACTTCACGACGAAGGATATCTAGCTCGAAGCCAAAC
326 TGACACAATTAGCTCGAGAGTAGATTTTAACTTCACGACGAAGGATATCTAGCTCGAAGCCAAAC
489683 TCCACAATAAAGGGGTCTCCACGATTTCAACTTCACGGCGAAGGGAATTGTGTCCACCAACAACA
391 TCCACAATAAAGGGGTCTCCACGATTTCAACTTCACGGCGAAGGGAATTGTGTCCACCAACAACA
489748 TACAATACTTGAATTTCAACTTCATGACGAAAGATATTCAAGTCAAGGTTCAACTTCACAACGAA
456 TACAATACTTGAATTTCAACTTCATGACGAAAGATATTCAAGTCAAGGTTCAACTTCACAACGAA
489813 GGATATTGG
521 GGATATTGG
489822 ACTC
1 ACTC
489826 CAGACAACGC
Statistics
Matches: 533, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
529 533 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (529 bp):
ACTCGACTTGTAAGCGCCTTTAAAGAACGATGGTGGTTCCTTAACTCGGCCAATTTCAGATAGGT
TCGAGAACCAGTTCAAAACAAGTCGAGTTCGACTCAAACTCAACCATGAGCAGCATGTTTCCAGT
TGACACTTTCAAGCCAGATTTCAATTCCACGACGGAAGACATCCGACTCACAAAATTTGGCGAAA
GGGGCCATCATTCATTTAAAGGAAATTTACAGCACATCTTAAGTCAAGAAAAGTTGTCTGTCAAC
AAACAACTTTCCAATTTCATTCAGAGTCTATTTCAACTTCGCAGCGAAGAAAATTGGACTCGAAA
TGACACAATTAGCTCGAGAGTAGATTTTAACTTCACGACGAAGGATATCTAGCTCGAAGCCAAAC
TCCACAATAAAGGGGTCTCCACGATTTCAACTTCACGGCGAAGGGAATTGTGTCCACCAACAACA
TACAATACTTGAATTTCAACTTCATGACGAAAGATATTCAAGTCAAGGTTCAACTTCACAACGAA
GGATATTGG
Found at i:489985 original size:106 final size:106
Alignment explanation
Indices: 489796--491063 Score: 1791
Period size: 106 Copynumber: 12.3 Consensus size: 106
489786 CAAGTCAAGG
*
489796 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
*
489861 CGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCCAAT
66 CGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAAT
* * * * *
489902 TTCAACTTCACAGCGAAGAATATTGGACTCCAGACAACACAAGTTCAACTTCAAGAAGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* * * *
489967 CGCTGGTTGTCAACAAACAACTTCTCAATTTCAAAGCCAAT
66 CGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAAT
490008 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* * *
490073 CGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCTAAT
66 CGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAAT
* *
490114 TTCAACTTCACAACGAAGGATATTGGACTCCGGACAACACAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
490179 CGCTGGTTGTCAAT--A-AA-----CAATTTC----CCAAT
66 CGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAAT
* * * * *
490208 TTCAACTTCACAACGAAGGATATTGGACTTCGGACAACACAAGTTCAACTTCACAATGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
*
490273 CGCTGGTTGTCAATAAACAATTTCCCGATTTCAGAGCCAAT
66 CGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAAT
* *
490314 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* *
490379 CGCTGGTTGTCAATAAACAATAATTTCTCAATTTTAGAGCCAAT
66 CGCTGGTTGTCAATAAAC---AATTTCCCAATTTCAGAGCCAAT
490423 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* *
490488 CGCTGGTTATCAATAAACAATTTCTCAATTTCAGAGCCAAT
66 CGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAAT
** *
490529 TTCAACTTCACAGTGAAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* * * *
490594 CGCTGGTTGTCAACAAACAACTTCCCAATTTCGGAGCTAAT
66 CGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAAT
* *
490635 TTCAACTTCACAACGAAGGATATTGGACTCC-GAACAACACAAGTTCAACTTCACGATGAAGGGA
1 TTCAACTTCACAACGAAGGATATTGGACTCCAG-ACAACGCAAGTTCAACTTCACGACGAAGGGA
*
490699 TCGCTGGTTGTCAAT--A-AA-----CAATTTC----CCAAT
65 CCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAAT
* * * *
490729 TTCAACTTCACAACGAAGGATATTGGACTTCGGACAACACAAGTTCAACTTCACAACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
*
490794 CGCTGGTTGTCAATAAACAATTTCCCGATTTCAGAGCCAAT
66 CGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAAT
*
490835 TTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
490900 CGCTGGTTGTCAAT--A-AA-----CAATTTC----CCAAT
66 CGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAAT
490929 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* * *
490994 CGCTGGTTGTCAATAAACAATTTCCCAGTTCCAGATCCAAT
66 CGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAAT
** *
491035 TTCAACTTCACGGCGGAGGATATTGGACT
1 TTCAACTTCACAACGAAGGATATTGGACT
491064 TGGAACAATA
Statistics
Matches: 1047, Mismatches: 74, Indels: 82
0.87 0.06 0.07
Matches are distributed among these distances:
94 240 0.23
95 1 0.00
96 3 0.00
97 6 0.01
98 20 0.02
102 17 0.02
103 6 0.01
104 3 0.00
105 1 0.00
106 650 0.62
109 100 0.10
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (106 bp):
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
CGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAAT
Found at i:490747 original size:51 final size:51
Alignment explanation
Indices: 490678--490826 Score: 127
Period size: 51 Copynumber: 3.1 Consensus size: 51
490668 ACAACACAAG
* *
490678 TTCAACTTCACGATGAAGGGATCGCTGGTTGTCAATAAACAATTTCCCAAT
1 TTCAACTTCACAACGAAGGGATCGCTGGTTGTCAATAAACAATTTCCCAAT
** * ** * *
490729 TTCAACTTCACAACGAA-GGAT-ATTGGACT-TC---GGACAA---CACAAG
1 TTCAACTTCACAACGAAGGGATCGCTGG-TTGTCAATAAACAATTTCCCAAT
* *
490772 TTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCGAT
1 TTCAACTTCACAACGAAGGGATCGCTGGTTGTCAATAAACAATTTCCCAAT
490823 TTCA
1 TTCA
490827 GAGCCAATTT
Statistics
Matches: 70, Mismatches: 18, Indels: 20
0.65 0.17 0.19
Matches are distributed among these distances:
43 21 0.30
44 4 0.06
45 5 0.07
46 4 0.06
48 4 0.06
49 5 0.07
50 5 0.07
51 22 0.31
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (51 bp):
TTCAACTTCACAACGAAGGGATCGCTGGTTGTCAATAAACAATTTCCCAAT
Found at i:490774 original size:521 final size:517
Alignment explanation
Indices: 489796--491063 Score: 2171
Period size: 521 Copynumber: 2.5 Consensus size: 517
489786 CAAGTCAAGG
*
489796 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* *
489861 CGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGAATATT
66 CGCTGGTTGTCAATAAACAATTTCTCAATTT-AGAGCCAATTTCAACTTCACAACGAAGGATATT
* * * * *
489926 GGACTCCAGACAACACAAGTTCAACTTCAAGAAGAAGGGACCGCTGGTTGTCAACAAACAACTTC
130 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC
* *
489991 TCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAA
195 TCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAA
*
490056 CTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCTAATTTCAACT
260 CTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCGGAGCTAATTTCAACT
*
490121 TCACAACGAAGGATATTGGACTCCGGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGT
325 TCACAACGAAGGATATTGGACTCCGAACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGT
490186 TGTCAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGGACTTCGGACAACACAAG
390 TGTCAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGGACTTCGGACAACACAAG
*
490251 TTCAACTTCACAATGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCGATTTCAGAGCCAAT
455 TTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCGATTTCAGAGCCAAT
* *
490314 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
490379 CGCTGGTTGTCAATAAACAATAATTTCTCAATTTTAGAGCCAATTTCAACTTCACAACGAAGGAT
66 CGCTGGTTGTCAATAAAC---AATTTCTCAA-TTTAGAGCCAATTTCAACTTCACAACGAAGGAT
*
490444 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTATCAATAAACAAT
127 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
* *
490509 TTCTCAATTTCAGAGCCAATTTCAACTTCACAGTGAAGAATATTGGACTCCAGACAACGCAAGTT
192 TTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
490574 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCGGAGCTAATTTCA
257 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCGGAGCTAATTTCA
* *
490639 ACTTCACAACGAAGGATATTGGACTCCGAACAACACAAGTTCAACTTCACGATGAAGGGATCGCT
322 ACTTCACAACGAAGGATATTGGACTCCGAACAACACAAGTTCAACTTCACGACGAAGGGACCGCT
490704 GGTTGTCAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGGACTTCGGACAACAC
387 GGTTGTCAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGGACTTCGGACAACAC
490769 AAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCGATTTCAGAGCCAA
452 AAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCGATTTCAGAGCCAA
490834 T
517 T
*
490835 TTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
490900 CGCTGGTTGTCAATAAACAA-TT-TC---------CCAATTTCAACTTCACAACGAAGGATATTG
66 CGCTGGTTGTCAATAAACAATTTCTCAATTTAGAGCCAATTTCAACTTCACAACGAAGGATATTG
*
490954 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCC
131 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCT
* * * * *
491019 CAGTTCCAGATCCAATTTCAACTTCACGGCGGAGGATATTGGACT
196 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACT
491064 TGGAACAATA
Statistics
Matches: 714, Mismatches: 32, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
506 131 0.18
516 2 0.00
517 2 0.00
518 82 0.11
521 494 0.69
522 3 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (517 bp):
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
CGCTGGTTGTCAATAAACAATTTCTCAATTTAGAGCCAATTTCAACTTCACAACGAAGGATATTG
GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCT
CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
TTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCGGAGCTAATTTCAACTT
CACAACGAAGGATATTGGACTCCGAACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTT
GTCAATAAACAATTTCCCAATTTCAACTTCACAACGAAGGATATTGGACTTCGGACAACACAAGT
TCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCGATTTCAGAGCCAAT
Found at i:490790 original size:43 final size:43
Alignment explanation
Indices: 490635--490790 Score: 134
Period size: 43 Copynumber: 3.4 Consensus size: 43
490625 CGGAGCTAAT
*
490635 TTCAACTTCACAACGAAGGATATTGGACTCCGAACAACACAAG
1 TTCAACTTCACAACGAAGGATATTGGACTTCGAACAACACAAG
* * ** * * * *
490678 TTCAACTTCACGATGAAGGGATCGCTGG-TTGTCAATAAACAATTTCCCAAT
1 TTCAACTTCACAACGAA-GGAT-ATTGGACT-TC---GAACAA---CACAAG
*
490729 TTCAACTTCACAACGAAGGATATTGGACTTCGGACAACACAAG
1 TTCAACTTCACAACGAAGGATATTGGACTTCGAACAACACAAG
490772 TTCAACTTCACAACGAAGG
1 TTCAACTTCACAACGAAGG
490791 GACCGCTGGT
Statistics
Matches: 85, Mismatches: 18, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
43 38 0.45
44 5 0.06
45 4 0.05
46 4 0.05
48 5 0.06
49 5 0.06
50 5 0.06
51 19 0.22
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (43 bp):
TTCAACTTCACAACGAAGGATATTGGACTTCGAACAACACAAG
Found at i:490990 original size:43 final size:43
Alignment explanation
Indices: 490835--490990 Score: 132
Period size: 43 Copynumber: 3.4 Consensus size: 43
490825 CAGAGCCAAT
*
490835 TTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* *** ** * * * *
490878 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
1 TTCAACTTCACAACGAA-GGA-TATTGG-ACTC--CAGACAA---CGCAAG
490929 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
*
490972 TTCAACTTCACGACGAAGG
1 TTCAACTTCACAACGAAGG
490991 GACCGCTGGT
Statistics
Matches: 83, Mismatches: 22, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
43 38 0.46
44 2 0.02
45 3 0.04
46 7 0.08
48 7 0.08
49 3 0.04
50 3 0.04
51 20 0.24
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.22
Consensus pattern (43 bp):
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:491018 original size:200 final size:201
Alignment explanation
Indices: 489796--491063 Score: 1594
Period size: 200 Copynumber: 6.1 Consensus size: 201
489786 CAAGTCAAGG
*
489796 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* *
489861 CGCTGGTTGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGAATATT
66 CGCTGGTTGTCAAT--A-AA-----CAATTTC--A-CCAATTTCAACTTCACAACGAAGGATATT
* * * *
489926 GGACTCCAGACAACACAAGTTCAACTTCAAGAAGAAGGGACCGCTGGTTGTCAACAAACAACTTC
120 GGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC
* *
489991 TCAATTTCAAAGCCAAT
185 CCAATTTCAGAGCCAAT
490008 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
*
490073 CGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCTAATTTCAACTTCACAACGAAGGATATT
66 CGCTGGTTGTCAATAAACAATTT--C-A---C----C-AATTTCAACTTCACAACGAAGGATATT
*
490138 GGACTCCGGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAT--A-AA----
120 GGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC
490196 -CAATTTC----CCAAT
185 CCAATTTCAGAGCCAAT
* * * * *
490208 TTCAACTTCACAACGAAGGATATTGGACTTCGGACAACACAAGTTCAACTTCACAATGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
*
490273 CGCTGGTTGTCAATAAACAATTTCCCGATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATT
66 CGCTGGTTGTCAATAAAC-A-------ATTTC--A-CCAATTTCAACTTCACAACGAAGGATATT
* *
490338 GGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATAAT
120 GGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC---AAT
* *
490403 TTCTCAATTTTAGAGCCAAT
182 TTCCCAATTTCAGAGCCAAT
490423 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* ** *
490488 CGCTGGTTATCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAGTGAAGAATATT
66 CGCTGGTTGTCAAT--A-AA-----CAATTTC--A-CCAATTTCAACTTCACAACGAAGGATATT
* * *
490553 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTC
120 GGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC
* *
490618 CCAATTTCGGAGCTAAT
185 CCAATTTCAGAGCCAAT
* *
490635 TTCAACTTCACAACGAAGGATATTGGACTCC-GAACAACACAAGTTCAACTTCACGATGAAGGGA
1 TTCAACTTCACAACGAAGGATATTGGACTCCAG-ACAACGCAAGTTCAACTTCACGACGAAGGGA
* * *
490699 TCGCTGGTTGTCAATAAACAATTTC-CCAATTTCAACTTCACAACGAAGGATATTGGACTTCGGA
65 CCGCTGGTTGTCAATAAACAATTTCACCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
490763 CAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCGATTTCAG
130 CAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAG
490828 AGCCAAT
195 AGCCAAT
*
490835 TTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
490900 CGCTGGTTGTCAATAAACAATTTC-CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGAC
66 CGCTGGTTGTCAATAAACAATTTCACCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGAC
* * *
490964 AACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAGTTCCAGA
131 AACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGA
*
491029 TCCAAT
196 GCCAAT
** *
491035 TTCAACTTCACGGCGGAGGATATTGGACT
1 TTCAACTTCACAACGAAGGATATTGGACT
491064 TGGAACAATA
Statistics
Matches: 943, Mismatches: 70, Indels: 98
0.85 0.06 0.09
Matches are distributed among these distances:
200 470 0.50
201 3 0.00
202 1 0.00
204 20 0.02
205 2 0.00
206 4 0.00
207 2 0.00
208 4 0.00
209 6 0.01
210 3 0.00
211 8 0.01
212 244 0.26
215 171 0.18
217 1 0.00
218 2 0.00
222 1 0.00
223 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (201 bp):
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
CGCTGGTTGTCAATAAACAATTTCACCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGAC
AACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGA
GCCAAT
Found at i:491922 original size:3 final size:3
Alignment explanation
Indices: 491899--491957 Score: 79
Period size: 3 Copynumber: 20.3 Consensus size: 3
491889 CTACAAAAAA
491899 TAT TA- TAT TA- TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
*
491942 TTT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
491958 TTTGCAGGAT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
2 6 0.12
3 41 0.82
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:491934 original size:25 final size:25
Alignment explanation
Indices: 491900--491957 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
491890 TACAAAAAAT
491900 ATTA-TATTA-TATTATATTATTATT
1 ATTATTATTATTATTA-ATTATTATT
*
491924 ATTATTATTATTATTAATTTTTATT
1 ATTATTATTATTATTAATTATTATT
491949 ATTATTATT
1 ATTATTATT
491958 TTTGCAGGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
24 4 0.13
25 22 0.71
26 5 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (25 bp):
ATTATTATTATTATTAATTATTATT
Found at i:494930 original size:17 final size:18
Alignment explanation
Indices: 494896--494933 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
494886 AACCAGATTG
*
494896 CCCAGAGGGTACATATAC
1 CCCAGAGGGTACAGATAC
*
494914 CCCAG-GGGTACCGATAC
1 CCCAGAGGGTACAGATAC
494931 CCC
1 CCC
494934 CATGCATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.26, C:0.37, G:0.24, T:0.13
Consensus pattern (18 bp):
CCCAGAGGGTACAGATAC
Found at i:500031 original size:23 final size:23
Alignment explanation
Indices: 499997--500065 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
499987 CACCACAGCT
* *
499997 CGTATAAATGCACCAAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
500020 CGTAGAATTGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
500043 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
500066 TATAAAATGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.33, C:0.26, G:0.25, T:0.16
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:500527 original size:2 final size:2
Alignment explanation
Indices: 500520--500561 Score: 66
Period size: 2 Copynumber: 20.5 Consensus size: 2
500510 ACTCATAATC
*
500520 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAC AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT A
500562 ATAACTTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 36 0.97
3 1 0.03
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:500575 original size:23 final size:25
Alignment explanation
Indices: 500526--500583 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 25
500516 AATCATATAT
*
500526 ATATATATATATATATATATATCAC
1 ATATATATATATATATATATATAAC
500551 ATATATATATA-ATA-ACT-TATAAC
1 ATATATATATATATATA-TATATAAC
500574 ATATA-ATATA
1 ATATATATATA
500584 GCTTATGCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 5 0.16
23 11 0.35
24 4 0.13
25 11 0.35
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (25 bp):
ATATATATATATATATATATATAAC
Found at i:501670 original size:24 final size:24
Alignment explanation
Indices: 501642--501702 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
501632 TACCCACTAT
*
501642 AGGGTATCGGTACTACCCTAGCTG
1 AGGGTATCGATACTACCCTAGCTG
*
501666 AGGGTATTGATACTACCCTAGCTG
1 AGGGTATCGATACTACCCTAGCTG
501690 AGGGTATCGATAC
1 AGGGTATCGATAC
501703 CAAGACGGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (24 bp):
AGGGTATCGATACTACCCTAGCTG
Found at i:502532 original size:40 final size:37
Alignment explanation
Indices: 502463--502588 Score: 118
Period size: 34 Copynumber: 3.4 Consensus size: 37
502453 TACTTTAGTA
*
502463 TATATTTTTATTTTTTTAGA-TTA-T-A-TATATATAT
1 TATATTTTTATTATTTT-GATTTATTAATTATATATAT
*
502497 TATATTTTTTTTATTATTAGATTTATTAATTTATATATAT
1 TATATTTTTATTATT-TT-GATTTATTAA-TTATATATAT
* * *
502537 TATTATTATTATTATTTTTATTTATTTATTATATATA-
1 TA-TATTTTTATTATTTTGATTTATTAATTATATATAT
502574 TATATTATTTATTAT
1 TATATT-TTTATTAT
502589 ATATATATAT
Statistics
Matches: 77, Mismatches: 7, Indels: 13
0.79 0.07 0.13
Matches are distributed among these distances:
34 13 0.17
35 5 0.06
36 7 0.09
37 10 0.13
38 10 0.13
39 8 0.10
40 13 0.17
41 11 0.14
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (37 bp):
TATATTTTTATTATTTTGATTTATTAATTATATATAT
Found at i:502542 original size:3 final size:3
Alignment explanation
Indices: 502534--502630 Score: 65
Period size: 3 Copynumber: 30.3 Consensus size: 3
502524 AATTTATATA
*
502534 TAT TAT TAT TAT TAT TAT TTT TATT TATT TAT TA- TAT ATAT ATAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TAT TAT TAT -TAT -TAT TA-T
* *
502583 TAT TA- TAT ATAT ATAT ATAT TAT TTT TGCT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT -TAT -TAT -TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
502630 T
1 T
502631 TATTTGTTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
2 6 0.07
3 45 0.56
4 30 0.37
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:502562 original size:4 final size:4
Alignment explanation
Indices: 502517--502772 Score: 61
Period size: 4 Copynumber: 63.0 Consensus size: 4
502507 TTATTATTAG
* * *
502517 ATTT ATTA ATTT ATAT ATATT A-TT A-TT A-TT ATTAT TTTT ATTT ATTT
1 ATTT ATTT ATTT ATTT AT-TT ATTT ATTT ATTT ATT-T ATTT ATTT ATTT
* * * * * *
502564 A-TT ATAT ATAT ATATT ATTT A-TT ATAT ATAT ATAT ATATT ATTT TTGCTT
1 ATTT ATTT ATTT AT-TT ATTT ATTT ATTT ATTT ATTT AT-TT ATTT AT--TT
* *
502614 A-TT A-TT A-TT ATTTT ATTT ATTT GTTTT ATTT ATATAT ATTT TTTT
1 ATTT ATTT ATTT A-TTT ATTT ATTT -ATTT ATTT AT-T-T ATTT ATTT
* * * * * *
502659 CTTT ATTT -TTT -TAT ATTT ATTTT ACTT A-CT ATTTT ATCT -TTG ATTT
1 ATTT ATTT ATTT ATTT ATTT A-TTT ATTT ATTT A-TTT ATTT ATTT ATTT
* * * * * *
502705 CTTT ATCTT ATCT -TTA ATTT AATTT GTTT TTTT ATTC ATTTT AATTTT
1 ATTT AT-TT ATTT ATTT ATTT -ATTT ATTT ATTT ATTT A-TTT -A-TTT
502753 ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT
502773 CTTACCTTTT
Statistics
Matches: 191, Mismatches: 37, Indels: 48
0.69 0.13 0.17
Matches are distributed among these distances:
3 33 0.17
4 112 0.59
5 36 0.19
6 10 0.05
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.68
Consensus pattern (4 bp):
ATTT
Found at i:502570 original size:76 final size:73
Alignment explanation
Indices: 502465--502658 Score: 182
Period size: 76 Copynumber: 2.6 Consensus size: 73
502455 CTTTAGTATA
* * * *
502465 TATTTTTATTTTTTTAGATTATATA-TATATATTATATTTTTTTTAT-TAT-TAGATTTATTAAT
1 TATTATTATTTTTTTA-TTTATTTATTATATATTATATTTTTTTTATATATATAGATATATT-AT
*
502527 TTATATATATTAT
64 TT-T-T-GATTAT
* *
502540 TATTATTATTATTTTTATTTATTTATTATATATATATATTATTTATTATATATATATATATATTA
1 TATTATTATT-TTTTTATTTATTTATTATATAT-TATATT-TTTTTTATATATATAGATATATTA
*
502605 TTTTTGCTTAT
63 TTTTTGATTAT
*
502616 TATTATTATTTTATTTATTTGTTTTATT-TATA-TATATTTTTTT
1 TATTATTATTTT-TTTATTT-ATTTATTATATATTATATTTTTTT
502659 CTTTATTTTT
Statistics
Matches: 101, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
73 4 0.04
74 6 0.06
75 17 0.17
76 38 0.38
77 13 0.13
78 8 0.08
79 7 0.07
80 8 0.08
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (73 bp):
TATTATTATTTTTTTATTTATTTATTATATATTATATTTTTTTTATATATATAGATATATTATTT
TTGATTAT
Found at i:502573 original size:2 final size:2
Alignment explanation
Indices: 502566--502602 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
502556 ATTTATTTAT
*
502566 TA TA TA TA TA TA T- TA TT TA T- TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
502603 TATTTTTGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (2 bp):
TA
Found at i:502670 original size:13 final size:14
Alignment explanation
Indices: 502621--502681 Score: 56
Period size: 13 Copynumber: 4.5 Consensus size: 14
502611 CTTATTATTA
*
502621 TTATTTTATT-TAT
1 TTATTTTTTTATAT
*
502634 TTGTTTTATTTATAT
1 TTATTTT-TTTATAT
* *
502649 ATA-TTTTTT-TCT
1 TTATTTTTTTATAT
502661 TTATTTTTTTATAT
1 TTATTTTTTTATAT
502675 TTATTTT
1 TTATTTT
502682 ACTTACTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
12 4 0.11
13 15 0.41
14 14 0.38
15 4 0.11
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (14 bp):
TTATTTTTTTATAT
Found at i:502679 original size:26 final size:28
Alignment explanation
Indices: 502621--502772 Score: 101
Period size: 27 Copynumber: 5.7 Consensus size: 28
502611 CTTATTATTA
*
502621 TTATTTTATTTATTTGTTTTATTTATAT
1 TTATTTTATTTATTTATTTTATTTATAT
* *
502649 ATATTTT-TTTCTTTATTTT-TTTATAT
1 TTATTTTATTTATTTATTTTATTTATAT
* *
502675 TTATTTTACTTA-CTATTTTATCTT-TGAT
1 TTATTTTATTTATTTATTTTAT-TTAT-AT
* * *
502703 TT-CTTTATCTTA--TCTTTAATTTA-AT
1 TTATTTTAT-TTATTTATTTTATTTATAT
* *
502728 TTGTTTT-TTTATTCATTTTAATTT-TAT
1 TTATTTTATTTATTTATTTT-ATTTATAT
502755 TTA-TTTATTTATTTATTT
1 TTATTTTATTTATTTATTT
502773 CTTACCTTTT
Statistics
Matches: 95, Mismatches: 17, Indels: 25
0.69 0.12 0.18
Matches are distributed among these distances:
24 3 0.03
25 5 0.05
26 30 0.32
27 42 0.44
28 15 0.16
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (28 bp):
TTATTTTATTTATTTATTTTATTTATAT
Found at i:502761 original size:23 final size:22
Alignment explanation
Indices: 502722--502768 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
502712 TTATCTTTAA
502722 TTTAATTTGTTTTTTTATTCAT
1 TTTAATTTGTTTTTTTATTCAT
*
502744 TTTAATTT-TATTTATTTATTTAT
1 TTTAATTTGT-TTT-TTTATTCAT
502767 TT
1 TT
502769 ATTTCTTACC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 11 0.50
23 10 0.45
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTAATTTGTTTTTTTATTCAT
Found at i:505847 original size:20 final size:21
Alignment explanation
Indices: 505796--505849 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
505786 CAATCAGAAC
* **
505796 AAAAAGAAAAAAGGAAAAAAA
1 AAAAAGAGAAAATAAAAAAAA
*
505817 ACAAAGAGAAAATAAAAAAAA
1 AAAAAGAGAAAATAAAAAAAA
505838 AAAAAG-GAAAAT
1 AAAAAGAGAAAAT
505850 TGAAGAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.04
Consensus pattern (21 bp):
AAAAAGAGAAAATAAAAAAAA
Found at i:505860 original size:21 final size:22
Alignment explanation
Indices: 505793--505849 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
505783 ATTCAATCAG
*
505793 AACAAAAAGAAAA-AAGGAAAAAA
1 AACAAAGAGAAAATAA--AAAAAA
505816 AACAAAGAGAAAATAAAAAAAA
1 AACAAAGAGAAAATAAAAAAAA
505838 AA-AAAG-GAAAAT
1 AACAAAGAGAAAAT
505850 TGAAGAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 6 0.19
21 4 0.12
22 8 0.25
23 12 0.38
24 2 0.06
ACGTcount: A:0.81, C:0.04, G:0.12, T:0.04
Consensus pattern (22 bp):
AACAAAGAGAAAATAAAAAAAA
Found at i:506039 original size:69 final size:69
Alignment explanation
Indices: 505921--506058 Score: 186
Period size: 69 Copynumber: 2.0 Consensus size: 69
505911 GATTTAAACT
* *
505921 ATGAGATTGATCAAGCAAAATCATTTCCGAATCATTGAACCACTTTACTCAAAGATCATAGAGCA
1 ATGAGATTGATCAAGCAAAATCATTTCCGAATCACTGAACCACTCTACTCAAAGATCATAGAGCA
505986 TCAA
66 TCAA
* * * * * * * *
505990 ATGAGATTGATCAAGCACAATCATTTCTGAATTACTGCATCACTCTACTCGAAGATCATGGAGTA
1 ATGAGATTGATCAAGCAAAATCATTTCCGAATCACTGAACCACTCTACTCAAAGATCATAGAGCA
506055 TCAA
66 TCAA
506059 GAGAGAGACA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (69 bp):
ATGAGATTGATCAAGCAAAATCATTTCCGAATCACTGAACCACTCTACTCAAAGATCATAGAGCA
TCAA
Found at i:507038 original size:32 final size:32
Alignment explanation
Indices: 506996--507071 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
506986 GCATCTTTAA
*
506996 AGATTCAACATCAAATGTTTGGA-CATTTATTT-
1 AGATTCAACATCAAATG-ATGGAGCATTT-TTTG
*
507028 AGATTTAACATCAAATGATGGAGCATTTTTTG
1 AGATTCAACATCAAATGATGGAGCATTTTTTG
507060 AGATTCAACATC
1 AGATTCAACATC
507072 GAATATTGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
31 7 0.18
32 32 0.82
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (32 bp):
AGATTCAACATCAAATGATGGAGCATTTTTTG
Found at i:507794 original size:106 final size:106
Alignment explanation
Indices: 507675--508008 Score: 479
Period size: 106 Copynumber: 3.2 Consensus size: 106
507665 GGATCGTGCC
* * *
507675 ACTCGATACAACACAAGTTCAACTCCACAACGAAGGGATGACTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
507740 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
507781 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
* *
507846 AATTTCGGAGCCAATTTCAACTTCACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * ** * **
507887 ACTCGAGATAGCACAAGCTCAACTTCACAGCGAAGGGACGGTTGGCTGTCAACAAACAATTTCTT
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
* * * * *
507952 AGTTCCAGAGCCAATTTTAACTTCACGACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
507993 ACTCGAAACAATACAA
1 ACTCGAGACAACACAA
508009 CTTACTTGGA
Statistics
Matches: 203, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
106 203 1.00
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:508419 original size:37 final size:37
Alignment explanation
Indices: 508363--508449 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
508353 ATTGAAAACA
* * * * *
508363 TTTCCCTTGAAA-TAAATTTTATCTCGCTTGGGATAG
1 TTTCTCTTGAAACAAAATTTTATCTCCCTTGAGACAG
*
508399 TTTCTCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACAAAATTTTATCTCCCTTGAGACAG
508436 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
508450 TAAACATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 11 0.25
37 33 0.75
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (37 bp):
TTTCTCTTGAAACAAAATTTTATCTCCCTTGAGACAG
Found at i:508450 original size:87 final size:87
Alignment explanation
Indices: 508252--508430 Score: 288
Period size: 87 Copynumber: 2.1 Consensus size: 87
508242 GACAGTTTCT
* *
508252 CTTGAAATATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCCTGATTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCCTGATTGAGATAGTTTCC
*
508317 CTTGAAACGAAATTTTGTCTCC
66 CTTGAAACAAAATTTTGTCTCC
* *
508339 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTAT-CTCGCTTGGGATAGTTTC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCCT-GATTGAGATAGTTTC
*
508403 TCTTGAAACAAAATTTTGTCTCC
65 CCTTGAAACAAAATTTTGTCTCC
508426 CTTGA
1 CTTGA
508431 GACAGTTTCT
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
86 2 0.02
87 83 0.98
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (87 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCCTGATTGAGATAGTTTCC
CTTGAAACAAAATTTTGTCTCC
Found at i:508455 original size:102 final size:102
Alignment explanation
Indices: 508339--508578 Score: 372
Period size: 102 Copynumber: 2.4 Consensus size: 102
508329 TTTTGTCTCC
* *
508339 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGATAGTTTCT
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
508404 CTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
66 CTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
* * * * *
508441 CTTGAAACATAAACATTGAAAACATGTCCTTTGAAATTAATTTTGTCTCTCTTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
* *
508506 CTTGAAATAAAATTTTGTCTCCCTTGAGATAGTTTCT
66 CTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
* **
508543 CTTGAAACATAAACCTTGAAAATGTTTCCCTTGAAA
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
508579 CACAAAATAT
Statistics
Matches: 124, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 124 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (102 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
CTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
Found at i:508522 original size:37 final size:36
Alignment explanation
Indices: 508471--508549 Score: 122
Period size: 37 Copynumber: 2.2 Consensus size: 36
508461 AACATGTCCT
* *
508471 TTGAAATTAATTTTGTCTCTCTTGAGATAGTTTCCC
1 TTGAAATAAATTTTGTCTCCCTTGAGATAGTTTCCC
*
508507 TTGAAATAAAATTTTGTCTCCCTTGAGATAGTTTCTC
1 TTGAAAT-AAATTTTGTCTCCCTTGAGATAGTTTCCC
508544 TTGAAA
1 TTGAAA
508550 CATAAACCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
36 7 0.18
37 32 0.82
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (36 bp):
TTGAAATAAATTTTGTCTCCCTTGAGATAGTTTCCC
Found at i:508666 original size:37 final size:37
Alignment explanation
Indices: 508616--508717 Score: 170
Period size: 36 Copynumber: 2.8 Consensus size: 37
508606 AAAACGAGTT
*
508616 TTGAGACGGTTTCCCTTGAAACAAAATCTAGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAAATCTAGTCTCTC
* *
508653 TTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAAATCTAGTCTCTC
508689 TTGAGACAGTTTCCCTTGAAACAAAATCT
1 TTGAGACAGTTTCCCTTGAAACAAAATCT
508718 TTGAATATCT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 34 0.57
37 26 0.43
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (37 bp):
TTGAGACAGTTTCCCTTGAAACAAAATCTAGTCTCTC
Found at i:508827 original size:36 final size:36
Alignment explanation
Indices: 508733--508846 Score: 135
Period size: 36 Copynumber: 3.2 Consensus size: 36
508723 TATCTTTTCC
* *
508733 TTGAAACAAA-TTTGTCTCC-CTTGAGACAATTTCTT
1 TTGAAATAAATTTTGTC-CCTCTTGAGACAGTTTCTT
* *
508768 TT-ACAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTT
1 TTGA-AA-TAAATTTTGTCCCTCTTGAGACAGTTTCTT
*
508805 TTGAAATAAATTTTGTCCCTCTTGAGACAGTTTCTC
1 TTGAAATAAATTTTGTCCCTCTTGAGACAGTTTCTT
508841 TTGAAA
1 TTGAAA
508847 CACAAAAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
34 1 0.01
35 4 0.06
36 36 0.54
37 25 0.37
38 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.42
Consensus pattern (36 bp):
TTGAAATAAATTTTGTCCCTCTTGAGACAGTTTCTT
Found at i:508913 original size:39 final size:36
Alignment explanation
Indices: 508834--508927 Score: 102
Period size: 39 Copynumber: 2.6 Consensus size: 36
508824 TCTTGAGACA
508834 GTTTCTCTTGAAAC-ACAAAAAAACCCCTCAAAATT
1 GTTTCTCTTGAAACAACAAAAAAACCCCTCAAAATT
* * *
508869 ATTTCTCTTGAAACATACACATAAAAACCCTTTGAAAA-T
1 GTTTCTCTTGAAACA-ACA-A-AAAAACCC-CTCAAAATT
*
508908 GTTTCTCTTGAAACACCAAA
1 GTTTCTCTTGAAACAACAAA
508928 CCCTCGAGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
35 13 0.27
36 1 0.02
37 4 0.08
38 3 0.06
39 23 0.47
40 5 0.10
ACGTcount: A:0.41, C:0.23, G:0.06, T:0.29
Consensus pattern (36 bp):
GTTTCTCTTGAAACAACAAAAAAACCCCTCAAAATT
Found at i:510097 original size:2 final size:2
Alignment explanation
Indices: 510090--510143 Score: 58
Period size: 2 Copynumber: 27.5 Consensus size: 2
510080 TTTATTAATT
* * *
510090 TA TA TA TA TA TA TA TA TA TA TA TA TT TA CTG T- TA TT TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
510131 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
510144 TATTTTTACT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
1 2 0.05
2 41 0.93
3 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (2 bp):
TA
Found at i:510213 original size:25 final size:25
Alignment explanation
Indices: 510135--510221 Score: 81
Period size: 25 Copynumber: 3.5 Consensus size: 25
510125 TTATTATATA
* *
510135 TATATATATTATTTTTACTTTCTTTTA
1 TATATATATT-TTTTT-CTTTATTTTT
* *
510162 T-TAT-TATTATTAT-TTTATTTATT
1 TATATATATTTTTTTCTTTATTT-TT
510185 TATATATATTTTTTTCTTTATTTTT
1 TATATATATTTTTTTCTTTATTTTT
*
510210 TATATTTATTTT
1 TATATATATTTT
510222 ACTTACTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
22 6 0.12
23 2 0.04
24 6 0.12
25 24 0.49
26 10 0.20
27 1 0.02
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.72
Consensus pattern (25 bp):
TATATATATTTTTTTCTTTATTTTT
Found at i:510219 original size:50 final size:52
Alignment explanation
Indices: 510108--510219 Score: 135
Period size: 50 Copynumber: 2.2 Consensus size: 52
510098 TATATATATA
* * *
510108 TATATATTTACTGTTATTTATTATATATATATATATTATTTTTACTTTCTTT
1 TATATATTTATTATTATTTATTATATATATATATATTATTTTTACTTTATTT
*
510160 TAT-TA-TTATTATTATTTTATT-TATTTATATATATT-TTTTT-CTTTATTT
1 TATATATTTATTATTA-TTTATTATATATATATATATTATTTTTACTTTATTT
*
510208 TTTATATTTATT
1 TATATATTTATT
510220 TTACTTACTA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
48 9 0.17
49 7 0.13
50 25 0.48
51 8 0.15
52 3 0.06
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.69
Consensus pattern (52 bp):
TATATATTTATTATTATTTATTATATATATATATATTATTTTTACTTTATTT
Found at i:510273 original size:26 final size:26
Alignment explanation
Indices: 510244--510293 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
510234 ATCTTTGTTT
*
510244 TTTTATCTT-ATCTTTTATTTAATTTG
1 TTTTATCTTCAT-TTTAATTTAATTTG
*
510270 TTTTTTCTTCATTTTAATTTAATT
1 TTTTATCTTCATTTTAATTTAATT
510294 AATTAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (26 bp):
TTTTATCTTCATTTTAATTTAATTTG
Found at i:513491 original size:23 final size:23
Alignment explanation
Indices: 513457--513525 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
513447 CACCACAGCT
* *
513457 CGTATAAATGCACCAAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
513480 CGTAGAATTGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
513503 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
513526 TATAAAATGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.33, C:0.26, G:0.25, T:0.16
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:515746 original size:63 final size:64
Alignment explanation
Indices: 515675--515827 Score: 249
Period size: 64 Copynumber: 2.4 Consensus size: 64
515665 CACTCACCAT
* *
515675 ATCGAATGCATTTTATGCATCGATGCAC-TACCATGCATCGATGCACTCATG-TT-TTATGAAAA
1 ATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTTGTT-TG-AAA
515737 C
64 C
515738 ATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTTGTTTGAAAC
1 ATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTTGTTTGAAAC
515802 ATCGAATGCATTTTATGCATCGATGC
1 ATCGAATGCATTTTATGCATCGATGC
515828 TCTCTTAGTG
Statistics
Matches: 85, Mismatches: 2, Indels: 5
0.92 0.02 0.05
Matches are distributed among these distances:
63 28 0.33
64 51 0.60
65 4 0.05
66 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (64 bp):
ATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTTGTTTGAAAC
Done.