Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 102 of 284
Found at i:33449321 original size:31 final size:31
Alignment explanation
Indices: 33449278--33449375 Score: 135
Period size: 31 Copynumber: 3.2 Consensus size: 31
33449268 TCACACTTCT
33449278 GCTACCTGATCAGTGAAAAGTGGTAGCTCTG
1 GCTACCTGATCAGTGAAAAGTGGTAGCTCTG
* * *
33449309 GCTACCTAATCAGTGAAAAATGGTAGCTCCG
1 GCTACCTGATCAGTGAAAAGTGGTAGCTCTG
* *
33449340 GCTACCTGATTAGTGAATAGTGGTAGCT-TCG
1 GCTACCTGATCAGTGAAAAGTGGTAGCTCT-G
33449371 GCTAC
1 GCTAC
33449376 AAGTGACAAG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (31 bp):
GCTACCTGATCAGTGAAAAGTGGTAGCTCTG
Found at i:33449547 original size:49 final size:48
Alignment explanation
Indices: 33449475--33449580 Score: 158
Period size: 49 Copynumber: 2.2 Consensus size: 48
33449465 GCATCAGTGA
* * *
33449475 GATATGTGATTCGTGTAAGACCATAGTTGGGCTACGGCATCGATATGT
1 GATATGTGATTCATGTAAGACCATAGCTGGGCTACGGCATCGATATAT
*
33449523 GATATGTGATTACATGTAAGACCATAGCTGGGCTATGGCATCGATATAT
1 GATATGTGATT-CATGTAAGACCATAGCTGGGCTACGGCATCGATATAT
33449572 GAATATGTG
1 G-ATATGTG
33449581 TAGGACCATA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
48 11 0.21
49 34 0.65
50 7 0.13
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.31
Consensus pattern (48 bp):
GATATGTGATTCATGTAAGACCATAGCTGGGCTACGGCATCGATATAT
Found at i:33449588 original size:42 final size:43
Alignment explanation
Indices: 33449537--33449650 Score: 160
Period size: 42 Copynumber: 2.7 Consensus size: 43
33449527 TGTGATTACA
*
33449537 TGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
* *
33449579 TGTAGGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
* **
33449621 TGTAAGACCATAGTTGAACTATGGCATCGA
1 TGTAAGACCATAGCTGGGCTATGGCATCGA
33449651 GAAAACGAAG
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.02
42 61 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
Found at i:33453523 original size:39 final size:39
Alignment explanation
Indices: 33453479--33453645 Score: 271
Period size: 39 Copynumber: 4.3 Consensus size: 39
33453469 TAGGAGATTG
*
33453479 AAAATATCCGGACATGAGGTCTGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
33453518 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* *
33453557 AAAATATCCGGACATGAGGTCTGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * **
33453596 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
33453635 AAAATATCCGG
1 AAAATATCCGG
33453646 GTTAAAGACC
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 118 1.00
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:33453661 original size:78 final size:78
Alignment explanation
Indices: 33453479--33453671 Score: 219
Period size: 78 Copynumber: 2.5 Consensus size: 78
33453469 TAGGAGATTG
* ** * *
33453479 AAAATATCCGGACATGAGGTCTGCAGGCTATATGCTGGAAAAATATCCGGACATGAGGTCCGCAG
1 AAAATATCCGGACATAAGACCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGGTCCGCAG
*
33453544 GCTATATGCTGGA
66 GCTACATGCTGGA
* ** * * *
33453557 AAAATATCCGGACATGAGGTCTGCAGGCTATATGCTAGAAATATATCCGGACTTGAGGTCCGCAG
1 AAAATATCCGGACATAAGACCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGGTCCGCAG
*
33453622 GCTACGTGCTGGA
66 GCTACATGCTGGA
** *
33453635 AAAATATCCGG-GTTAAAGACCCGCAGGCT-TACGCTAG
1 AAAATATCCGGACAT-AAGACCCGCAGGCTATATGCTAG
33453672 TGATGTATTC
Statistics
Matches: 102, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
77 8 0.08
78 94 0.92
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (78 bp):
AAAATATCCGGACATAAGACCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGGTCCGCAG
GCTACATGCTGGA
Found at i:33457600 original size:48 final size:48
Alignment explanation
Indices: 33457544--33457663 Score: 231
Period size: 48 Copynumber: 2.5 Consensus size: 48
33457534 TAGTCCGAGC
33457544 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATAAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATAAGATTA
*
33457592 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATAAGATTA
33457640 TTTGTTAATAGGGTAAATAATTGA
1 TTTGTTAATAGGGTAAATAATTGA
33457664 TGTTTGTAAT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.43, C:0.00, G:0.18, T:0.38
Consensus pattern (48 bp):
TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATAAGATTA
Found at i:33464334 original size:39 final size:39
Alignment explanation
Indices: 33464290--33464417 Score: 193
Period size: 39 Copynumber: 3.3 Consensus size: 39
33464280 TATGAGATTG
33464290 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
*
33464329 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * * **
33464368 AATATATCCAGACTTGAGGTCCGCAGACTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
33464407 AAAATATCCGG
1 AAAATATCCGG
33464418 GTTAAAGACC
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:33464431 original size:78 final size:76
Alignment explanation
Indices: 33464289--33464443 Score: 177
Period size: 78 Copynumber: 2.0 Consensus size: 76
33464279 GTATGAGATT
* * * * **
33464289 GAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATGAGGTCCGCA
1 GAAAATATCCAGACATGAGGTCCGCAGACTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
*
33464354 GGCTATATGCTA
66 GGCT-TACGCTA
* * **
33464366 GAAATATATCCAGACTTGAGGTCCGCAGACTACGTGCTGGAAAAATATCCGG-GTTAAAGACCCG
1 GAAA-ATATCCAGACATGAGGTCCGCAGACTACATGCTGGAAAAATATCCGGACAT-AAGACCCG
33464430 CAGGCTTACGCTA
64 CAGGCTTACGCTA
33464443 G
1 G
33464444 TGATGTATTC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
77 12 0.18
78 53 0.82
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (76 bp):
GAAAATATCCAGACATGAGGTCCGCAGACTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
GGCTTACGCTA
Found at i:33468365 original size:14 final size:15
Alignment explanation
Indices: 33468337--33468365 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33468327 TAATTTTATG
33468337 AATTTCATGATGTAT
1 AATTTCATGATGTAT
33468352 AATTTCAT-ATGTAT
1 AATTTCATGATGTAT
33468366 TGATGATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.48
Consensus pattern (15 bp):
AATTTCATGATGTAT
Found at i:33468560 original size:50 final size:51
Alignment explanation
Indices: 33468482--33468602 Score: 172
Period size: 50 Copynumber: 2.4 Consensus size: 51
33468472 GACCATGGCA
* * * *
33468482 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATTAAGGACAAGTG
1 ACAAGTGATAAGTGATAGCTCCGACTACACTTATCTGATCAAGGACAAATG
*
33468533 A-AAGTGATAAGTGATAGCTCCGACTACACTTATTTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTCCGACTACACTTATCTGATCAAGGACAAATG
* *
33468583 ACAAGTGAAAAGTGGTAGCT
1 ACAAGTGATAAGTGATAGCT
33468603 TCGGCTACCT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 45 0.73
51 17 0.27
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTCCGACTACACTTATCTGATCAAGGACAAATG
Found at i:33468624 original size:31 final size:31
Alignment explanation
Indices: 33468586--33468734 Score: 235
Period size: 31 Copynumber: 4.8 Consensus size: 31
33468576 ACAAATGACA
33468586 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
33468617 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
33468648 AGTGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
33468679 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
33468710 AGTGAATAGTGGTAGCTTCAGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
33468735 AAGTGACAAG
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 108 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:33468897 original size:42 final size:42
Alignment explanation
Indices: 33468834--33468985 Score: 182
Period size: 42 Copynumber: 3.6 Consensus size: 42
33468824 GCATCAGTGA
* *
33468834 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTACGGTATT
1 GATATGTGATTACGTGTAAGACCATAGCTGGGCTACGGCATC
*
33468875 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGATTACGTGTAAGACCATAGCTGGGCTACGGCATC
* * * * *
33468917 GATATATGAATATGTGTAAGACCATAGCTGGGCTATGGCAGC
1 GATATGTGATTACGTGTAAGACCATAGCTGGGCTACGGCATC
** *
33468959 -ATTATGTGAAGATGTGTAAGACCATAG
1 GA-TATGTGATTACGTGTAAGACCATAG
33468986 TTGAACTATG
Statistics
Matches: 100, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
41 12 0.12
42 88 0.88
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (42 bp):
GATATGTGATTACGTGTAAGACCATAGCTGGGCTACGGCATC
Found at i:33468965 original size:84 final size:83
Alignment explanation
Indices: 33468846--33469002 Score: 208
Period size: 84 Copynumber: 1.9 Consensus size: 83
33468836 TATGTGATTC
* ** **
33468846 GTGTAAGACCATAGCTGGGCTACGGTATTGATATGTGATTACGTGTAAGACCATAGCTGGGCTAT
1 GTGTAAGACCATAGCTGGGCTACGGCA-TGATATGTGAAGACGTGTAAGACCATAGCTGAACTAT
33468911 GGCATCGATATATGAATAT
65 GGCATCGATATATGAATAT
* * *
33468930 GTGTAAGACCATAGCTGGGCTATGGCA-GCATTATGTGAAGATGTGTAAGACCATAGTTGAACTA
1 GTGTAAGACCATAGCTGGGCTACGGCATG-A-TATGTGAAGACGTGTAAGACCATAGCTGAACTA
33468994 TGGCATCGA
64 TGGCATCGA
33469003 GAAAACGAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
82 1 0.02
83 1 0.02
84 61 0.97
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (83 bp):
GTGTAAGACCATAGCTGGGCTACGGCATGATATGTGAAGACGTGTAAGACCATAGCTGAACTATG
GCATCGATATATGAATAT
Found at i:33473019 original size:23 final size:22
Alignment explanation
Indices: 33472992--33473038 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
33472982 TTAATTTTAA
33472992 TTTTAA-TTTTTAATTTTATATTT
1 TTTTAAGTTTTT-ATTTT-TATTT
33473015 TTTTAAGTTTTTATTTTTATTT
1 TTTTAAGTTTTTATTTTTATTT
33473037 TT
1 TT
33473039 AATATAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.30
23 11 0.48
24 5 0.22
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTTAAGTTTTTATTTTTATTT
Found at i:33473025 original size:8 final size:7
Alignment explanation
Indices: 33472982--33473041 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 7
33472972 TTGATTCATC
33472982 TTAA-TT
1 TTAATTT
33472988 TTAA-TT
1 TTAATTT
33472994 TTAATTT
1 TTAATTT
33473001 TTAATTT
1 TTAATTT
*
33473008 TATATTTTT
1 T-TA-ATTT
33473017 TTAAGTTT
1 TTAA-TTT
33473025 TT-ATTT
1 TTAATTT
33473031 TT-ATTT
1 TTAATTT
33473037 TTAAT
1 TTAAT
33473042 ATAATTAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
6 21 0.45
7 13 0.28
8 9 0.19
9 4 0.09
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.72
Consensus pattern (7 bp):
TTAATTT
Found at i:33473181 original size:17 final size:16
Alignment explanation
Indices: 33473150--33473183 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33473140 TAAATAATTC
33473150 TTTAAATATATATTTA
1 TTTAAATATATATTTA
*
33473166 TTTATATATAATATTTA
1 TTTAAATAT-ATATTTA
33473183 T
1 T
33473184 ATGTCAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTAAATATATATTTA
Found at i:33477457 original size:29 final size:30
Alignment explanation
Indices: 33477411--33477472 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
33477401 AACTTACAAG
33477411 CAAATACCACTAAAATAATAAAAAAATTAA
1 CAAATACCACTAAAATAATAAAAAAATTAA
* *
33477441 CAAATACC-TTAAAATAATAAGAAAATTAA
1 CAAATACCACTAAAATAATAAAAAAATTAA
33477470 CAA
1 CAA
33477473 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.65, C:0.13, G:0.02, T:0.21
Consensus pattern (30 bp):
CAAATACCACTAAAATAATAAAAAAATTAA
Found at i:33484548 original size:18 final size:18
Alignment explanation
Indices: 33484512--33484550 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33484502 AACTCACCTT
*
33484512 GCTTCCTTGTCCTCGGCA
1 GCTTCCTTGTCCTCAGCA
33484530 GCTTACCTTGTCCT-AGCA
1 GCTT-CCTTGTCCTCAGCA
33484548 GCT
1 GCT
33484551 AAGCATGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.10, C:0.36, G:0.21, T:0.33
Consensus pattern (18 bp):
GCTTCCTTGTCCTCAGCA
Found at i:33492057 original size:21 final size:20
Alignment explanation
Indices: 33492033--33492071 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
33492023 GAGTATTTTG
33492033 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
33492054 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
33492072 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:33494263 original size:20 final size:20
Alignment explanation
Indices: 33494234--33494272 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33494224 TGATTGGTTG
* *
33494234 TGATTGAATTGTATTTGAAT
1 TGATTAAATTGTATATGAAT
33494254 TGATTAAATTGTATATGAA
1 TGATTAAATTGTATATGAA
33494273 ATGTATGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (20 bp):
TGATTAAATTGTATATGAAT
Found at i:33496043 original size:41 final size:41
Alignment explanation
Indices: 33495965--33496088 Score: 117
Period size: 40 Copynumber: 3.0 Consensus size: 41
33495955 AGCTATAACG
* * *
33495965 ATATCGCACACTTAGTGCCATCACATTAAACCGAAGCTATCTCA
1 ATATCACACACTTAGTGCCA-CATA-T-AGCCGAAGCTATCTCA
*
33496009 GTATCACACACTTAGTGCCACATATAGCCGAAGCTAT-TCCA
1 ATATCACACACTTAGTGCCACATATAGCCGAAGCTATCT-CA
* * ** *
33496050 AT-TCACACACTAAGTGCTATTTATAGCTGAAGCTATCTC
1 ATATCACACACTTAGTGCCACATATAGCCGAAGCTATCTC
33496089 GAAATGCACA
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
40 31 0.46
41 15 0.22
42 1 0.01
43 3 0.04
44 18 0.26
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.27
Consensus pattern (41 bp):
ATATCACACACTTAGTGCCACATATAGCCGAAGCTATCTCA
Found at i:33496075 original size:40 final size:42
Alignment explanation
Indices: 33495995--33496108 Score: 114
Period size: 40 Copynumber: 2.8 Consensus size: 42
33495985 TCACATTAAA
* *
33495995 CCGAAGCTA-TCTCAGTATCACACACTTAGTGCCACATATAG
1 CCGAAGCTATTCTCAATATCACACACTAAGTGCCACATATAG
* **
33496036 CCGAAGCTATTC-CAAT-TCACACACTAAGTGCTATTTATAG
1 CCGAAGCTATTCTCAATATCACACACTAAGTGCCACATATAG
* *
33496076 CTGAAGCTA-TCTCGAA-AT-GCACACTAAGTGCCA
1 CCGAAGCTATTCTC-AATATCACACACTAAGTGCCA
33496109 AACATAGTCG
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
39 2 0.03
40 42 0.69
41 15 0.25
42 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (42 bp):
CCGAAGCTATTCTCAATATCACACACTAAGTGCCACATATAG
Found at i:33498510 original size:46 final size:46
Alignment explanation
Indices: 33498452--33498556 Score: 192
Period size: 46 Copynumber: 2.3 Consensus size: 46
33498442 ATTTGGGCAT
* *
33498452 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
33498498 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
33498544 CCGAGCTCGTTGA
1 CCGAGCTCGTTGA
33498557 ATACTTTGAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 57 1.00
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.25
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
Found at i:33504984 original size:31 final size:31
Alignment explanation
Indices: 33504949--33505009 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
33504939 TATTCAACAC
33504949 AAGAATGACTACACAACATAGAGAATCACAT
1 AAGAATGACTACACAACATAGAGAATCACAT
*
33504980 AAGAATGACTACACAACATAGGGAATCACA
1 AAGAATGACTACACAACATAGAGAATCACA
33505010 CATAAACACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.51, C:0.20, G:0.15, T:0.15
Consensus pattern (31 bp):
AAGAATGACTACACAACATAGAGAATCACAT
Found at i:33507070 original size:21 final size:20
Alignment explanation
Indices: 33507038--33507078 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
33507028 ATACATGAGT
33507038 ATTTTGATGTTTAATGATAG
1 ATTTTGATGTTTAATGATAG
*
33507058 ATTTTGAATGTTTGATGATAG
1 ATTTTG-ATGTTTAATGATAG
33507079 TTGTACAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (20 bp):
ATTTTGATGTTTAATGATAG
Found at i:33509484 original size:23 final size:24
Alignment explanation
Indices: 33509446--33509506 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
33509436 AAAAAAATAA
*
33509446 AAAAAATT-AAAA-AAAG-CAATT
1 AAAAAATTAAAAAGAAAGACAAAT
*
33509467 AAAAAATTAAAAAGAAAGATAAAT
1 AAAAAATTAAAAAGAAAGACAAAT
*
33509491 AAAAAA-TAAAATGAAA
1 AAAAAATTAAAAAGAAA
33509507 AAATAATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.24
22 4 0.12
23 13 0.38
24 9 0.26
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.16
Consensus pattern (24 bp):
AAAAAATTAAAAAGAAAGACAAAT
Found at i:33509604 original size:5 final size:5
Alignment explanation
Indices: 33509594--33509670 Score: 90
Period size: 5 Copynumber: 15.6 Consensus size: 5
33509584 TAAGAATAAT
33509594 AAATA AAATA AAATA AAAT- -AATA AAATA AAAT- AAATA AAATAA TAAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAAT-A -AAATA
*
33509643 ATAAT- AAATA AAATA AAATA AAACA AAA
1 A-AATA AAATA AAATA AAATA AAATA AAA
33509671 GGGGTGGCTT
Statistics
Matches: 64, Mismatches: 1, Indels: 14
0.81 0.01 0.18
Matches are distributed among these distances:
3 3 0.05
4 7 0.11
5 45 0.70
6 5 0.08
7 4 0.06
ACGTcount: A:0.78, C:0.01, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:33509613 original size:22 final size:21
Alignment explanation
Indices: 33509583--33509665 Score: 116
Period size: 22 Copynumber: 3.9 Consensus size: 21
33509573 AAATCTAAGT
33509583 ATAAGAATAATAAATAAAATAAA
1 ATAA-AATAATAAATAAAAT-AA
33509606 ATAAAATAATAAAATAAAATAA
1 ATAAAATAAT-AAATAAAATAA
33509628 ATAAAATAATAAATAATAATAA
1 ATAAAATAATAAATAA-AATAA
33509650 ATAAAAT-A-AAATAAAA
1 ATAAAATAATAAATAAAA
33509666 CAAAAGGGGT
Statistics
Matches: 58, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
19 2 0.03
20 6 0.10
21 7 0.12
22 30 0.52
23 13 0.22
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.23
Consensus pattern (21 bp):
ATAAAATAATAAATAAAATAA
Found at i:33509627 original size:32 final size:36
Alignment explanation
Indices: 33509594--33509670 Score: 76
Period size: 32 Copynumber: 2.2 Consensus size: 36
33509584 TAAGAATAAT
33509594 AAATAAAATAAAATAAAATAATAAAATAA-AATAAATA
1 AAATAAAAT-AAATAAAATAAT-AAATAATAATAAATA
33509631 AAAT--AATAAAT--AATAATAAATAA-AATAAAATA
1 AAATAAAATAAATAAAATAATAAATAATAAT-AAATA
*
33509663 AAACAAAA
1 AAATAAAA
33509671 GGGGTGGCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
31 9 0.25
32 14 0.39
34 6 0.17
35 3 0.08
37 4 0.11
ACGTcount: A:0.78, C:0.01, G:0.00, T:0.21
Consensus pattern (36 bp):
AAATAAAATAAATAAAATAATAAATAATAATAAATA
Found at i:33514004 original size:35 final size:35
Alignment explanation
Indices: 33513958--33514027 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
33513948 ATTTTGTACA
33513958 CCAAAAGAATCTGCTAAAAAAACATGTAAGAGAAG
1 CCAAAAGAATCTGCTAAAAAAACATGTAAGAGAAG
33513993 CCAAAAGAATCTGCTAAAAAAACATGTAAGAGAAG
1 CCAAAAGAATCTGCTAAAAAAACATGTAAGAGAAG
33514028 TCAGGACGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.54, C:0.14, G:0.17, T:0.14
Consensus pattern (35 bp):
CCAAAAGAATCTGCTAAAAAAACATGTAAGAGAAG
Found at i:33516158 original size:131 final size:131
Alignment explanation
Indices: 33515897--33516415 Score: 895
Period size: 131 Copynumber: 4.0 Consensus size: 131
33515887 TACCTGCCTC
* *
33515897 TGTTTTCCCCACCCCATCAATCAAGAGGCCAATACCAACATCATCTTTTTTCTGCTGAAGGGAAA
1 TGTTTTCCCCACCCCATCAATCAAGAGGCCAATACCAACATCATTTTTTTTCTGCTGAAGGGACA
*
33515962 TCACAATTTAC-TT---TGAATCTTGCGTTGGAGCCTACCATGTCATTACTACTAGCTAGCTTCC
66 TCACAATTTACTTTCACTGAATCTTGCGTTGGAGCCTACCATGTCATTACTACTAGCTAACTTCC
33516023 A
131 A
* * *
33516024 TGTTTTCCCCATCCCATCAATCAAGACGCCAATACCAACATCATTTTTTTTGTGCTGAAGGGACA
1 TGTTTTCCCCACCCCATCAATCAAGAGGCCAATACCAACATCATTTTTTTTCTGCTGAAGGGACA
* *
33516089 TCACAATTTACTTTCACTGAATCTTGCGTTGGAGCCTACCTTTTCATTACTACTAGCTAACTTCC
66 TCACAATTTACTTTCACTGAATCTTGCGTTGGAGCCTACCATGTCATTACTACTAGCTAACTTCC
33516154 A
131 A
* *
33516155 TGTTTTCCCCTCCCCATCAATCAAGAGGCCAATACCAACATCATTTTTTCTCTGCTGAAGGGACA
1 TGTTTTCCCCACCCCATCAATCAAGAGGCCAATACCAACATCATTTTTTTTCTGCTGAAGGGACA
33516220 TCACAATTTACTTTCACTGAATCTTGCGTTGGAGCCTACCATGTCATTACTACTAGCTAACTTCC
66 TCACAATTTACTTTCACTGAATCTTGCGTTGGAGCCTACCATGTCATTACTACTAGCTAACTTCC
33516285 A
131 A
* *
33516286 CGTTTTCCCCACCCCATCAATCAAGAGGCCAATACCAACATCA-TTTTTTTGTGCTGAAGGGACA
1 TGTTTTCCCCACCCCATCAATCAAGAGGCCAATACCAACATCATTTTTTTTCTGCTGAAGGGACA
33516350 TCACAATTTACTTTCACTGAATCTTGCGTTGGAGCCTACCATGTCATTACTACTAGCTAACTTCC
66 TCACAATTTACTTTCACTGAATCTTGCGTTGGAGCCTACCATGTCATTACTACTAGCTAACTTCC
33516415 A
131 A
33516416 ATTTTCACTG
Statistics
Matches: 369, Mismatches: 19, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
127 71 0.19
128 2 0.01
130 85 0.23
131 211 0.57
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.32
Consensus pattern (131 bp):
TGTTTTCCCCACCCCATCAATCAAGAGGCCAATACCAACATCATTTTTTTTCTGCTGAAGGGACA
TCACAATTTACTTTCACTGAATCTTGCGTTGGAGCCTACCATGTCATTACTACTAGCTAACTTCC
A
Found at i:33523700 original size:29 final size:30
Alignment explanation
Indices: 33523645--33523705 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
33523635 CTCAAATAAA
*
33523645 TTCCATGTACAAATATCATCAGCTCAT-AT
1 TTCCATGTACAAATATCATCAGATCATCAT
* *
33523674 TTCCATGTATCAATTATCA-CATATCATCAT
1 TTCCATGTA-CAAATATCATCAGATCATCAT
33523704 TT
1 TT
33523706 TCTTATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (30 bp):
TTCCATGTACAAATATCATCAGATCATCAT
Found at i:33539640 original size:3 final size:3
Alignment explanation
Indices: 33539632--33539671 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
33539622 ACCGAAACTC
33539632 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
33539672 TTGCAACAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:33554401 original size:10 final size:10
Alignment explanation
Indices: 33554386--33554421 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
33554376 TTTTAGTCGA
33554386 TACATTATGC
1 TACATTATGC
*
33554396 TACATTATGA
1 TACATTATGC
33554406 TACATTATGC
1 TACATTATGC
33554416 TACATT
1 TACATT
33554422 CATCCTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (10 bp):
TACATTATGC
Found at i:33554409 original size:20 final size:20
Alignment explanation
Indices: 33554384--33554421 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
33554374 CATTTTAGTC
33554384 GATACATTATGCTACATTAT
1 GATACATTATGCTACATTAT
33554404 GATACATTATGCTACATT
1 GATACATTATGCTACATT
33554422 CATCCTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (20 bp):
GATACATTATGCTACATTAT
Found at i:33560978 original size:31 final size:30
Alignment explanation
Indices: 33560938--33561016 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 30
33560928 TGTACATTGA
*
33560938 TATTGTATTATTCTTTTTGTATGTCATGCAT
1 TATT-TATTATTCTTTTTGTATATCATGCAT
*
33560969 TACTTTATTACTT-TTTTTGTATATCATGTAT
1 TA-TTTATTA-TTCTTTTTGTATATCATGCAT
33561000 TATTTAATTATTACTTT
1 TATTT-ATTATT-CTTT
33561017 GTATGTTTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
30 5 0.12
31 29 0.71
32 7 0.17
ACGTcount: A:0.23, C:0.09, G:0.08, T:0.61
Consensus pattern (30 bp):
TATTTATTATTCTTTTTGTATATCATGCAT
Found at i:33563792 original size:11 final size:12
Alignment explanation
Indices: 33563775--33563818 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
33563765 AATAAGAGAC
33563775 AAAATAAAATT-
1 AAAATAAAATTA
* *
33563786 TAAATAATATTA
1 AAAATAAAATTA
*
33563798 AAAATAAAAATA
1 AAAATAAAATTA
33563810 AAAATAAAA
1 AAAATAAAA
33563819 AAATAGTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
AAAATAAAATTA
Found at i:33579948 original size:40 final size:39
Alignment explanation
Indices: 33579917--33580126 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
33579907 GGACTAAGAT
* *
33579917 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
33579957 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
33579997 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
33580037 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
33580077 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
33580116 CCGAAGGCATT
1 CCGAAGGCATT
33580127 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:33580080 original size:120 final size:120
Alignment explanation
Indices: 33579864--33580126 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
33579854 TTGAATGCTG
* *
33579864 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
33579928 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
33579984 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
33580047 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
33580103 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
33580127 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:33580146 original size:79 final size:80
Alignment explanation
Indices: 33579865--33580161 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
33579855 TGAATGCTGT
* ** * * * **
33579865 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
33579928 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
33579945 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
33580009 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
33580025 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
33580089 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
33580104 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
33580162 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:33587897 original size:40 final size:40
Alignment explanation
Indices: 33587853--33588116 Score: 388
Period size: 40 Copynumber: 6.6 Consensus size: 40
33587843 AAGTGAATAT
* * * * **
33587853 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
33587893 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
33587933 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
33587973 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
33588013 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
33588053 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
33588092 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
33588117 TGAACGAGGA
Statistics
Matches: 211, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
39 35 0.17
40 176 0.83
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:33587951 original size:80 final size:80
Alignment explanation
Indices: 33587814--33588116 Score: 389
Period size: 80 Copynumber: 3.8 Consensus size: 80
33587804 TTGAATGCTG
* * * * * * *
33587814 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
* * **
33587876 TTTGTGCGAGATACTAAA
63 TTCGTGCGAGTTGTTAAA
33587894 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
33587959 GTGCGAGTTGTTAAA
66 GTGCGAGTTGTTAAA
33587974 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
33588039 GTGCGAGTTGTTAAA
66 GTGCGAGTTGTTAAA
* * ** * * *
33588054 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATT
33588117 TGAACGAGGA
Statistics
Matches: 202, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
79 34 0.17
80 160 0.79
81 8 0.04
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTGTTAAA
Found at i:33588027 original size:120 final size:119
Alignment explanation
Indices: 33587814--33588116 Score: 396
Period size: 120 Copynumber: 2.5 Consensus size: 119
33587804 TTGAATGCTG
* * * * * *
33587814 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTG-ATAAATCCGGGTTAAG-TCCCGAAGGCAT
*
33587877 TTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
63 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
*
33587934 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTC
* **
33587999 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* * * * *
33588054 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTT-ACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGA-TAAATCCGGGTTAAGTCCCGAAGGCATT
33588117 TGAACGAGGA
Statistics
Matches: 162, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
119 34 0.21
120 122 0.75
121 6 0.04
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
Found at i:33590504 original size:46 final size:47
Alignment explanation
Indices: 33590263--33590575 Score: 211
Period size: 46 Copynumber: 6.6 Consensus size: 47
33590253 GTAAGGTGCT
* * * *
33590263 GATGTCATGTCCCAGACATGGTCTTCCACTGGCTA-TCATCTTCGAGGCT
1 GATG-CATGTCCCAGACATGGTCTTACACTGGC-ACTCATC-TCAATGCC
* * * * **
33590312 GATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCACATATCCGTGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCACT--CATCTCAATGCC
* *
33590362 GATGACATGTCCCAGACATGGTCTTATACT-G-ACACATCTC-ATAGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCACTCATCTCAAT-GCC
* * * * *
33590408 GATGCATGTCTCAAACAT-GTCTTACATTGGCTTACGT--TC-CGAGGCC
1 GATGCATGTCCCAGACATGGTCTTACACTGGC--AC-TCATCTCAATGCC
* *
33590454 GATGCATGTCCCAGACAT-GTCTTACACTGGCACTCGTCTCAATGCT
1 GATGCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCAATGCC
* *
33590500 GATGCTATGTCCCAGACATGGTCTTACACTGGCTCGCA--T-AATGTGGCC
1 GATGC-ATGTCCCAGACATGGTCTTACACTGGCACTCATCTCAA--T-GCC
33590548 GATGCATGTCCCAGACAT-GTCTTACACT
1 GATGCATGTCCCAGACATGGTCTTACACT
33590576 AGCCCACAAT
Statistics
Matches: 213, Mismatches: 33, Indels: 39
0.75 0.12 0.14
Matches are distributed among these distances:
43 1 0.00
44 10 0.05
45 18 0.08
46 64 0.30
47 30 0.14
48 25 0.12
49 31 0.15
50 31 0.15
51 3 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCAATGCC
Found at i:33590548 original size:94 final size:94
Alignment explanation
Indices: 33590263--33590575 Score: 286
Period size: 94 Copynumber: 3.3 Consensus size: 94
33590253 GTAAGGTGCT
* * *
33590263 GATGTCATGTCCCAGACATGGTCTTCCACTGGCTA-TCATCTTCGAGGCTGATGCCATGTCCCAG
1 GATGACATGTCCCAGACATGGTCTTACACTGGC-ACTCATC-TC-ATGCTGATG-CATGTCCCAG
* *
33590327 ACATGGTTTTACACTAGCTCTCACAT-ATCCGT-GCC
62 ACATGGTCTTACACT-G-GCTCACATAAT--GTGGCC
* * * * *
33590362 GATGACATGTCCCAGACATGGTCTTATACT-G-ACACATCTCATAGCCGATGCATGTCTCAAACA
1 GATGACATGTCCCAGACATGGTCTTACACTGGCACTCATCTCAT-GCTGATGCATGTCCCAGACA
* * * *** *
33590425 T-GTCTTACATTGGCTTACGTTCCGAGGCC
65 TGGTCTTACACTGGCTCACATAATGTGGCC
*
33590454 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCGTCTCAATGCTGATGCTATGTCCCAGAC
1 GATGACATGTCCCAGACATGGTCTTACACTGGCACTCATCTC-ATGCTGATGC-ATGTCCCAGAC
*
33590517 ATGGTCTTACACTGGCTCGCATAATGTGGCC
64 ATGGTCTTACACTGGCTCACATAATGTGGCC
33590548 GATG-CATGTCCCAGACAT-GTCTTACACT
1 GATGACATGTCCCAGACATGGTCTTACACT
33590576 AGCCCACAAT
Statistics
Matches: 175, Mismatches: 30, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
90 9 0.05
91 16 0.09
92 26 0.15
93 14 0.08
94 56 0.32
95 13 0.07
96 9 0.05
97 4 0.02
98 1 0.01
99 27 0.15
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (94 bp):
GATGACATGTCCCAGACATGGTCTTACACTGGCACTCATCTCATGCTGATGCATGTCCCAGACAT
GGTCTTACACTGGCTCACATAATGTGGCC
Found at i:33593136 original size:42 final size:43
Alignment explanation
Indices: 33593059--33593172 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 43
33593049 ATTTCAATGT
* * *
33593059 CATATCCCCGATATGGTCTTACATGAAAT-ATCATATCGATGC
1 CATATCCCCGATATGGTCTTATACGAAATCATCATATCGAGGC
* * *
33593101 CATGTCCCCGACATGGTCTTATACAAAATCA-CATATCGAGGC
1 CATATCCCCGATATGGTCTTATACGAAATCATCATATCGAGGC
33593143 CATAT-CCCGAATATGGTCTTATACGAAATC
1 CATATCCCCG-ATATGGTCTTATACGAAATC
33593173 TTAATAACCT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
41 4 0.07
42 56 0.92
43 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
CATATCCCCGATATGGTCTTATACGAAATCATCATATCGAGGC
Found at i:33600531 original size:7 final size:7
Alignment explanation
Indices: 33600521--33600558 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
33600511 GAACAGAGAT
33600521 GAAAGTA
1 GAAAGTA
33600528 GAAAGTA
1 GAAAGTA
*
33600535 G-AACTA
1 GAAAGTA
33600541 GAAAGTA
1 GAAAGTA
33600548 GAAAGTA
1 GAAAGTA
33600555 GAAA
1 GAAA
33600559 CGGGGGAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.58, C:0.03, G:0.26, T:0.13
Consensus pattern (7 bp):
GAAAGTA
Found at i:33600544 original size:13 final size:13
Alignment explanation
Indices: 33600526--33600550 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33600516 GAGATGAAAG
33600526 TAGAAAGTAGAAC
1 TAGAAAGTAGAAC
33600539 TAGAAAGTAGAA
1 TAGAAAGTAGAA
33600551 AGTAGAAACG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.24, T:0.16
Consensus pattern (13 bp):
TAGAAAGTAGAAC
Found at i:33617747 original size:44 final size:44
Alignment explanation
Indices: 33617683--33617772 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
33617673 ATCACCCAAG
* *
33617683 GAACACCTGTCTAGGCTAGATCCTTTCTATATTTGAGATCACTA
1 GAACACCTGTCCACGCTAGATCCTTTCTATATTTGAGATCACTA
*
33617727 GAACACCTGTCCACGTTAGATCCTTTCTATATTTGAGATCACTA
1 GAACACCTGTCCACGCTAGATCCTTTCTATATTTGAGATCACTA
33617771 GA
1 GA
33617773 TTCTCCATCC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (44 bp):
GAACACCTGTCCACGCTAGATCCTTTCTATATTTGAGATCACTA
Found at i:33617794 original size:44 final size:44
Alignment explanation
Indices: 33617683--33617796 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
33617673 ATCACCCAAG
* *
33617683 GAACACCTGTCTAGGCTAGATCCTTTCTATATTTGAGATCACTA
1 GAACACCTATCCAGGCTAGATCCTTTCTATATTTGAGATCACTA
* * *
33617727 GAACACCTGTCCACGTTAGATCCTTTCTATATTTGAGATCACTA
1 GAACACCTATCCAGGCTAGATCCTTTCTATATTTGAGATCACTA
* * *
33617771 GATTCTCC-ATCCAGGCTAAATCCTTT
1 GA-ACACCTATCCAGGCTAGATCCTTT
33617797 TCTGCAACAC
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 57 0.95
45 3 0.05
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.34
Consensus pattern (44 bp):
GAACACCTATCCAGGCTAGATCCTTTCTATATTTGAGATCACTA
Found at i:33619530 original size:20 final size:20
Alignment explanation
Indices: 33619505--33619544 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
33619495 TGTACCAAGA
33619505 CTTGTGAGAGTTGTATTAGT
1 CTTGTGAGAGTTGTATTAGT
33619525 CTTGTGAGAGTTGTATTAGT
1 CTTGTGAGAGTTGTATTAGT
33619545 GGCCAAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (20 bp):
CTTGTGAGAGTTGTATTAGT
Found at i:33621115 original size:29 final size:29
Alignment explanation
Indices: 33621073--33621129 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
33621063 TTTTTGAAAG
33621073 TACGATCTGGATTTTTCAAAATATAACAA
1 TACGATCTGGATTTTTCAAAATATAACAA
33621102 TACGATCTGGATTTTTCAAAATATAACA
1 TACGATCTGGATTTTTCAAAATATAACA
33621130 GTTTTAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (29 bp):
TACGATCTGGATTTTTCAAAATATAACAA
Found at i:33629652 original size:3 final size:3
Alignment explanation
Indices: 33629644--33629678 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
33629634 ATCACATGTT
33629644 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
33629679 TGGATGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:33634016 original size:3 final size:3
Alignment explanation
Indices: 33634008--33634198 Score: 382
Period size: 3 Copynumber: 63.7 Consensus size: 3
33633998 ATCACATGTT
33634008 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
33634056 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
33634104 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
33634152 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
33634199 TGGATGTAAT
Statistics
Matches: 188, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 188 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:33634316 original size:72 final size:72
Alignment explanation
Indices: 33634188--33634382 Score: 354
Period size: 72 Copynumber: 2.7 Consensus size: 72
33634178 ATTATTATTA
*
33634188 TTATTATTATTTGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAG
1 TTATT-TTATGTGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAG
33634253 GTGGTGAT
65 GTGGTGAT
33634261 TTATTTTATGTGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGG
1 TTATTTTATGTGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGG
33634326 TGGTGAT
66 TGGTGAT
* *
33634333 TTATTTTAAGTGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TTATTTTATGTGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
33634383 GTCAAGTTGT
Statistics
Matches: 119, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
72 114 0.96
73 5 0.04
ACGTcount: A:0.27, C:0.06, G:0.23, T:0.44
Consensus pattern (72 bp):
TTATTTTATGTGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGG
TGGTGAT
Found at i:33635462 original size:22 final size:21
Alignment explanation
Indices: 33635436--33635504 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 21
33635426 CACAGGAGAC
33635436 AATAAACTAAACATGCATTTAT
1 AATAAACTAAACATG-ATTTAT
** ** *
33635458 AATAAGTTATAGTATGA--GAT
1 AATAAACTA-AACATGATTTAT
33635478 AATAAACTAAACATGTATTTAT
1 AATAAACTAAACATG-ATTTAT
33635500 AATAA
1 AATAA
33635505 GTCATCACAT
Statistics
Matches: 33, Mismatches: 10, Indels: 8
0.65 0.20 0.16
Matches are distributed among these distances:
19 4 0.12
20 10 0.30
22 15 0.45
23 4 0.12
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (21 bp):
AATAAACTAAACATGATTTAT
Found at i:33635482 original size:42 final size:42
Alignment explanation
Indices: 33635417--33635526 Score: 159
Period size: 42 Copynumber: 2.6 Consensus size: 42
33635407 TGTATCTGTC
* *
33635417 ATAAGTCATCACAGGAGACAATAAACTAAACATGCATTTATA
1 ATAAGTCATCACATGAGATAATAAACTAAACATGCATTTATA
* * *
33635459 ATAAGTTAT-AGTATGAGATAATAAACTAAACATGTATTTATA
1 ATAAGTCATCA-CATGAGATAATAAACTAAACATGCATTTATA
33635501 ATAAGTCATCACATGAGATAATAAAC
1 ATAAGTCATCACATGAGATAATAAAC
33635527 ATGTATCAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.02
42 57 0.97
43 1 0.02
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (42 bp):
ATAAGTCATCACATGAGATAATAAACTAAACATGCATTTATA
Found at i:33637972 original size:14 final size:14
Alignment explanation
Indices: 33637950--33637979 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33637940 TCCTATGCGG
33637950 GTTCCCACGTGTGT
1 GTTCCCACGTGTGT
*
33637964 GTTCGCACGTGTGT
1 GTTCCCACGTGTGT
33637978 GT
1 GT
33637980 GTTCGCATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.23, G:0.33, T:0.37
Consensus pattern (14 bp):
GTTCCCACGTGTGT
Found at i:33644804 original size:36 final size:37
Alignment explanation
Indices: 33644732--33644808 Score: 120
Period size: 36 Copynumber: 2.1 Consensus size: 37
33644722 TCTTCCATTC
*
33644732 AGAATAAATTGAATATTACAAACGAAATTATATTAAT
1 AGAATAAATTAAATATTACAAACGAAATTATATTAAT
* *
33644769 AGAATAAATTAAATATTAC-AATGAAATTATGTTAAT
1 AGAATAAATTAAATATTACAAACGAAATTATATTAAT
33644805 AGAA
1 AGAA
33644809 ATTAAATACC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 19 0.51
37 18 0.49
ACGTcount: A:0.55, C:0.04, G:0.09, T:0.32
Consensus pattern (37 bp):
AGAATAAATTAAATATTACAAACGAAATTATATTAAT
Found at i:33647122 original size:124 final size:125
Alignment explanation
Indices: 33646903--33647417 Score: 619
Period size: 125 Copynumber: 4.1 Consensus size: 125
33646893 GCCAAGCGGG
* * * * * *
33646903 AACTAATGTAGAAAAAGAGCGCCCATGTGTGATCTTTTTTCAGTAATTTTGCTAACAATGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTAACAGTGCATCC
* * * * * *
33646968 TCCTTGAAGCGTTTTTGACACTATTTTTTCAGAA-C-TGTTTTCGAAATTTTTTTTCAAA
66 TGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTCAAA
* * * *
33647026 AACTACTGTAGAAAAAGAGAGTCCACGTGAGAGCTTTTTTTTAGTAACTTTGCTGACAGTGCATC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGAGAGC-TTTTTTCAGTAATTTTGCTAACAGTGCATC
* * * ** **
33647091 CTGCTTGGAGCGTTTTTTACACTATTTTTTCAGAACTGTCTTCTCAAAAATT-TTTTT-AGG
65 CTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCATCTTCTC-AAAATTATTTTTCAAA
* * *
33647151 ACCTAATGAAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTAACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTAACAGTGCATCC
* * *
33647216 TGCTTAAAGCATTTTTGACACTATTTTCTT-AGAACCATCTTCTAAAAATTATTTTTCAAG
66 TGCTTGAAGCATTTTTGACACTATTTT-TTCAGAACCATCTTCTCAAAATTATTTTTCAAA
* * *
33647276 AACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTAACAGTGCATCC
* * *
33647341 TGCTTGAAACATTTTTGACA-TGATCTTTTCAGAACCATCTTCTCAAAATTAATTTTTCTAA
66 TGCTTGAAGCATTTTTGACACT-ATTTTTTCAGAACCATCTTCTCAAAATT-ATTTTTCAAA
*
33647402 AACTACTGTAAAAAAA
1 AACTACTGTAGAAAAA
33647418 AAACAAAATC
Statistics
Matches: 335, Mismatches: 47, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
123 34 0.10
124 128 0.38
125 135 0.40
126 33 0.10
127 5 0.01
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (125 bp):
AACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTAACAGTGCATCC
TGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTCAAA
Found at i:33647523 original size:34 final size:33
Alignment explanation
Indices: 33647485--33647593 Score: 139
Period size: 34 Copynumber: 3.2 Consensus size: 33
33647475 TTAAAAAAAA
33647485 CTAAACCTTAATTTAATTAATTTTCTTAAAAGCT
1 CTAAACCTTAATTTAATTAATTTT-TTAAAAGCT
*
33647519 CTAAACCCTAATTTAATTAATTTATTTAAAAAGC-
1 CTAAACCTTAATTTAATTAATTT-TTT-AAAAGCT
* * * *
33647553 CTAAAACATAATTTAATTATTTTTTTAAAAACT
1 CTAAACCTTAATTTAATTAATTTTTTAAAAGCT
33647586 CTAAACCT
1 CTAAACCT
33647594 GATTTATTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
32 5 0.08
33 9 0.14
34 44 0.68
35 7 0.11
ACGTcount: A:0.42, C:0.15, G:0.02, T:0.41
Consensus pattern (33 bp):
CTAAACCTTAATTTAATTAATTTTTTAAAAGCT
Found at i:33648073 original size:3 final size:3
Alignment explanation
Indices: 33648067--33648099 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
33648057 AATAATAATA
33648067 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
33648100 TGGAATGGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:33660148 original size:33 final size:32
Alignment explanation
Indices: 33660111--33660187 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 32
33660101 TGGCATTGCC
*
33660111 ATGGTCTTACATTCAT-AATGCCATAACCCAGTT
1 ATGGTCTTACA-TC-TGAATGCCATAACCCAGCT
* *
33660144 ATGGTCTTATCATCTGGATGCCATAGCCCAGCT
1 ATGGTCTTA-CATCTGAATGCCATAACCCAGCT
*
33660177 GTGGTCTTACA
1 ATGGTCTTACA
33660188 CATATATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
32 3 0.08
33 33 0.87
34 2 0.05
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (32 bp):
ATGGTCTTACATCTGAATGCCATAACCCAGCT
Found at i:33660890 original size:13 final size:13
Alignment explanation
Indices: 33660872--33660903 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
33660862 TAATTTATAT
33660872 TAAAATCACTTGA
1 TAAAATCACTTGA
33660885 TAAAATCACTTGA
1 TAAAATCACTTGA
33660898 TAAAAT
1 TAAAAT
33660904 TAAAGCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (13 bp):
TAAAATCACTTGA
Found at i:33670586 original size:3 final size:3
Alignment explanation
Indices: 33670578--33670602 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
33670568 TATATATATA
33670578 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
33670603 TTTTTAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:33675318 original size:12 final size:12
Alignment explanation
Indices: 33675301--33675330 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33675291 ATACACTTCT
*
33675301 TCATTTATAAAA
1 TCATTTAGAAAA
33675313 TCATTTAGAAAA
1 TCATTTAGAAAA
33675325 TCATTT
1 TCATTT
33675331 TTTACATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.43
Consensus pattern (12 bp):
TCATTTAGAAAA
Found at i:33683859 original size:96 final size:96
Alignment explanation
Indices: 33683663--33683880 Score: 246
Period size: 96 Copynumber: 2.3 Consensus size: 96
33683653 CTCATAATGT
* * * *
33683663 TGCCATGTCCCAGACTTGGTCTTACACGAAATCACATATCGATCTCGATGCCATGTTCCAGACAT
1 TGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCGAACCCGATGCCATGTCCCAGACAT
* * *
33683728 GATTTTACGCTGGCTCACACGTCGAGGCCGA
66 GATTTTACACGGGATCACACGTCGAGGCCGA
* * *
33683759 TGCCATGTCCCAGACATAGTCGTACACTAACA-CACATATC-AACGCCGATGCCATGTCCCAGAC
1 TGCCATGTCCCAGACATGGTCTTACACGAA-ATCACATATCGAAC-CCGATGCCATGTCCCAGAC
* * * *
33683822 ATGGTTTTATACGGGATCTCATC-TCGATGCC-A
64 ATGATTTTACACGGGATCACA-CGTCGAGGCCGA
33683854 GTGCCATGTCCCAGACATGGTCTTACA
1 -TGCCATGTCCCAGACATGGTCTTACA
33683881 TGAGACCTCA
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
95 3 0.03
96 97 0.95
97 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (96 bp):
TGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCGAACCCGATGCCATGTCCCAGACAT
GATTTTACACGGGATCACACGTCGAGGCCGA
Found at i:33706630 original size:9 final size:9
Alignment explanation
Indices: 33706608--33706668 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 9
33706598 TGAATACTAT
33706608 AAAATTATA
1 AAAATTATA
* *
33706617 GAAATTTTA
1 AAAATTATA
33706626 AAAATTATAA
1 AAAATTAT-A
33706636 AAAATTTATA
1 AAAA-TTATA
*
33706646 GAAACACTATA
1 -AAA-ATTATA
*
33706657 ATAATTATA
1 AAAATTATA
33706666 AAA
1 AAA
33706669 TATATTAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
9 20 0.50
10 8 0.20
11 11 0.28
12 1 0.03
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:33712403 original size:15 final size:14
Alignment explanation
Indices: 33712378--33712410 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
33712368 TTTTTAAAAA
33712378 ATATTAATATATTT
1 ATATTAATATATTT
33712392 ATATTAAATATATTT
1 ATATT-AATATATTT
33712407 ATAT
1 ATAT
33712411 ACAAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATATTAATATATTT
Found at i:33724412 original size:25 final size:25
Alignment explanation
Indices: 33724366--33724414 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
33724356 CAAGCCACAT
* *
33724366 AACAGGAAGCTCATGTGAGCTGTAA
1 AACAGAAAGCTCATCTGAGCTGTAA
* *
33724391 AACAGAAAGCTTATCTGGGCTGTA
1 AACAGAAAGCTCATCTGAGCTGTA
33724415 TAATGGAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (25 bp):
AACAGAAAGCTCATCTGAGCTGTAA
Found at i:33727466 original size:12 final size:12
Alignment explanation
Indices: 33727451--33727475 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33727441 GTTCTTGTTG
33727451 TTTTATTATTTC
1 TTTTATTATTTC
33727463 TTTTATTATTTC
1 TTTTATTATTTC
33727475 T
1 T
33727476 AATATCTTCA
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:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATTATTTC
Found at i:33734148 original size:44 final size:44
Alignment explanation
Indices: 33734083--33734846 Score: 396
Period size: 44 Copynumber: 16.9 Consensus size: 44
33734073 TTATCATGGC
33734083 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
* * * * * * *
33734127 AGATCTTATCTCCTTGAAGTTGAAGTGGAGTAGATCGAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-T
* * * * * *
33734172 AAATCTTATCTCTCTGAAGTTGTAGTAGAGCAAATTAAAGCTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
* * ** **
33734216 AAACCTTATCTCCCTGAAG--GTAGTGGAGCAGGCTGAAGTTGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
* * * * * *
33734258 AAGTCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTGAAGATAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-T
* * * * * *
33734303 GAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAATTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G----AAGTTAT
*
33734354 AAATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGTTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
*** * * * *
33734398 AAATCTTATCTTATTGAAGTTGCAGTGGAGCA-AGTTAAAAATAAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TT-GAAGTTAT
* * * * * * *
33734443 AAATCTTATCTCTCTAAAGTTGTAGTAGAGTAGATTAAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
*
33734487 AAATCTCATAC-CCCTGAAGTTGCAGTGG-G-ATGAATTGAAGTTATT
1 AAATCTTAT-CTCCCTGAAGTTGCAGTGGAGCA-G-ATTGAAGTTA-T
* * * * *
33734532 ATGGCGAATCTTATCTTCCTGAAGTTGCAGTAGAGTAGATTGAAGTCAC
1 A-----AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
* * * * * * * * * *
33734581 AAACCTTATATCCCTGAAGCTGCGGTAGAGCAGGTTAAAAATAAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAGTTAT
* **
33734626 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA-CCAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
* *
33734669 AAATCTTATAC-CCCTGAAATTGCAATGG-G-ATGGATTGAAGTCATTAT
1 AAATCTTAT-CTCCCTGAAGTTGCAGTGGAGCA--GATTGAAG---TTAT
* * * * * ** ** *
33734716 GACGAATCTTATCTCCTTTAAGTTGCATTAGAGCAAATAAAAGCCAC
1 -A--AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
* ** * ** *
33734763 AAACCTTATCTTTCTGAAGTTACAAAGGAGTAGATTGAAGTTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
* ** *
33734807 AGATCTTATCTGTCTGAAGTTGCAGTGGAGTAGATTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
33734847 ATTGAAGCAA
Statistics
Matches: 538, Mismatches: 142, Indels: 80
0.71 0.19 0.11
Matches are distributed among these distances:
41 1 0.00
42 32 0.06
43 35 0.07
44 236 0.44
45 127 0.24
46 2 0.00
47 3 0.01
48 3 0.01
49 3 0.01
50 56 0.10
51 34 0.06
52 6 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
Found at i:33734191 original size:89 final size:89
Alignment explanation
Indices: 33734081--33734692 Score: 402
Period size: 89 Copynumber: 6.8 Consensus size: 89
33734071 AGTTATCATG
* * *
33734081 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTATAGATCTTATCTCCTTGAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTATAAATCTTATCTCCCTGAAG
* * *
33734146 TTGAAGTGGAGTAGATCGAAGATA
66 TTGCAGTGGAGCAGATCGAAAATA
* * * * * *
33734170 GCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAAATTAAAGCTATAAACCTTATCTCCCTGAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTATAAATCTTATCTCCCTGAAG
* * * *
33734235 --GTAGTGGAGCAG-GCTG-AAGTT
66 TTGCAGTGGAGCAGATC-GAAAATA
* * * * * * *
33734256 GCAAGTCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTGAA
1 GCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-TAAATCTTATCTCCCTGAA
* * *
33734321 GTTGCAGTGGAACAAATTAAAGCTACAAATTA
65 GTTGCAGTGGAGCAGA-T----CGA-AAA-TA
* * ***
33734353 -CAAATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGTTATAAATCTTATCTTATTGAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTATAAATCTTATCTCCCTGAAG
**
33734417 TTGCAGTGGAGCA-AGTTAAAAATA
66 TTGCAGTGGAGCAGA-TCGAAAATA
* * * * * * * *
33734441 ACAAATCTTATCTCTCTAAAGTTGTAGTAGAGTAGATTAAAGTTACAAATCTCATAC-CCCTGAA
1 GCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTATAAATCTTAT-CTCCCTGAA
* *
33734505 GTTGCAGTGG-G-ATGAATTGAAGTTATTATG
65 GTTGCAGTGGAGCA-G-ATCGAA---A--ATA
* * * * * * *
33734535 GCGAATCTTATCT-TCCTGAAGTTGCAGTAGAGTAGATTGAAGTCACAAACCTTATATCCCTGAA
1 GCAAATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTGAAGTTATAAATCTTATCTCCCTGAA
* * * * **
33734599 GCTGCGGTAGAGCAGGTTAAAAATA
65 GTTGCAGTGGAGCAGATCGAAAATA
* * * **
33734624 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA-CCATAAATCTTATAC-CCCTGAA
1 GCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTATAAATCTTAT-CTCCCTGAA
*
33734687 ATTGCA
65 GTTGCA
33734693 ATGGGATGGA
Statistics
Matches: 406, Mismatches: 88, Indels: 59
0.73 0.16 0.11
Matches are distributed among these distances:
86 41 0.10
87 29 0.07
88 23 0.06
89 169 0.42
90 3 0.01
91 1 0.00
92 1 0.00
93 1 0.00
94 67 0.17
95 30 0.07
96 40 0.10
97 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (89 bp):
GCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTATAAATCTTATCTCCCTGAAG
TTGCAGTGGAGCAGATCGAAAATA
Found at i:33734445 original size:96 final size:96
Alignment explanation
Indices: 33734261--33734446 Score: 223
Period size: 96 Copynumber: 1.9 Consensus size: 96
33734251 AAGTTGCAAG
* * * * *
33734261 TCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTGAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGTAAATCTTATTTCACTGAAGTTGC
**
33734326 AGTGGAACAAATTAAAGCTACAAATTACAAA
66 AGTGGAACAAATTAAAAATACAAATTACAAA
* * * *
33734357 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGTTA-TAAATCTTATCTT-ATTGAAGTTG
1 TCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGTAAATCTTAT-TTCACTGAAGTTG
* *
33734420 CAGTGGAGCAAGTTAAAAATAACAAAT
65 CAGTGGAACAAATTAAAAAT-ACAAAT
33734447 CTTATCTCTC
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
95 33 0.44
96 42 0.56
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (96 bp):
TCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGTAAATCTTATTTCACTGAAGTTGC
AGTGGAACAAATTAAAAATACAAATTACAAA
Found at i:33734574 original size:183 final size:182
Alignment explanation
Indices: 33734355--33734771 Score: 494
Period size: 183 Copynumber: 2.3 Consensus size: 182
33734345 ACAAATTACA
* ** * * * * * * *
33734355 AATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGTTATAAATCTTATCTTATTGAAGTTG
1 AATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGTCACAAACCTTATATCACTGAAGCTG
* * * **
33734420 CAGTGGAGCAAGTTAAAAATAACAAATCTTATCTCTCTAAAGTTGTAGTAGAGTAGATTAAAGTT
66 CAGTAGAGCAAGTTAAAAATAACAAATCTTATCTCCCTAAAGTTGCAGTAGAGTAGATTAAA-CC
* * * *
33734485 ACAAATCTCATACCCCTGAAGTTGCAGTGGGATGAATTGAAGTTATTATGGCG
130 ACAAATCTCATACCCCTGAAATTGCAATGGGATGAATTGAAGTCATTATGACG
* *
33734538 AATCTTATCTTCCTGAAGTTGCAGTAGAGTAGATTGAAGTCACAAACCTTATATCCCTGAAGCTG
1 AATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGTCACAAACCTTATATCACTGAAGCTG
* * * * *
33734603 CGGTAGAGCAGGTTAAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAACCA
66 CAGTAGAGCAAGTTAAAAATAACAAATCTTATCTCCCTAAAGTTGCAGTAGAGTAGATTAAACCA
* * *
33734668 TAAATCTTATACCCCTGAAATTGCAATGGGATGGATTGAAGTCATTATGACG
131 CAAATCTCATACCCCTGAAATTGCAATGGGATGAATTGAAGTCATTATGACG
* * * ** *
33734720 AATCTTATC-TCCTTTAAGTTGCATTAGAGCAAATAAAAGCCACAAACCTTAT
1 AATCTTATCTTCC-TGAAGTTGCAGTAGAGCAGATTGAAGTCACAAACCTTAT
33734772 CTTTCTGAAG
Statistics
Matches: 197, Mismatches: 36, Indels: 3
0.83 0.15 0.01
Matches are distributed among these distances:
181 3 0.02
182 87 0.44
183 107 0.54
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (182 bp):
AATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGTCACAAACCTTATATCACTGAAGCTG
CAGTAGAGCAAGTTAAAAATAACAAATCTTATCTCCCTAAAGTTGCAGTAGAGTAGATTAAACCA
CAAATCTCATACCCCTGAAATTGCAATGGGATGAATTGAAGTCATTATGACG
Found at i:33734684 original size:43 final size:43
Alignment explanation
Indices: 33734549--33734692 Score: 121
Period size: 45 Copynumber: 3.3 Consensus size: 43
33734539 ATCTTATCTT
* * * *
33734549 CCTGAAGTTGCAGTAGAGTAGATTGAAGTCACAAACCTTATATC
1 CCTGAAGTTGCAGTAGAGTAGATTGAA-ACATAAATCTTATACC
* * * * *
33734593 CCTGAAGCTGCGGTAGAGCAGGTT-AAAAATAACAAATCTTAT-CTC
1 CCTGAAGTTGCAGTAGAGTAGATTGAAACAT---AAATCTTATAC-C
* *
33734638 CCTGAAGTTGCAGTGGAGTAGATTGAACCATAAATCTTATACC
1 CCTGAAGTTGCAGTAGAGTAGATTGAAACATAAATCTTATACC
*
33734681 CCTGAAATTGCA
1 CCTGAAGTTGCA
33734693 ATGGGATGGA
Statistics
Matches: 77, Mismatches: 17, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
42 1 0.01
43 23 0.30
44 21 0.27
45 28 0.36
46 4 0.05
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (43 bp):
CCTGAAGTTGCAGTAGAGTAGATTGAAACATAAATCTTATACC
Found at i:33734766 original size:182 final size:183
Alignment explanation
Indices: 33734425--33734771 Score: 473
Period size: 182 Copynumber: 1.9 Consensus size: 183
33734415 AGTTGCAGTG
* * **
33734425 GAGCAAGTTAAAAATAACAAATCTTATCTCTCTAAAGTTGTAGTAGAGTAGATTAAAGTTACAAA
1 GAGCAAGTTAAAAATAACAAATCTTATCTCCCTAAAGTTGCAGTAGAGTAGATTAAAGCCACAAA
* * * *
33734490 TCTCATACCCCTGAAGTTGCAGTGGGATGAATTGAAGTTATTATGGCGAATCTTATCTTCCTGAA
66 TCTCATACCCCTGAAATTGCAATGGGATGAATTGAAGTCATTATGACGAATCTTATCTTCCTGAA
* * ** *
33734555 GTTGCAGTAGAGTAGATTGAAGTCACAAACCTTATATCCCTGAAGCTGCGGTA
131 GTTGCAGTAGAGCAAATAAAAGCCACAAACCTTATATCCCTGAAGCTGCGGTA
* * * * *
33734608 GAGCAGGTTAAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA-CCATAAA
1 GAGCAAGTTAAAAATAACAAATCTTATCTCCCTAAAGTTGCAGTAGAGTAGATTAAAGCCACAAA
* * *
33734672 TCTTATACCCCTGAAATTGCAATGGGATGGATTGAAGTCATTATGACGAATCTTATC-TCCTTTA
66 TCTCATACCCCTGAAATTGCAATGGGATGAATTGAAGTCATTATGACGAATCTTATCTTCC-TGA
*
33734736 AGTTGCATTAGAGCAAATAAAAGCCACAAACCTTAT
130 AGTTGCAGTAGAGCAAATAAAAGCCACAAACCTTAT
33734772 CTTTCTGAAG
Statistics
Matches: 141, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
181 3 0.02
182 87 0.62
183 51 0.36
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (183 bp):
GAGCAAGTTAAAAATAACAAATCTTATCTCCCTAAAGTTGCAGTAGAGTAGATTAAAGCCACAAA
TCTCATACCCCTGAAATTGCAATGGGATGAATTGAAGTCATTATGACGAATCTTATCTTCCTGAA
GTTGCAGTAGAGCAAATAAAAGCCACAAACCTTATATCCCTGAAGCTGCGGTA
Found at i:33736510 original size:12 final size:12
Alignment explanation
Indices: 33736495--33736519 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33736485 GTTGTTGTTG
33736495 TTTTATTATTTC
1 TTTTATTATTTC
33736507 TTTTATTATTTC
1 TTTTATTATTTC
33736519 T
1 T
33736520 AATATCTTCA
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:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATTATTTC
Found at i:33745730 original size:30 final size:30
Alignment explanation
Indices: 33745696--33745755 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
33745686 ACGAAGAGAA
33745696 AGAGATCATTCCCAAACAAATATCAAATAG
1 AGAGATCATTCCCAAACAAATATCAAATAG
33745726 AGAGATCATTCCCAAACAAATATCAAATAG
1 AGAGATCATTCCCAAACAAATATCAAATAG
33745756 CCATGGTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.50, C:0.20, G:0.10, T:0.20
Consensus pattern (30 bp):
AGAGATCATTCCCAAACAAATATCAAATAG
Found at i:33749605 original size:12 final size:12
Alignment explanation
Indices: 33749590--33749614 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33749580 GTTCTTGTTG
33749590 TTTTATTATTTC
1 TTTTATTATTTC
33749602 TTTTATTATTTC
1 TTTTATTATTTC
33749614 T
1 T
33749615 AATATCTTCA
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:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATTATTTC
Found at i:33756287 original size:44 final size:44
Alignment explanation
Indices: 33756222--33756985 Score: 396
Period size: 44 Copynumber: 16.9 Consensus size: 44
33756212 TTATCATGGC
33756222 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
* * * * * * *
33756266 AGATCTTATCTCCTTGAAGTTGAAGTGGAGTAGATCGAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-T
* * * * * *
33756311 AAATCTTATCTCTCTGAAGTTGTAGTAGAGCAAATTAAAGCTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
* * ** **
33756355 AAACCTTATCTCCCTGAAG--GTAGTGGAGCAGGCTGAAGTTGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
* * * * * *
33756397 AAGTCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTGAAGATAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-T
* * * * * *
33756442 GAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAATTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G----AAGTTAT
*
33756493 AAATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGTTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
*** * * * *
33756537 AAATCTTATCTTATTGAAGTTGCAGTGGAGCA-AGTTAAAAATAAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TT-GAAGTTAT
* * * * * * *
33756582 AAATCTTATCTCTCTAAAGTTGTAGTAGAGTAGATTAAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
*
33756626 AAATCTCATAC-CCCTGAAGTTGCAGTGG-G-ATGAATTGAAGTTATT
1 AAATCTTAT-CTCCCTGAAGTTGCAGTGGAGCA-G-ATTGAAGTTA-T
* * * * *
33756671 ATGGCGAATCTTATCTTCCTGAAGTTGCAGTAGAGTAGATTGAAGTCAC
1 A-----AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
* * * * * * * * * *
33756720 AAACCTTATATCCCTGAAGCTGCGGTAGAGCAGGTTAAAAATAAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAGTTAT
* **
33756765 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA-CCAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
* *
33756808 AAATCTTATAC-CCCTGAAATTGCAATGG-G-ATGGATTGAAGTCATTAT
1 AAATCTTAT-CTCCCTGAAGTTGCAGTGGAGCA--GATTGAAG---TTAT
* * * * * ** ** *
33756855 GACGAATCTTATCTCCTTTAAGTTGCATTAGAGCAAATAAAAGCCAC
1 -A--AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
* ** * ** *
33756902 AAACCTTATCTTTCTGAAGTTACAAAGGAGTAGATTGAAGTTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
* ** *
33756946 AGATCTTATCTGTCTGAAGTTGCAGTGGAGTAGATTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
33756986 ATTGAAGCAA
Statistics
Matches: 538, Mismatches: 142, Indels: 80
0.71 0.19 0.11
Matches are distributed among these distances:
41 1 0.00
42 32 0.06
43 35 0.07
44 236 0.44
45 127 0.24
46 2 0.00
47 3 0.01
48 3 0.01
49 3 0.01
50 56 0.10
51 34 0.06
52 6 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAT
Found at i:33756330 original size:89 final size:89
Alignment explanation
Indices: 33756220--33756831 Score: 402
Period size: 89 Copynumber: 6.8 Consensus size: 89
33756210 AGTTATCATG
* * *
33756220 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTATAGATCTTATCTCCTTGAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTATAAATCTTATCTCCCTGAAG
* * *
33756285 TTGAAGTGGAGTAGATCGAAGATA
66 TTGCAGTGGAGCAGATCGAAAATA
* * * * * *
33756309 GCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAAATTAAAGCTATAAACCTTATCTCCCTGAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTATAAATCTTATCTCCCTGAAG
* * * *
33756374 --GTAGTGGAGCAG-GCTG-AAGTT
66 TTGCAGTGGAGCAGATC-GAAAATA
* * * * * * *
33756395 GCAAGTCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTGAA
1 GCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-TAAATCTTATCTCCCTGAA
* * *
33756460 GTTGCAGTGGAACAAATTAAAGCTACAAATTA
65 GTTGCAGTGGAGCAGA-T----CGA-AAA-TA
* * ***
33756492 -CAAATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGTTATAAATCTTATCTTATTGAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTATAAATCTTATCTCCCTGAAG
**
33756556 TTGCAGTGGAGCA-AGTTAAAAATA
66 TTGCAGTGGAGCAGA-TCGAAAATA
* * * * * * * *
33756580 ACAAATCTTATCTCTCTAAAGTTGTAGTAGAGTAGATTAAAGTTACAAATCTCATAC-CCCTGAA
1 GCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTATAAATCTTAT-CTCCCTGAA
* *
33756644 GTTGCAGTGG-G-ATGAATTGAAGTTATTATG
65 GTTGCAGTGGAGCA-G-ATCGAA---A--ATA
* * * * * * *
33756674 GCGAATCTTATCT-TCCTGAAGTTGCAGTAGAGTAGATTGAAGTCACAAACCTTATATCCCTGAA
1 GCAAATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTGAAGTTATAAATCTTATCTCCCTGAA
* * * * **
33756738 GCTGCGGTAGAGCAGGTTAAAAATA
65 GTTGCAGTGGAGCAGATCGAAAATA
* * * **
33756763 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA-CCATAAATCTTATAC-CCCTGAA
1 GCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTATAAATCTTAT-CTCCCTGAA
*
33756826 ATTGCA
65 GTTGCA
33756832 ATGGGATGGA
Statistics
Matches: 406, Mismatches: 88, Indels: 59
0.73 0.16 0.11
Matches are distributed among these distances:
86 41 0.10
87 29 0.07
88 23 0.06
89 169 0.42
90 3 0.01
91 1 0.00
92 1 0.00
93 1 0.00
94 67 0.17
95 30 0.07
96 40 0.10
97 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (89 bp):
GCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTATAAATCTTATCTCCCTGAAG
TTGCAGTGGAGCAGATCGAAAATA
Found at i:33756584 original size:96 final size:96
Alignment explanation
Indices: 33756400--33756585 Score: 223
Period size: 96 Copynumber: 1.9 Consensus size: 96
33756390 AAGTTGCAAG
* * * * *
33756400 TCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTGAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGTAAATCTTATTTCACTGAAGTTGC
**
33756465 AGTGGAACAAATTAAAGCTACAAATTACAAA
66 AGTGGAACAAATTAAAAATACAAATTACAAA
* * * *
33756496 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGTTA-TAAATCTTATCTT-ATTGAAGTTG
1 TCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGTAAATCTTAT-TTCACTGAAGTTG
* *
33756559 CAGTGGAGCAAGTTAAAAATAACAAAT
65 CAGTGGAACAAATTAAAAAT-ACAAAT
33756586 CTTATCTCTC
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
95 33 0.44
96 42 0.56
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (96 bp):
TCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGTAAATCTTATTTCACTGAAGTTGC
AGTGGAACAAATTAAAAATACAAATTACAAA
Found at i:33756713 original size:183 final size:182
Alignment explanation
Indices: 33756494--33756910 Score: 494
Period size: 183 Copynumber: 2.3 Consensus size: 182
33756484 ACAAATTACA
* ** * * * * * * *
33756494 AATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGTTATAAATCTTATCTTATTGAAGTTG
1 AATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGTCACAAACCTTATATCACTGAAGCTG
* * * **
33756559 CAGTGGAGCAAGTTAAAAATAACAAATCTTATCTCTCTAAAGTTGTAGTAGAGTAGATTAAAGTT
66 CAGTAGAGCAAGTTAAAAATAACAAATCTTATCTCCCTAAAGTTGCAGTAGAGTAGATTAAA-CC
* * * *
33756624 ACAAATCTCATACCCCTGAAGTTGCAGTGGGATGAATTGAAGTTATTATGGCG
130 ACAAATCTCATACCCCTGAAATTGCAATGGGATGAATTGAAGTCATTATGACG
* *
33756677 AATCTTATCTTCCTGAAGTTGCAGTAGAGTAGATTGAAGTCACAAACCTTATATCCCTGAAGCTG
1 AATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGTCACAAACCTTATATCACTGAAGCTG
* * * * *
33756742 CGGTAGAGCAGGTTAAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAACCA
66 CAGTAGAGCAAGTTAAAAATAACAAATCTTATCTCCCTAAAGTTGCAGTAGAGTAGATTAAACCA
* * *
33756807 TAAATCTTATACCCCTGAAATTGCAATGGGATGGATTGAAGTCATTATGACG
131 CAAATCTCATACCCCTGAAATTGCAATGGGATGAATTGAAGTCATTATGACG
* * * ** *
33756859 AATCTTATC-TCCTTTAAGTTGCATTAGAGCAAATAAAAGCCACAAACCTTAT
1 AATCTTATCTTCC-TGAAGTTGCAGTAGAGCAGATTGAAGTCACAAACCTTAT
33756911 CTTTCTGAAG
Statistics
Matches: 197, Mismatches: 36, Indels: 3
0.83 0.15 0.01
Matches are distributed among these distances:
181 3 0.02
182 87 0.44
183 107 0.54
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (182 bp):
AATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGTCACAAACCTTATATCACTGAAGCTG
CAGTAGAGCAAGTTAAAAATAACAAATCTTATCTCCCTAAAGTTGCAGTAGAGTAGATTAAACCA
CAAATCTCATACCCCTGAAATTGCAATGGGATGAATTGAAGTCATTATGACG
Found at i:33756823 original size:43 final size:43
Alignment explanation
Indices: 33756688--33756831 Score: 121
Period size: 45 Copynumber: 3.3 Consensus size: 43
33756678 ATCTTATCTT
* * * *
33756688 CCTGAAGTTGCAGTAGAGTAGATTGAAGTCACAAACCTTATATC
1 CCTGAAGTTGCAGTAGAGTAGATTGAA-ACATAAATCTTATACC
* * * * *
33756732 CCTGAAGCTGCGGTAGAGCAGGTT-AAAAATAACAAATCTTAT-CTC
1 CCTGAAGTTGCAGTAGAGTAGATTGAAACAT---AAATCTTATAC-C
* *
33756777 CCTGAAGTTGCAGTGGAGTAGATTGAACCATAAATCTTATACC
1 CCTGAAGTTGCAGTAGAGTAGATTGAAACATAAATCTTATACC
*
33756820 CCTGAAATTGCA
1 CCTGAAGTTGCA
33756832 ATGGGATGGA
Statistics
Matches: 77, Mismatches: 17, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
42 1 0.01
43 23 0.30
44 21 0.27
45 28 0.36
46 4 0.05
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (43 bp):
CCTGAAGTTGCAGTAGAGTAGATTGAAACATAAATCTTATACC
Found at i:33756905 original size:182 final size:183
Alignment explanation
Indices: 33756564--33756910 Score: 473
Period size: 182 Copynumber: 1.9 Consensus size: 183
33756554 AGTTGCAGTG
* * **
33756564 GAGCAAGTTAAAAATAACAAATCTTATCTCTCTAAAGTTGTAGTAGAGTAGATTAAAGTTACAAA
1 GAGCAAGTTAAAAATAACAAATCTTATCTCCCTAAAGTTGCAGTAGAGTAGATTAAAGCCACAAA
* * * *
33756629 TCTCATACCCCTGAAGTTGCAGTGGGATGAATTGAAGTTATTATGGCGAATCTTATCTTCCTGAA
66 TCTCATACCCCTGAAATTGCAATGGGATGAATTGAAGTCATTATGACGAATCTTATCTTCCTGAA
* * ** *
33756694 GTTGCAGTAGAGTAGATTGAAGTCACAAACCTTATATCCCTGAAGCTGCGGTA
131 GTTGCAGTAGAGCAAATAAAAGCCACAAACCTTATATCCCTGAAGCTGCGGTA
* * * * *
33756747 GAGCAGGTTAAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA-CCATAAA
1 GAGCAAGTTAAAAATAACAAATCTTATCTCCCTAAAGTTGCAGTAGAGTAGATTAAAGCCACAAA
* * *
33756811 TCTTATACCCCTGAAATTGCAATGGGATGGATTGAAGTCATTATGACGAATCTTATC-TCCTTTA
66 TCTCATACCCCTGAAATTGCAATGGGATGAATTGAAGTCATTATGACGAATCTTATCTTCC-TGA
*
33756875 AGTTGCATTAGAGCAAATAAAAGCCACAAACCTTAT
130 AGTTGCAGTAGAGCAAATAAAAGCCACAAACCTTAT
33756911 CTTTCTGAAG
Statistics
Matches: 141, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
181 3 0.02
182 87 0.62
183 51 0.36
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (183 bp):
GAGCAAGTTAAAAATAACAAATCTTATCTCCCTAAAGTTGCAGTAGAGTAGATTAAAGCCACAAA
TCTCATACCCCTGAAATTGCAATGGGATGAATTGAAGTCATTATGACGAATCTTATCTTCCTGAA
GTTGCAGTAGAGCAAATAAAAGCCACAAACCTTATATCCCTGAAGCTGCGGTA
Found at i:33758664 original size:12 final size:12
Alignment explanation
Indices: 33758649--33758673 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33758639 GTTGTTGTTG
33758649 TTTTATTATTTC
1 TTTTATTATTTC
33758661 TTTTATTATTTC
1 TTTTATTATTTC
33758673 T
1 T
33758674 AATATCTTCA
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:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATTATTTC
Found at i:33762992 original size:20 final size:18
Alignment explanation
Indices: 33762955--33762993 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
33762945 GTTTATATAG
*
33762955 AAAAATAATAATTCAAAT
1 AAAAATAATAATTAAAAT
33762973 AAAAATAAATTAATTAAAAT
1 AAAAAT-AA-TAATTAAAAT
33762993 A
1 A
33762994 GGGACTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 10 0.56
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAATAATAATTAAAAT
Found at i:33763509 original size:29 final size:30
Alignment explanation
Indices: 33763477--33763547 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 30
33763467 AAATTAAAAT
*
33763477 TTCATGTATAAAATTGCACA-AAATCAAAG
1 TTCATGTATAAAATTGCACATAAACCAAAG
* *
33763506 TTCATGTATACAATTGCACATTAAACCATAG
1 TTCATGTATAAAATTGCACA-TAAACCAAAG
33763537 TTCATGTATAA
1 TTCATGTATAA
33763548 TTTTGAGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 19 0.53
31 17 0.47
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.32
Consensus pattern (30 bp):
TTCATGTATAAAATTGCACATAAACCAAAG
Found at i:33766468 original size:20 final size:20
Alignment explanation
Indices: 33766443--33766480 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
33766433 AAAATTAAAC
33766443 TGAAGTGGAGTGGGGTGGAG
1 TGAAGTGGAGTGGGGTGGAG
*
33766463 TGAAGTGGGGTGGGGTGG
1 TGAAGTGGAGTGGGGTGG
33766481 GGAGGGGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.63, T:0.21
Consensus pattern (20 bp):
TGAAGTGGAGTGGGGTGGAG
Found at i:33766469 original size:15 final size:15
Alignment explanation
Indices: 33766446--33766475 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33766436 ATTAAACTGA
*
33766446 AGTGGAGTGGGGTGG
1 AGTGAAGTGGGGTGG
33766461 AGTGAAGTGGGGTGG
1 AGTGAAGTGGGGTGG
33766476 GGTGGGGAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.63, T:0.20
Consensus pattern (15 bp):
AGTGAAGTGGGGTGG
Found at i:33770307 original size:27 final size:26
Alignment explanation
Indices: 33770272--33770383 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
33770262 AGCATGGCTG
* *
33770272 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
33770298 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
33770326 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
33770353 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
33770380 CCAG
1 CCAG
33770384 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:33770364 original size:54 final size:54
Alignment explanation
Indices: 33770272--33770383 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
33770262 AGCATGGCTG
* *
33770272 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
33770326 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
33770380 CCAG
1 CCAG
33770384 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:33771855 original size:25 final size:25
Alignment explanation
Indices: 33771801--33771871 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
33771791 CTAGATTTCC
**
33771801 TCCCTTATCTGCTCCTAAAT-CCTA
1 TCCCTTATCAACTCCTAAATCCCTA
*
33771825 CCCCTTATCAACTCCTAAATCCCTA
1 TCCCTTATCAACTCCTAAATCCCTA
33771850 TCCCTTATCAACTCCTAAATCC
1 TCCCTTATCAACTCCTAAATCC
33771872 TCTCTTGACA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 17 0.40
25 25 0.60
ACGTcount: A:0.25, C:0.41, G:0.01, T:0.32
Consensus pattern (25 bp):
TCCCTTATCAACTCCTAAATCCCTA
Found at i:33778143 original size:27 final size:27
Alignment explanation
Indices: 33778069--33778156 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
33778059 ACCCACCTTT
* *
33778069 CACCAGATACAGATA-ATCGTGGCAGAAC
1 CACCAGA-ACAGATATAT-GTGCCAGAGC
33778097 CACCAGAACAGATATATGTGCCAGAGC
1 CACCAGAACAGATATATGTGCCAGAGC
* * * * *
33778124 CACCAGATCAGATGTTTGTGGCATAGC
1 CACCAGAACAGATATATGTGCCAGAGC
33778151 CACCAG
1 CACCAG
33778157 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 43 0.83
28 9 0.17
ACGTcount: A:0.34, C:0.26, G:0.23, T:0.17
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGCCAGAGC
Found at i:33779601 original size:24 final size:24
Alignment explanation
Indices: 33779574--33779620 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
33779564 CTAGATTTCC
**
33779574 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
33779598 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
33779621 CTCTTGACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:33781257 original size:21 final size:21
Alignment explanation
Indices: 33781242--33781293 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
33781232 AAAAAGAGAT
*
33781242 AGAATAAAAGAGAAAATAACA
1 AGAATAAAAGAGAAAAGAACA
*
33781263 AGAATAAAAGAGAAAATAACA
1 AGAATAAAAGAGAAAAGAACA
*
33781284 A-ATTAAAAGA
1 AGAATAAAAGA
33781294 AAAGGTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 8 0.27
21 22 0.73
ACGTcount: A:0.71, C:0.04, G:0.13, T:0.12
Consensus pattern (21 bp):
AGAATAAAAGAGAAAAGAACA
Found at i:33802174 original size:40 final size:40
Alignment explanation
Indices: 33802130--33802240 Score: 170
Period size: 40 Copynumber: 2.8 Consensus size: 40
33802120 TGAGTTACCA
* *
33802130 TAGTGAATCAGGAACAAATCCTATCCACTTTATATAT-TTC
1 TAGTGAATCAGGAATAAATCCTATTCACTTTA-ATATCTTC
* *
33802170 TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTCTTT
1 TAGTGAATCAGGAATAAATCCTATTCACTTTAATATCTTC
33802210 TAGTGAATCAGGAATAAATCCTATTCACTTT
1 TAGTGAATCAGGAATAAATCCTATTCACTTT
33802241 TAATTCTCGA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
39 3 0.05
40 63 0.95
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (40 bp):
TAGTGAATCAGGAATAAATCCTATTCACTTTAATATCTTC
Found at i:33803181 original size:28 final size:27
Alignment explanation
Indices: 33803124--33803193 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 27
33803114 TTTTTTTCCC
33803124 TTTTTCCTTTCTTTCTTTCTCCCCTGT
1 TTTTTCCTTTCTTTCTTTCTCCCCTGT
* * * *
33803151 TTTTTCGTTTCTATTCTGTTCTTCCTTTT
1 TTTTTCCTTTCT-TTCT-TTCTCCCCTGT
*
33803180 TTTTTTCTTTCTTT
1 TTTTTCCTTTCTTT
33803194 TGTTTAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
27 11 0.31
28 6 0.17
29 18 0.51
ACGTcount: A:0.01, C:0.24, G:0.04, T:0.70
Consensus pattern (27 bp):
TTTTTCCTTTCTTTCTTTCTCCCCTGT
Found at i:33804656 original size:31 final size:31
Alignment explanation
Indices: 33804619--33804734 Score: 142
Period size: 31 Copynumber: 3.7 Consensus size: 31
33804609 AGTGTACAAT
* *
33804619 GTGAAAAGTGGTAGCTTCGGCTACTTGATCG
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * *
33804650 GTGAAAAGTAGTAGCTTCGGCTGCCTGATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * *
33804681 GTGAAATGTGGTAGCTCCAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
33804712 GTGAATAGTGATAGCTTCGGCTA
1 GTGAAAAGTGGTAGCTTCGGCTA
33804735 TCGAATGTAA
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:33804807 original size:29 final size:29
Alignment explanation
Indices: 33804712--33804794 Score: 121
Period size: 29 Copynumber: 2.9 Consensus size: 29
33804702 TACCTGATCA
* *
33804712 GTGAATAGTGATAGCTTCGGCTATCGAAT
1 GTGAAAAGGGATAGCTTCGGCTATCGAAT
* *
33804741 GTAAAAAGAGATAGCTTCGGCTATCGAAT
1 GTGAAAAGGGATAGCTTCGGCTATCGAAT
*
33804770 GTGAAAAGGGATAGCTTCGACTATC
1 GTGAAAAGGGATAGCTTCGGCTATC
33804795 AAATTTGGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.27
Consensus pattern (29 bp):
GTGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:33804834 original size:33 final size:33
Alignment explanation
Indices: 33804797--33804971 Score: 206
Period size: 33 Copynumber: 5.3 Consensus size: 33
33804787 CGACTATCAA
* **
33804797 ATTTGGAAAGGAAAGGTATACTTTGTGTATATT
1 ATTTGAAAAGGAAAGGTATACTTTGTGTATACC
* ** *
33804830 ATTTGAAAATGTTAGGTATTCTTTGTGTATACC
1 ATTTGAAAAGGAAAGGTATACTTTGTGTATACC
**
33804863 ATTTGAAAAGGTTAGGTATACTTTGTGTATACC
1 ATTTGAAAAGGAAAGGTATACTTTGTGTATACC
* * *
33804896 ATATGAAAAGGGAAGGTATACTTTGTGTATATC
1 ATTTGAAAAGGAAAGGTATACTTTGTGTATACC
* *
33804929 ATATGAAAAGGAAAGGTATACTTTGTGTGTACC
1 ATTTGAAAAGGAAAGGTATACTTTGTGTATACC
* *
33804962 ACTTGGAAAG
1 ATTTGAAAAG
33804972 AAACATACAC
Statistics
Matches: 123, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 123 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (33 bp):
ATTTGAAAAGGAAAGGTATACTTTGTGTATACC
Found at i:33808364 original size:11 final size:11
Alignment explanation
Indices: 33808343--33808377 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
33808333 TATCTACTTA
33808343 TTTATTTATTTC
1 TTTA-TTATTTC
33808355 TTTATTATTTC
1 TTTATTATTTC
*
33808366 TTTATTCTTTC
1 TTTATTATTTC
33808377 T
1 T
33808378 CATATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTATTTC
Found at i:33808538 original size:56 final size:56
Alignment explanation
Indices: 33808465--33808602 Score: 179
Period size: 56 Copynumber: 2.4 Consensus size: 56
33808455 TATTTCTCAT
**
33808465 ATACTTAAATTTAATATTACTTATTTTATTTATTTATTTA-TTCTTTTACTTTTTAA
1 ATACTTAAATTTAATATTACTTATTTTACCTATTTATTTATTTCTTTTA-TTTTTAA
* *
33808521 ATACTTAAATTTAATATTATTTGTTTTACCTATTTATTTATTGTTCTTTTATTTTTAA
1 ATACTTAAATTTAATATTACTTATTTTACCTATTTATTTA-T-TTCTTTTATTTTTAA
* * *
33808579 ATATTTAAATTTGATATTGCTTAT
1 ATACTTAAATTTAATATTACTTAT
33808603 ACTTCCCTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
56 36 0.51
58 26 0.37
59 8 0.11
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.61
Consensus pattern (56 bp):
ATACTTAAATTTAATATTACTTATTTTACCTATTTATTTATTTCTTTTATTTTTAA
Found at i:33810673 original size:9 final size:9
Alignment explanation
Indices: 33810661--33810693 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
33810651 TATTAAAATT
33810661 ATTTTTTAA
1 ATTTTTTAA
33810670 ATTTTTTTAA
1 A-TTTTTTAA
33810680 ATTTTTTAA
1 ATTTTTTAA
33810689 ATTTT
1 ATTTT
33810694 AAACAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:33810677 original size:10 final size:10
Alignment explanation
Indices: 33810662--33810693 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
33810652 ATTAAAATTA
33810662 TTTTTTAAAT
1 TTTTTTAAAT
33810672 TTTTTTAAA-
1 TTTTTTAAAT
33810681 TTTTTTAAAT
1 TTTTTTAAAT
33810691 TTT
1 TTT
33810694 AAACAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:33817697 original size:22 final size:22
Alignment explanation
Indices: 33817667--33817718 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
33817657 CATCAGTGTT
* * *
33817667 ATCAATGGCATTTTATCTGCAA
1 ATCAGTGGCAATTTATCTACAA
33817689 ATCAGTGGCAATTTATCTACAA
1 ATCAGTGGCAATTTATCTACAA
33817711 ATCAGTGG
1 ATCAGTGG
33817719 TGGCATGTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (22 bp):
ATCAGTGGCAATTTATCTACAA
Found at i:33829219 original size:13 final size:13
Alignment explanation
Indices: 33829201--33829277 Score: 100
Period size: 13 Copynumber: 5.9 Consensus size: 13
33829191 AGTTCTTCAT
33829201 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
33829214 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
33829227 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
33829240 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
33829253 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
*
33829266 TGCTTTGGAAAA
1 TGCTTTTGAAAA
33829278 ATTTAAATGT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 55 1.00
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:33829259 original size:39 final size:39
Alignment explanation
Indices: 33829201--33829277 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
33829191 AGTTCTTCAT
*
33829201 TGCTTTTGAAAAGTGCTTTTGAAAAGTGCTGTGGAAAAG
1 TGCTTTTGAAAAGTACTTTTGAAAAGTGCTGTGGAAAAG
* * *
33829240 TGCTTTTGAGAAGTACTTTTGAGAAGTGCTTTGGAAAA
1 TGCTTTTGAAAAGTACTTTTGAAAAGTGCTGTGGAAAA
33829278 ATTTAAATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (39 bp):
TGCTTTTGAAAAGTACTTTTGAAAAGTGCTGTGGAAAAG
Found at i:33836969 original size:21 final size:22
Alignment explanation
Indices: 33836925--33836973 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
33836915 CTCAACCAAA
* * *
33836925 ATTTTATTTTATTATTTTATAC
1 ATTTTAATTTATTATTATACAC
33836947 ATTTTAATTT-TTATTATACAC
1 ATTTTAATTTATTATTATACAC
33836968 ATTTTA
1 ATTTTA
33836974 TTATCTCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTTTAATTTATTATTATACAC
Found at i:33837611 original size:37 final size:39
Alignment explanation
Indices: 33837577--33837650 Score: 91
Period size: 37 Copynumber: 1.9 Consensus size: 39
33837567 ATAATATTTC
33837577 TAATTATTAT-TAATTAATTTTAAAT-TATA-TATATTAT
1 TAATTATTATAT-ATTAATTTTAAATATATATTATATTAT
* * *
33837614 TATTTATTATATGTTATTTTTAAATATATATTATATT
1 TAATTATTATATATTAATTTTAAATATATATTATATT
33837651 CTATATTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
37 20 0.65
38 5 0.16
39 6 0.19
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (39 bp):
TAATTATTATATATTAATTTTAAATATATATTATATTAT
Found at i:33837643 original size:19 final size:19
Alignment explanation
Indices: 33837589--33837644 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 19
33837579 ATTATTATTA
*
33837589 ATTAATTTTAAATTATATAT
1 ATTATTTTTAAA-TATATAT
33837609 ATTATTATTT--AT-TATAT
1 ATTATT-TTTAAATATATAT
*
33837626 GTTATTTTTAAATATATAT
1 ATTATTTTTAAATATATAT
33837645 TATATTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
16 3 0.10
17 10 0.33
18 3 0.10
19 6 0.20
20 5 0.17
21 3 0.10
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
ATTATTTTTAAATATATAT
Found at i:33837948 original size:25 final size:25
Alignment explanation
Indices: 33837913--33837995 Score: 97
Period size: 25 Copynumber: 3.6 Consensus size: 25
33837903 ATTTTATTTT
33837913 ATTGTTAATGAAAACCTTCCATTAA
1 ATTGTTAATGAAAACCTTCCATTAA
* * *
33837938 ATTATTAATGAAAA-----AATT-T
1 ATTGTTAATGAAAACCTTCCATTAA
33837957 ATTGTTAATGAAAACCTTCCATTAA
1 ATTGTTAATGAAAACCTTCCATTAA
33837982 ATTGTTAATGAAAA
1 ATTGTTAATGAAAA
33837996 AGATAATGCA
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
19 13 0.28
20 3 0.07
24 3 0.07
25 27 0.59
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (25 bp):
ATTGTTAATGAAAACCTTCCATTAA
Found at i:33837973 original size:44 final size:44
Alignment explanation
Indices: 33837910--33837996 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
33837900 TTGATTTTAT
33837910 TTTATTGTTAATGAAAACCTTCCATTAAATTATTAATGAAAAAA
1 TTTATTGTTAATGAAAACCTTCCATTAAATTATTAATGAAAAAA
*
33837954 TTTATTGTTAATGAAAACCTTCCATTAAATTGTTAATGAAAAA
1 TTTATTGTTAATGAAAACCTTCCATTAAATTATTAATGAAAAA
33837997 GATAATGCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (44 bp):
TTTATTGTTAATGAAAACCTTCCATTAAATTATTAATGAAAAAA
Found at i:33847810 original size:77 final size:77
Alignment explanation
Indices: 33847681--33847832 Score: 250
Period size: 77 Copynumber: 2.0 Consensus size: 77
33847671 TAAAATTACC
* * * * *
33847681 ATAAAGATAAATACACTTATCGAATAATAGTATAGTTATGGTGAGTCTGGAATATCGTATCTATG
1 ATAAAGACAAATACACTTATCGAATAATAGTATAGCTATGGTAAGTCCGGAATATCGTATCTACG
33847746 AGGACTAAAATT
66 AGGACTAAAATT
*
33847758 ATAAAGACAAGTACACTTATCGAATAATAGTATAGCTATGGTAAGTCCGGAATATCGTATCTACG
1 ATAAAGACAAATACACTTATCGAATAATAGTATAGCTATGGTAAGTCCGGAATATCGTATCTACG
33847823 AGGACTAAAA
66 AGGACTAAAA
33847833 GTACTAGTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 69 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (77 bp):
ATAAAGACAAATACACTTATCGAATAATAGTATAGCTATGGTAAGTCCGGAATATCGTATCTACG
AGGACTAAAATT
Found at i:33850643 original size:19 final size:17
Alignment explanation
Indices: 33850619--33850682 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
33850609 AAGAAGTCTA
33850619 AAAACATAACAATAAACAT
1 AAAACATAA-AATAAA-AT
33850638 AAAACA-AAAATAAAACT
1 AAAACATAAAATAAAA-T
*
33850655 AAAACTAAAAAATAAAAAT
1 AAAAC-ATAAAAT-AAAAT
33850674 AAAA-ATAAA
1 AAAACATAAA
33850683 TGATAAATGG
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
16 1 0.03
17 16 0.40
18 3 0.08
19 16 0.40
20 4 0.10
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAACATAAAATAAAAT
Found at i:33850671 original size:6 final size:6
Alignment explanation
Indices: 33850619--33850682 Score: 58
Period size: 6 Copynumber: 10.5 Consensus size: 6
33850609 AAGAAGTCTA
* * * * *
33850619 AAAACAT AACAAT AAACAT -AAAAC AAAAAT AAAACT AAAACT AAAAAAT
1 AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT
33850668 AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAA
33850683 TGATAAATGG
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
5 3 0.06
6 36 0.77
7 8 0.17
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:33850689 original size:19 final size:19
Alignment explanation
Indices: 33850643--33850682 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
33850633 AACATAAAAC
* *
33850643 AAAAATAAAACTAAAACTA
1 AAAAATAAAAATAAAAATA
33850662 AAAAATAAAAATAAAAATA
1 AAAAATAAAAATAAAAATA
33850681 AA
1 AA
33850683 TGATAAATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAAATAAAAATAAAAATA
Found at i:33861308 original size:47 final size:47
Alignment explanation
Indices: 33861248--33861467 Score: 178
Period size: 47 Copynumber: 4.7 Consensus size: 47
33861238 AAACTTAGCT
33861248 GATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCC
1 GATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCC
* * * *
33861295 GATGCATGTCCCAGACATGTCTTACACTGGC-ACTAAT-ATCTATGCC
1 GATGCATGTCCCAGACACGTCTTACACTGGCTA-TCATCATCGAGGCC
* * ** * * * *
33861341 AATGCCATGTCCCTGACGTGGTCTTACACTAGCTATCATAAT-GTGGCT
1 GATG-CATGTCCCAGAC-ACGTCTTACACTGGCTATCATCATCGAGGCC
* * ** * * *
33861389 GATGCATGTCCCAGAAACGTCTTACACTAGCCCTCGTC-TCAATGCC
1 GATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCC
* *
33861435 GATGCCATGTCCCAGACATGGTCTTATACTGGC
1 GATG-CATGTCCCAGACA-CGTCTTACACTGGC
33861468 CCTCATATAA
Statistics
Matches: 134, Mismatches: 31, Indels: 15
0.74 0.17 0.08
Matches are distributed among these distances:
45 1 0.01
46 33 0.25
47 66 0.49
48 31 0.23
49 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (47 bp):
GATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCC
Found at i:33861474 original size:94 final size:95
Alignment explanation
Indices: 33861150--33861467 Score: 281
Period size: 94 Copynumber: 3.4 Consensus size: 95
33861140 TGGGTTAAGT
* * * * * * * *
33861150 TGCCGCTGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTGTATACG-TGCTGATGCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AAT-CGAGGCCGATGCATGTC
* * * * *
33861214 CCAGACATGTCATACACTAGCACGAA-A-C-T
64 CCAGAAACGTCTTACACTAGCACTAATATCAA
* * *
33861243 TAGCTGATG-CATGTCCCAGACA-CGTCTTACACTGGCTATCATCATCGAGGCCGATGCATGTCC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATCGAGGCCGATGCATGTCC
* * * *
33861306 CAGACATGTCTTACACTGGCACTAATATCTA
65 CAGAAACGTCTTACACTAGCACTAATATCAA
* * * * * *
33861337 TGCCAATGCCATGTCCCTGACGTGGTCTTACACTAGCTATCATAAT-GTGGCTGATGCATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATCGAGGCCGATGCATGTCCC
* ** *
33861401 AGAAACGTCTTACACTAGCCCTCGTCTCAA
66 AGAAACGTCTTACACTAGCACTAATATCAA
*
33861431 TGCCGATGCCATGTCCCAGACATGGTCTTATACTGGC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
33861468 CCTCATATAA
Statistics
Matches: 182, Mismatches: 36, Indels: 13
0.79 0.16 0.06
Matches are distributed among these distances:
90 2 0.01
91 37 0.20
92 17 0.09
93 19 0.10
94 87 0.48
95 20 0.11
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (95 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATCGAGGCCGATGCATGTCCC
AGAAACGTCTTACACTAGCACTAATATCAA
Done.