Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 127 of 167
Found at i:42578485 original size:70 final size:71
Alignment explanation
Indices: 42578409--42578540 Score: 173
Period size: 70 Copynumber: 1.9 Consensus size: 71
42578399 ATTATTTCAT
* * * *
42578409 ATGGCCGAATATA-TAAGTTCAATATATCATT-ACATGTAACCT-AATGTTCAAGTTCAA-ATAA
1 ATGGCCGAATATACCAA-TTCAATATAAC-TTCACATGTAA-CTGAATATACAAGTTCAATATAA
42578470 ACATCTCAG
63 ACATCTCAG
42578479 ATGGCCGAATATACCAATTCAATATAACTTCACATGTAACTGAATATACAAGTTCAATATAA
1 ATGGCCGAATATACCAATTCAATATAACTTCACATGTAACTGAATATACAAGTTCAATATAA
42578541 GCTCACATGT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
69 4 0.07
70 44 0.81
71 6 0.11
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (71 bp):
ATGGCCGAATATACCAATTCAATATAACTTCACATGTAACTGAATATACAAGTTCAATATAAACA
TCTCAG
Found at i:42578524 original size:35 final size:35
Alignment explanation
Indices: 42578485--42578618 Score: 150
Period size: 35 Copynumber: 3.8 Consensus size: 35
42578475 TCAGATGGCC
42578485 GAATATACCAA-TTCAATATAACTTCACATGTAACT
1 GAATATA-CAAGTTCAATATAACTTCACATGTAACT
42578520 GAATATACAAGTTCAATATAAGC-TCACATGTAA-T
1 GAATATACAAGTTCAATATAA-CTTCACATGTAACT
* * * * *
42578554 CGAAT-TCACTAGTTCAATATAACCTCACATGCAGCC
1 -GAATAT-ACAAGTTCAATATAACTTCACATGTAACT
*
42578590 AAATATACAAGTTCAATATAACTTCACAT
1 GAATATACAAGTTCAATATAACTTCACAT
42578619 ATACTTACCT
Statistics
Matches: 85, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
34 6 0.07
35 77 0.91
36 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (35 bp):
GAATATACAAGTTCAATATAACTTCACATGTAACT
Found at i:42579572 original size:31 final size:31
Alignment explanation
Indices: 42579537--42579599 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
42579527 TCAAACATCA
42579537 CTAAACACAAATATTCATCAATGGCATAACT
1 CTAAACACAAATATTCATCAATGGCATAACT
42579568 CTAAACACAAATATTCATCAATGGCATAACT
1 CTAAACACAAATATTCATCAATGGCATAACT
42579599 C
1 C
42579600 AAAATATGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.24, G:0.06, T:0.25
Consensus pattern (31 bp):
CTAAACACAAATATTCATCAATGGCATAACT
Found at i:42594357 original size:23 final size:23
Alignment explanation
Indices: 42594330--42594376 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
42594320 GAGTTAATGC
42594330 AACACTAGGGGTTTTAATTAGAA
1 AACACTAGGGGTTTTAATTAGAA
42594353 AACACTAGGGGTTTTAATTAGAA
1 AACACTAGGGGTTTTAATTAGAA
42594376 A
1 A
42594377 GAGATTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (23 bp):
AACACTAGGGGTTTTAATTAGAA
Found at i:42595379 original size:35 final size:35
Alignment explanation
Indices: 42595269--42595473 Score: 200
Period size: 35 Copynumber: 5.9 Consensus size: 35
42595259 CCTATATGGT
* * * *
42595269 CGAATATATAAGTTCAATATATCATTACATGTAAC
1 CGAATATACAAGTTCAATATAACCTCACATGTAAC
* * * * * * **
42595304 CTAATGTTCAAGTTCAA-ATAAACATCTCATATGGC
1 CGAATATACAAGTTCAATAT-AACCTCACATGTAAC
*
42595339 TGAATATACCAA-TTCAATATAACCTCACATGTAAC
1 CGAATATA-CAAGTTCAATATAACCTCACATGTAAC
* *
42595374 CGAATATACAAGTTCAATATAAGCTCACATGTAAT
1 CGAATATACAAGTTCAATATAACCTCACATGTAAC
* *
42595409 CGAAT-TCACAAGTTCAATATAACCTCACATGCAGC
1 CGAATAT-ACAAGTTCAATATAACCTCACATGTAAC
*
42595444 CGAATATACAAGTTCAATATAGCCTCACAT
1 CGAATATACAAGTTCAATATAACCTCACAT
42595474 ATACTTACCT
Statistics
Matches: 137, Mismatches: 27, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
34 6 0.04
35 125 0.91
36 6 0.04
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (35 bp):
CGAATATACAAGTTCAATATAACCTCACATGTAAC
Found at i:42597634 original size:50 final size:52
Alignment explanation
Indices: 42597545--42597643 Score: 148
Period size: 50 Copynumber: 1.9 Consensus size: 52
42597535 TCGCATGACT
* **
42597545 TAATTTAATGATGCAAACTTTAACTAACATGGGAGTTACATAATGCATGTCA
1 TAATTTAATGATACAAACTTTAACTAACATAAGAGTTACATAATGCATGTCA
*
42597597 TAATTT-ATGATACAAAC-TTAACTAACATAAGAGTTACATGATGCATG
1 TAATTTAATGATACAAACTTTAACTAACATAAGAGTTACATAATGCATG
42597644 ACTTTATTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 27 0.63
51 10 0.23
52 6 0.14
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.32
Consensus pattern (52 bp):
TAATTTAATGATACAAACTTTAACTAACATAAGAGTTACATAATGCATGTCA
Found at i:42601347 original size:79 final size:82
Alignment explanation
Indices: 42601236--42601420 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
42601226 GCTACTCGTT
* * *
42601236 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
42601299 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
42601316 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
42601379 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
42601396 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42601421 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:42601420 original size:40 final size:40
Alignment explanation
Indices: 42601217--42601420 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
42601207 CGGAATTTAA
** *
42601217 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
42601257 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
42601297 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42601336 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
42601376 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
42601416 CCGGA
1 CCGGA
42601421 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:42609299 original size:47 final size:47
Alignment explanation
Indices: 42609244--42609391 Score: 233
Period size: 47 Copynumber: 3.1 Consensus size: 47
42609234 TTAGGATTTT
42609244 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
42609291 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * * *
42609338 AATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
42609385 AATGTGA
1 AATGTGA
42609392 AATATGTATG
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 91 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:42609347 original size:25 final size:25
Alignment explanation
Indices: 42609272--42609347 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
42609262 ATGCATATAT
42609272 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
42609297 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
42609319 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
42609344 GTGA
1 GTGA
42609348 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:42609524 original size:52 final size:48
Alignment explanation
Indices: 42609361--42609547 Score: 295
Period size: 48 Copynumber: 3.8 Consensus size: 48
42609351 TGAACATGCA
42609361 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
42609409 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
42609457 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATGTATGAGATATG
*
42609509 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
42609548 GGTGATGTGC
Statistics
Matches: 128, Mismatches: 5, Indels: 12
0.88 0.03 0.08
Matches are distributed among these distances:
47 1 0.01
48 81 0.63
49 1 0.01
50 2 0.02
51 1 0.01
52 41 0.32
53 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:42609530 original size:100 final size:96
Alignment explanation
Indices: 42609362--42609547 Score: 302
Period size: 100 Copynumber: 1.9 Consensus size: 96
42609352 GAACATGCAT
*
42609362 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
42609427 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
42609458 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGATATGTATATGTGGTAAA
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATATATGAGATATGTATATGTGGTAAA
*
42609522 GCCGAATGGCTAGTGTGAAATATGTA
61 GCCGAATGGCTAATGTGAAATATGTA
42609548 GGTGATGTGC
Statistics
Matches: 83, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
98 1 0.01
99 1 0.01
100 53 0.64
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:42609607 original size:100 final size:99
Alignment explanation
Indices: 42609393--42609588 Score: 254
Period size: 100 Copynumber: 2.0 Consensus size: 99
42609383 CTAATGTGAA
* *
42609393 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATATGC
* **
42609458 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATAT
66 ATATGTGGT-AAGCCGAACGACCAATGTGAAATAT
* * *
42609493 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGTGATGTGC
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATAT--
*
42609558 GCATAT-T-GT-GGCCGAACGACCAAATGTGAAA
64 GCATATGTGGTAAGCCGAACGACC-AATGTGAAA
42609589 GGTGTGTATT
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
98 8 0.10
99 9 0.11
100 60 0.71
101 1 0.01
102 6 0.07
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.30
Consensus pattern (99 bp):
ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATATGC
ATATGTGGTAAGCCGAACGACCAATGTGAAATAT
Found at i:42609802 original size:37 final size:37
Alignment explanation
Indices: 42609694--42609802 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
42609684 GGAAATATAT
*
42609694 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
42609731 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
42609768 TCCGGTTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
42609803 CGTCTAAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:42641246 original size:44 final size:44
Alignment explanation
Indices: 42641196--42641280 Score: 170
Period size: 44 Copynumber: 1.9 Consensus size: 44
42641186 AGATCCTTGA
42641196 AACATGTTCTCTCCATTTCTACCCATATTTTAAGCTAGGGTAAG
1 AACATGTTCTCTCCATTTCTACCCATATTTTAAGCTAGGGTAAG
42641240 AACATGTTCTCTCCATTTCTACCCATATTTTAAGCTAGGGT
1 AACATGTTCTCTCCATTTCTACCCATATTTTAAGCTAGGGT
42641281 TCATGTATGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.38
Consensus pattern (44 bp):
AACATGTTCTCTCCATTTCTACCCATATTTTAAGCTAGGGTAAG
Found at i:42652484 original size:37 final size:37
Alignment explanation
Indices: 42652434--42652507 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
42652424 AAAGTCTGCA
* *
42652434 AGAATTGCCCGTTAATGATTCGAGATGTTTGTTTTCC
1 AGAATTGCCCGTTAATGATTCGAGATATCTGTTTTCC
* *
42652471 AGAATTGCCCGTTATTGATTCGGGATATCTGTTTTCC
1 AGAATTGCCCGTTAATGATTCGAGATATCTGTTTTCC
42652508 TGCTGATTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.41
Consensus pattern (37 bp):
AGAATTGCCCGTTAATGATTCGAGATATCTGTTTTCC
Found at i:42657075 original size:54 final size:53
Alignment explanation
Indices: 42657011--42657117 Score: 178
Period size: 54 Copynumber: 2.0 Consensus size: 53
42657001 GGTTTGTAAA
42657011 TAAGAACTGTGCTAATCAATTGTAGGACATCGGAAGAGATCTCGGTAGCAGTC
1 TAAGAACTGTGCTAATCAATTGTAGGACATCGGAAGAGATCTCGGTAGCAGTC
* **
42657064 NTAAGAACTGTGCTAATCAATTGTAGGACATTGGGTGAGATCTCGGTAGCAGTC
1 -TAAGAACTGTGCTAATCAATTGTAGGACATCGGAAGAGATCTCGGTAGCAGTC
42657118 GTCGCGAATC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.26
Consensus pattern (53 bp):
TAAGAACTGTGCTAATCAATTGTAGGACATCGGAAGAGATCTCGGTAGCAGTC
Found at i:42662667 original size:40 final size:40
Alignment explanation
Indices: 42662623--42662702 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
42662613 TTACTGCAAC
42662623 CTGTGAAAATTCCGCTATGGAAGTGGAAAAGAGTAACAAT
1 CTGTGAAAATTCCGCTATGGAAGTGGAAAAGAGTAACAAT
*
42662663 CTGTGAAAATTCCGCTATGGAAGTGGGAAAGAGTAACAAT
1 CTGTGAAAATTCCGCTATGGAAGTGGAAAAGAGTAACAAT
42662703 GGACTTTGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (40 bp):
CTGTGAAAATTCCGCTATGGAAGTGGAAAAGAGTAACAAT
Found at i:42664791 original size:49 final size:49
Alignment explanation
Indices: 42664714--42664808 Score: 172
Period size: 49 Copynumber: 1.9 Consensus size: 49
42664704 AAACTCTGGA
* *
42664714 AGTCGAGTTCTACCATCGTTTGAAAGATAAATCTGCATCAGATTGCAGG
1 AGTCAAGTTCTACCATCGTTTGAAAGATAAATCTGCATCAAATTGCAGG
42664763 AGTCAAGTTCTACCATCGTTTGAAAGATAAATCTGCATCAAATTGC
1 AGTCAAGTTCTACCATCGTTTGAAAGATAAATCTGCATCAAATTGC
42664809 GTGGAGATCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (49 bp):
AGTCAAGTTCTACCATCGTTTGAAAGATAAATCTGCATCAAATTGCAGG
Found at i:42665209 original size:45 final size:45
Alignment explanation
Indices: 42665158--42665245 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
42665148 TGTAGGACAT
*
42665158 CGGAAGAGATCTCAGTAGCAGTTGTCACGAATCAGGTGTGTACTG
1 CGGAAGAGATCTCAGTAGCAGTCGTCACGAATCAGGTGTGTACTG
* *
42665203 CGGAAGAGATCTCAGTAGTAGTCGTCGCGAATCAGGTGTGTAC
1 CGGAAGAGATCTCAGTAGCAGTCGTCACGAATCAGGTGTGTAC
42665246 CGAACACCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (45 bp):
CGGAAGAGATCTCAGTAGCAGTCGTCACGAATCAGGTGTGTACTG
Found at i:42668018 original size:42 final size:42
Alignment explanation
Indices: 42667916--42668066 Score: 130
Period size: 43 Copynumber: 3.5 Consensus size: 42
42667906 GTCTGAGACA
* *
42667916 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTGAGATT
*
42667958 TACGTATAAGACCATGTCTGGGACATCA-GCATCGTATCT-A-ATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGCATCG-AT-TGAGATT
* * *
42668001 TCGTGTAAGACCTTGTCTGGGACAGAGGTATCGATATTGA-ATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCG--ATTGAGATT
* * * *
42668044 ACATGTAAGACCACGTCCGGGAC
1 TCGTGTAAGACCATGTCTGGGAC
42668067 GTCGCCGTTG
Statistics
Matches: 90, Mismatches: 12, Indels: 13
0.78 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 28 0.31
43 55 0.61
44 5 0.06
45 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTGAGATT
Found at i:42672552 original size:42 final size:42
Alignment explanation
Indices: 42672477--42672556 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
42672467 GCACACGGGC
*** *
42672477 TGGCACACAGGCGTGTGGGGCAACTTAGAGAGTTACACTACT
1 TGGCACACAGGCGTGTGACCCAACTCAGAGAGTTACACTACT
* *
42672519 TGGCACACAGGCGTGTGACCCTACTCAGTGAGTTACAC
1 TGGCACACAGGCGTGTGACCCAACTCAGAGAGTTACAC
42672557 GGGTGAGGAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.21
Consensus pattern (42 bp):
TGGCACACAGGCGTGTGACCCAACTCAGAGAGTTACACTACT
Found at i:42675682 original size:44 final size:43
Alignment explanation
Indices: 42675616--42675700 Score: 107
Period size: 44 Copynumber: 2.0 Consensus size: 43
42675606 TAAAATTAGA
* ** * *
42675616 ATAACTTTTATTTCATTCTAATTATTTGTAAATATATTATTACC
1 ATAACTTCTATTAAATTATAATTATTT-TAAATATATAATTACC
*
42675660 ATAACTTCTATTAAATTATAATTATTTTAAATGTATAATTA
1 ATAACTTCTATTAAATTATAATTATTTTAAATATATAATTA
42675701 TCACAACTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
43 12 0.34
44 23 0.66
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (43 bp):
ATAACTTCTATTAAATTATAATTATTTTAAATATATAATTACC
Found at i:42675696 original size:17 final size:16
Alignment explanation
Indices: 42675670--42675701 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
42675660 ATAACTTCTA
42675670 TTAAATTATAATTATT
1 TTAAATTATAATTATT
42675686 TTAAATGTATAATTAT
1 TTAAAT-TATAATTAT
42675702 CACAACTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAAATTATAATTATT
Found at i:42675846 original size:5 final size:5
Alignment explanation
Indices: 42675836--42675881 Score: 83
Period size: 5 Copynumber: 9.2 Consensus size: 5
42675826 AAACTCATGC
*
42675836 TTATA TTATA TTATA ATATA TTATA TTATA TTATA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
42675882 ATACAATCCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:42679090 original size:24 final size:23
Alignment explanation
Indices: 42679057--42679103 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
42679047 ATAATTTTAA
42679057 TTTTTCTTTTCTTTTAACTTTCC
1 TTTTTCTTTTCTTTTAACTTTCC
*
42679080 TTTTTCTTTTTCTTTTAGCTTTCC
1 TTTTTC-TTTTCTTTTAACTTTCC
42679104 AGAACGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.06, C:0.21, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTTTCTTTTCTTTTAACTTTCC
Found at i:42679846 original size:24 final size:27
Alignment explanation
Indices: 42679810--42679861 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
42679800 TGAAAATTAA
42679810 TTTAAAAATT-AAA-AAATATTATCAT
1 TTTAAAAATTAAAACAAATATTATCAT
*
42679835 TTTAATAA-TAAAATCAAATATTATCAT
1 TTTAAAAATTAAAA-CAAATATTATCAT
42679862 GAGTAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 1 0.04
25 10 0.43
27 12 0.52
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (27 bp):
TTTAAAAATTAAAACAAATATTATCAT
Found at i:42680008 original size:19 final size:19
Alignment explanation
Indices: 42679984--42680022 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
42679974 TTTCTTCAAT
42679984 ATTGGAGCTGACAATAAGA
1 ATTGGAGCTGACAATAAGA
42680003 ATTGGAGCTGACAATAAGA
1 ATTGGAGCTGACAATAAGA
42680022 A
1 A
42680023 AAAAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.26, T:0.21
Consensus pattern (19 bp):
ATTGGAGCTGACAATAAGA
Found at i:42686082 original size:27 final size:27
Alignment explanation
Indices: 42686052--42686229 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
42686042 ATATTGAGCC
* *
42686052 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
42686079 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
42686106 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
42686134 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
42686161 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
42686188 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
42686215 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42686230 GTACAATTTC
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:42686191 original size:82 final size:81
Alignment explanation
Indices: 42686073--42686228 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
42686063 TGCTATATAA
* * *
42686073 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
42686138 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
42686155 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
42686219 CACTTAGTGC
65 CACTTAGTGC
42686229 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:42694316 original size:29 final size:29
Alignment explanation
Indices: 42694253--42694320 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
42694243 TAATCAACCA
42694253 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
42694282 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
42694311 CGCACACTTA
1 CGCACACTTA
42694321 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:42694461 original size:29 final size:30
Alignment explanation
Indices: 42694422--42694500 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
42694412 CTTAATAATC
42694422 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
42694452 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
42694481 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
42694501 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:42694857 original size:42 final size:42
Alignment explanation
Indices: 42694798--42694883 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
42694788 ATCAATAAAT
42694798 CAACTAGTTTAACCGCCTTGCTAAATATTTACAATCTAATTA
1 CAACTAGTTTAACCGCCTTGCTAAATATTTACAATCTAATTA
42694840 CAACTAGTTTAACCGCCTTGCTAAATATTTACAATCTAATTA
1 CAACTAGTTTAACCGCCTTGCTAAATATTTACAATCTAATTA
42694882 CA
1 CA
42694884 CATGCATATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.35
Consensus pattern (42 bp):
CAACTAGTTTAACCGCCTTGCTAAATATTTACAATCTAATTA
Found at i:42707599 original size:28 final size:28
Alignment explanation
Indices: 42707536--42707689 Score: 238
Period size: 28 Copynumber: 5.5 Consensus size: 28
42707526 ATATTAAGTC
*
42707536 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
42707563 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
42707591 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
42707619 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
42707647 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
42707676 CGCACACTTAGTGC
1 CGCACACTTAGTGC
42707690 CAATCTCATG
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.65
29 19 0.16
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:42710877 original size:31 final size:31
Alignment explanation
Indices: 42710839--42710900 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
42710829 ATCAAATATT
42710839 TGAGACTTTTGTGATCCAAAAATACATGGCA
1 TGAGACTTTTGTGATCCAAAAATACATGGCA
*
42710870 TGAGACTTTTGTGATCCGAAAATACATGGCA
1 TGAGACTTTTGTGATCCAAAAATACATGGCA
42710901 CTTTTCGCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (31 bp):
TGAGACTTTTGTGATCCAAAAATACATGGCA
Found at i:42719768 original size:21 final size:20
Alignment explanation
Indices: 42719731--42719772 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
42719721 TACTCATTGA
42719731 AAGCCGATTGATCCATCTAAG
1 AAGCCGATTGATCCATC-AAG
*
42719752 AAGCCGAATTTAT-CATCAAG
1 AAGCCG-ATTGATCCATCAAG
42719772 A
1 A
42719773 CTAAAGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (20 bp):
AAGCCGATTGATCCATCAAG
Found at i:42732956 original size:31 final size:31
Alignment explanation
Indices: 42732921--42732979 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
42732911 AATATTTCTG
*
42732921 AAGTAAAT-AGAGTTAGTTTGATCTTTTACCT
1 AAGTAAATAAG-GATAGTTTGATCTTTTACCT
* *
42732952 AAGTACATAAGGATAGTTTGGTCTTTTA
1 AAGTAAATAAGGATAGTTTGATCTTTTA
42732980 AAATAGAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.92
32 2 0.08
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (31 bp):
AAGTAAATAAGGATAGTTTGATCTTTTACCT
Found at i:42733382 original size:88 final size:89
Alignment explanation
Indices: 42733279--42733500 Score: 270
Period size: 90 Copynumber: 2.5 Consensus size: 89
42733269 TTAAGGATGT
* * *** * *
42733279 AAAAAGTCCTCAAACTTTTTTTTAAAAAGTAATTAAGTCTCT-CT-TTTTTTTTCACTCAATTGA
1 AAAAAGCCCTCAAACTTCTTAGAAAAAAGCAATTAAGTCCCTACTATTTTTTTTCACTCAATTGA
42733342 GTACTTGAACTTTCAAAATGCATC
66 GTACTTGAACTTTCAAAATGCATC
42733366 AAAAAGCCCTTCAAACTTCTTAGAAAAAAGCAATTAAGTCCCTACTATTTTTTTTCACTCAATTG
1 AAAAAGCCC-TCAAACTTCTTAGAAAAAAGCAATTAAGTCCCTACTATTTTTTTTCACTCAATTG
* * *
42733431 GGTAGTTGAACTTTCAAAATGTATC
65 AGTACTTGAACTTTCAAAATGCATC
* * * * *
42733456 AAAAAG-ACTCAAAATTTTTCAAAAAAAAACAATTAAGTCCCTACT
1 AAAAAGCCCTCAAACTTCTT-AGAAAAAAGCAATTAAGTCCCTACT
42733501 CTTATTAAAA
Statistics
Matches: 116, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
87 8 0.07
88 36 0.31
89 26 0.22
90 46 0.40
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (89 bp):
AAAAAGCCCTCAAACTTCTTAGAAAAAAGCAATTAAGTCCCTACTATTTTTTTTCACTCAATTGA
GTACTTGAACTTTCAAAATGCATC
Found at i:42733604 original size:26 final size:27
Alignment explanation
Indices: 42733555--42733609 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
42733545 AGAAAATTTA
42733555 TTAAATTTTAATAAAAATATAGAAAAT
1 TTAAATTTTAATAAAAATATAGAAAAT
*
42733582 TTAAATTTTATTAAAAAT-TAGAAAAT
1 TTAAATTTTAATAAAAATATAGAAAAT
42733608 TT
1 TT
42733610 TTATAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (27 bp):
TTAAATTTTAATAAAAATATAGAAAAT
Found at i:42733625 original size:9 final size:9
Alignment explanation
Indices: 42733565--42733665 Score: 53
Period size: 9 Copynumber: 10.8 Consensus size: 9
42733555 TTAAATTTTA
42733565 ATAAAAA-T
1 ATAAAAATT
42733573 ATAGAAAATT
1 ATA-AAAATT
**
42733583 -TAAATTTT
1 ATAAAAATT
42733591 ATTAAAAATT
1 A-TAAAAATT
* *
42733601 AGAAAATTTTT
1 ATAAAA--ATT
42733612 ATAAAAATT
1 ATAAAAATT
* *
42733621 GTAAAAAATA
1 AT-AAAAATT
*
42733631 AAAAAAATT
1 ATAAAAATT
* *
42733640 GTAAAACTTT
1 ATAAAA-ATT
42733650 ATAAAAATT
1 ATAAAAATT
42733659 ATAAAAA
1 ATAAAAA
42733666 AATTAACCAC
Statistics
Matches: 67, Mismatches: 18, Indels: 15
0.67 0.18 0.15
Matches are distributed among these distances:
8 7 0.10
9 32 0.48
10 21 0.31
11 7 0.10
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:42733655 original size:19 final size:19
Alignment explanation
Indices: 42733609--42733665 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 19
42733599 TTAGAAAATT
42733609 TTTATAAAAATTGTAAAAA
1 TTTATAAAAATTGTAAAAA
* * * *
42733628 ATAAAAAAAATTGTAAAAC
1 TTTATAAAAATTGTAAAAA
*
42733647 TTTATAAAAATTATAAAAA
1 TTTATAAAAATTGTAAAAA
42733666 AATTAACCAC
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (19 bp):
TTTATAAAAATTGTAAAAA
Found at i:42733752 original size:36 final size:36
Alignment explanation
Indices: 42733681--42733763 Score: 114
Period size: 36 Copynumber: 2.3 Consensus size: 36
42733671 ACCACCCCTT
*
42733681 GTTTTTTTTTCAATTAAAGTCATCATGTGCCGCCTA
1 GTTTTTTTTTCAATTAAAGTCATCACGTGCCGCCTA
* *
42733717 GTTTTTTTTTCAATTAAAGTCATTACGT-CTTGCCTA
1 GTTTTTTTTTCAATTAAAGTCATCACGTGC-CGCCTA
42733753 GTTTTTGTTTT
1 GTTTTT-TTTT
42733764 AAGAAATTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
35 1 0.02
36 37 0.88
37 4 0.10
ACGTcount: A:0.19, C:0.16, G:0.13, T:0.52
Consensus pattern (36 bp):
GTTTTTTTTTCAATTAAAGTCATCACGTGCCGCCTA
Found at i:42733856 original size:58 final size:60
Alignment explanation
Indices: 42733770--42733898 Score: 172
Period size: 59 Copynumber: 2.1 Consensus size: 60
42733760 TTTTAAGAAA
* *
42733770 TTTATATTTCTTTACATTTTGTATAATTTTCTTAC-AACTTTATAAAATTTTAGAATTTTT
1 TTTATATTTC-TTACATATTGTATAATTTTCTTACGAACTTTATAAAATTTTACAATTTTT
* * **
42733830 TTTATATTTC-TATATATTGTATAATTTTTTTACGATTTTTATAAAATTTTACAATTTTT
1 TTTATATTTCTTACATATTGTATAATTTTCTTACGAACTTTATAAAATTTTACAATTTTT
42733889 TTATATATTT
1 TT-TATATTT
42733899 TTATGATTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
58 20 0.33
59 24 0.39
60 17 0.28
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.60
Consensus pattern (60 bp):
TTTATATTTCTTACATATTGTATAATTTTCTTACGAACTTTATAAAATTTTACAATTTTT
Found at i:42733907 original size:29 final size:29
Alignment explanation
Indices: 42733816--42733908 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
42733806 ACTTTATAAA
*
42733816 ATTTTAGAATTTTTTT-TATATTTCTATAT
1 ATTTTACAATTTTTTTATATATTT-TATAT
* * * *
42733845 ATTGTATAATTTTTTTACGAT-TTTTATAAA
1 ATTTTACAATTTTTTTA-TATATTTTAT-AT
42733875 ATTTTACAATTTTTTTATATATTTT-TAT
1 ATTTTACAATTTTTTTATATATTTTATAT
42733903 GATTTT
1 -ATTTT
42733909 CTATGATTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
28 1 0.02
29 25 0.49
30 23 0.45
31 2 0.04
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.63
Consensus pattern (29 bp):
ATTTTACAATTTTTTTATATATTTTATAT
Found at i:42733927 original size:59 final size:58
Alignment explanation
Indices: 42733791--42733929 Score: 156
Period size: 59 Copynumber: 2.4 Consensus size: 58
42733781 TTACATTTTG
** * *
42733791 TATAA-TTTTCTTACAACTTTATAAAATTTTAGAATTTTTTTTATATTTCTATATATTG
1 TATAATTTTTC-TACATTTTTATAAAATTTTACAATTTTTTTTATATTTCTATATATTC
* * *
42733849 TATAATTTTTTTACGATTTTTATAAAATTTTACAATTTTTTTATATATTTTTATGATTTTC
1 TATAATTTTTCTAC-ATTTTTATAAAATTTTACAATTTTTTT-TATATTTCTAT-ATATTC
*
42733910 TATGATTTTTCTA-ATTTTTA
1 TATAATTTTTCTACATTTTTA
42733930 ATATTTGAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
58 8 0.12
59 35 0.51
60 10 0.15
61 15 0.22
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (58 bp):
TATAATTTTTCTACATTTTTATAAAATTTTACAATTTTTTTTATATTTCTATATATTC
Found at i:42734004 original size:20 final size:20
Alignment explanation
Indices: 42733962--42734005 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
42733952 TTTAATAATA
* *
42733962 TTTATAGCTTTTATTGATTT
1 TTTATAGCTTTTATTAATCT
42733982 TTTATAGCTTTTATTAATCT
1 TTTATAGCTTTTATTAATCT
42734002 TTTA
1 TTTA
42734006 ATAATATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.64
Consensus pattern (20 bp):
TTTATAGCTTTTATTAATCT
Found at i:42734556 original size:24 final size:24
Alignment explanation
Indices: 42734529--42734578 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
42734519 CTATTGTAAA
42734529 TGTGTATTAGATGCAATGATTATT
1 TGTGTATTAGATGCAATGATTATT
*
42734553 TGTGTATTATATGCAATGATTATT
1 TGTGTATTAGATGCAATGATTATT
42734577 TG
1 TG
42734579 ATGGGCTAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.20, T:0.48
Consensus pattern (24 bp):
TGTGTATTAGATGCAATGATTATT
Found at i:42740211 original size:64 final size:63
Alignment explanation
Indices: 42740130--42740313 Score: 199
Period size: 67 Copynumber: 2.9 Consensus size: 63
42740120 AGACATTATG
*
42740130 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
42740193 TATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 -ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
42740258 TA
62 TA
** * * * *
42740260 AACTAGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
42740314 CGAACTATAT
Statistics
Matches: 98, Mismatches: 18, Indels: 9
0.78 0.14 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 19 0.19
67 30 0.31
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:42747345 original size:48 final size:48
Alignment explanation
Indices: 42747284--42747395 Score: 138
Period size: 48 Copynumber: 2.3 Consensus size: 48
42747274 CATGAGAGCC
**
42747284 AGTGTAAGACATGT-TAGGGACATACATCAGCCTCGA-GATATTTAAGCT
1 AGTGTAAGACATGTCTA-GGACATACATCAGCCTC-ACGATATACAAGCT
* **
42747332 AGTGTAAGACATGTCTAGGACATGCATTGGCCTCACGATATACAAGCT
1 AGTGTAAGACATGTCTAGGACATACATCAGCCTCACGATATACAAGCT
*
42747380 AGTGTAAGACCTGTCT
1 AGTGTAAGACATGTCT
42747396 GTGACATGGC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 1 0.02
48 53 0.95
49 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (48 bp):
AGTGTAAGACATGTCTAGGACATACATCAGCCTCACGATATACAAGCT
Found at i:42747522 original size:49 final size:49
Alignment explanation
Indices: 42747423--42747548 Score: 148
Period size: 49 Copynumber: 2.6 Consensus size: 49
42747413 TGTGGTGTGT
* * *
42747423 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCGACACCGATAGATAAAAGC
* * *
42747472 CAGTGTAAGACCTATTTGGGACATGGCATCGGC-CTCGCT-GTATAAAAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCGACAC-CGATAG-ATAAAAGC
*
42747521 CAGTATAAGACCATATCTGGGACATGGC
1 CAGTGTAAGACC-TATCTGGGACATGGC
42747549 GTCAACATCT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
48 2 0.03
49 50 0.76
50 14 0.21
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (49 bp):
CAGTGTAAGACCTATCTGGGACATGGCATCGACACCGATAGATAAAAGC
Found at i:42749940 original size:24 final size:24
Alignment explanation
Indices: 42749911--42749969 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
42749901 TGGATGTTCA
42749911 ACCTTTCATCTTCCTTAAC-CTTTC
1 ACCTTTCATCTTCCTTAACTC-TTC
42749935 ACCTTTCATCTTCCTTAACTCTTC
1 ACCTTTCATCTTCCTTAACTCTTC
*
42749959 ACATTTCATCT
1 ACCTTTCATCT
42749970 CTTTGTAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
24 32 0.97
25 1 0.03
ACGTcount: A:0.19, C:0.36, G:0.00, T:0.46
Consensus pattern (24 bp):
ACCTTTCATCTTCCTTAACTCTTC
Found at i:42750552 original size:63 final size:64
Alignment explanation
Indices: 42750485--42750613 Score: 165
Period size: 64 Copynumber: 2.0 Consensus size: 64
42750475 ATTATTTTCA
* *
42750485 TTAAACACCTAA-TAAAATTTCA-ATTTTTTTATTT-ACTATTGAAATTCTAATTCCATTGAATT
1 TTAAACACC-AATTAAAATTTCAGATTTTTTTATTTCA-TATAGAAATTCTAATTACATTGAATT
42750547 T
64 T
* * * *
42750548 TTAAACTCCAATTAAAATTTCAGTTTTTTTTATTTCATATAGAACTTTTAATTACATTGAATTT
1 TTAAACACCAATTAAAATTTCAGATTTTTTTATTTCATATAGAAATTCTAATTACATTGAATTT
42750612 TT
1 TT
42750614 TAATTACTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
62 2 0.04
63 18 0.32
64 36 0.63
65 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.50
Consensus pattern (64 bp):
TTAAACACCAATTAAAATTTCAGATTTTTTTATTTCATATAGAAATTCTAATTACATTGAATTT
Found at i:42750657 original size:19 final size:19
Alignment explanation
Indices: 42750616--42750658 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
42750606 GAATTTTTTA
42750616 ATTAC-TTTGTTATTCATT
1 ATTACTTTTGTTATTCATT
42750634 ATTACTTTTGATTATT-ATT
1 ATTACTTTTG-TTATTCATT
*
42750653 TTTACT
1 ATTACT
42750659 ATAAATACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 5 0.23
19 12 0.55
20 5 0.23
ACGTcount: A:0.23, C:0.09, G:0.05, T:0.63
Consensus pattern (19 bp):
ATTACTTTTGTTATTCATT
Found at i:42751336 original size:15 final size:15
Alignment explanation
Indices: 42751316--42751347 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
42751306 AAGCAATTCA
42751316 AACAGAGTAGAATAG
1 AACAGAGTAGAATAG
*
42751331 AACAGAGTAGAGTAG
1 AACAGAGTAGAATAG
42751346 AA
1 AA
42751348 TATAACAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.28, T:0.12
Consensus pattern (15 bp):
AACAGAGTAGAATAG
Found at i:42752429 original size:42 final size:42
Alignment explanation
Indices: 42752367--42752476 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
42752357 TGAGTTATAT
* *
42752367 GGCCTAGAAACATGCTCATATCCCTACCCGTGT-GACCCACAC
1 GGCCTAGACACATGCCCATATCCCTACCCGTGTAG-CCCACAC
* * ** *
42752409 GGCCTAGACACACGCCCATATCCTTACCCGTGTAGCTTACAT
1 GGCCTAGACACATGCCCATATCCCTACCCGTGTAGCCCACAC
* *
42752451 GGCCTGGGCACATGCCCATATCCCTA
1 GGCCTAGACACATGCCCATATCCCTA
42752477 GCCATGTGCT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 55 0.98
43 1 0.02
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.21
Consensus pattern (42 bp):
GGCCTAGACACATGCCCATATCCCTACCCGTGTAGCCCACAC
Found at i:42754755 original size:43 final size:42
Alignment explanation
Indices: 42754692--42754884 Score: 203
Period size: 43 Copynumber: 4.5 Consensus size: 42
42754682 CTTCGACCCC
* *
42754692 AGCAGGCTATAATGCCGGTGAAATAATACCGAGCCTCAAGCCT
1 AGCAGGCTATAATGCCAGTGAAATAATATCG-GCCTCAAGCCT
* ** *
42754735 AGCAGGCTATAATACTGGTGAAATAATATCGGCCCTCGAGCCT
1 AGCAGGCTATAATGCCAGTGAAATAATATCGG-CCTCAAGCCT
*
42754778 AGCAGGCTATAATGCCAGTGAAATAATATTGGGCCT-AGAGCCT
1 AGCAGGCTATAATGCCAGTGAAATAATA-TCGGCCTCA-AGCCT
* *
42754821 AGCAGGCTATAATGCTAGTGAAATAATATCAGGCTTCGAA-CCT
1 AGCAGGCTATAATGCCAGTGAAATAATATC-GGCCTC-AAGCCT
* * *
42754864 AGTAGGCGA-AATGCTAGTGAA
1 AGCAGGCTATAATGCCAGTGAA
42754885 TGAAATCAGA
Statistics
Matches: 130, Mismatches: 14, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
42 14 0.11
43 111 0.85
44 4 0.03
45 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.22
Consensus pattern (42 bp):
AGCAGGCTATAATGCCAGTGAAATAATATCGGCCTCAAGCCT
Found at i:42754842 original size:86 final size:86
Alignment explanation
Indices: 42754692--42754884 Score: 248
Period size: 86 Copynumber: 2.3 Consensus size: 86
42754682 CTTCGACCCC
* *
42754692 AGCAGGCTATAATGCCGGTGAAATAATACCGAGCCTCAAGCCTAGCAGGCTATAATACTGGTGAA
1 AGCAGGCTATAATGCCAGTGAAATAATACCGAGCCTCAAGCCTAGCAGGCTATAATACTAGTGAA
*
42754757 ATAATATC-GGCCCTCGAGCCT
66 ATAATATCAGG-CCTCGAACCT
** * *
42754778 AGCAGGCTATAATGCCAGTGAAATAATATTGGGCCT-AGAGCCTAGCAGGCTATAATGCTAGTGA
1 AGCAGGCTATAATGCCAGTGAAATAATACCGAGCCTCA-AGCCTAGCAGGCTATAATACTAGTGA
*
42754842 AATAATATCAGGCTTCGAACCT
65 AATAATATCAGGCCTCGAACCT
* * *
42754864 AGTAGGCGA-AATGCTAGTGAA
1 AGCAGGCTATAATGCCAGTGAA
42754885 TGAAATCAGA
Statistics
Matches: 94, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
85 12 0.13
86 80 0.85
87 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.22
Consensus pattern (86 bp):
AGCAGGCTATAATGCCAGTGAAATAATACCGAGCCTCAAGCCTAGCAGGCTATAATACTAGTGAA
ATAATATCAGGCCTCGAACCT
Found at i:42767981 original size:55 final size:55
Alignment explanation
Indices: 42767854--42767981 Score: 130
Period size: 55 Copynumber: 2.3 Consensus size: 55
42767844 GTCGTGGGTG
* * * ** *
42767854 AACCTGCCAAAACAACACGGGTGTCCGACACGCTCGTGCCTTGAAACCATGGCCG
1 AACCTGCCAAAACAACACGGGCGTCCGACACGCCCATGCCAAGAAACCATGGCCA
** ** ** * *
42767909 AACCTATCAAATTAACACGGGCGTGGGACACGCCCATGCCAAGAAACCGTGGGCA
1 AACCTGCCAAAACAACACGGGCGTCCGACACGCCCATGCCAAGAAACCATGGCCA
42767964 AACCTGCCAAAACAACAC
1 AACCTGCCAAAACAACAC
42767982 CGGTGTGGAC
Statistics
Matches: 55, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.33, C:0.33, G:0.22, T:0.12
Consensus pattern (55 bp):
AACCTGCCAAAACAACACGGGCGTCCGACACGCCCATGCCAAGAAACCATGGCCA
Found at i:42770013 original size:14 final size:14
Alignment explanation
Indices: 42769991--42770022 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
42769981 GTTTAAAATT
42769991 TTTTAT-TTTTT-A
1 TTTTATGTTTTTAA
42770003 TTTTATGTTTTTAA
1 TTTTATGTTTTTAA
42770017 TTTTAT
1 TTTTAT
42770023 TTTATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 5 0.28
14 7 0.39
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (14 bp):
TTTTATGTTTTTAA
Found at i:42780507 original size:998 final size:1000
Alignment explanation
Indices: 42778571--42780563 Score: 3461
Period size: 998 Copynumber: 2.0 Consensus size: 1000
42778561 TCTAAAAGTG
*
42778571 GTTTTAGGCACATTCGACTCTTTAACTCACAACTGATAGTAGTCGGACCTCAAGTCTATTTTAGA
1 GTTTTAGGCACATTCGACTCTTTAACTCACAACTGATAGTAGCCGGACCTCAAGTCTATTTTAGA
42778636 AAACCTTAACACTCTTTTCAATTGATCAAACAAGTCATCAATCCTTGGCAAGGGATACTTGTTCT
66 AAACCTTAACACTCTTTTCAATTGATCAAACAAGTCATCAATCCTTGGCAAGGGATACTTGTTCT
* *
42778701 TGTTCGTTATCTTATTGAGTTGTCGGTAGTCTATACACAACCTCATAAAACCCTCTTTCTTTTTT
131 TGATCGTTATCTTATTGAGTTGTCGGTAGTCTATACACAACCTCATAAAACCATCTTTCTTTTTT
* * * *
42778766 CATGAATAATATCGGAGCACCCCACGATGAAAATCTTGGTCTCACAAAACCCTTGTCAGTCAATT
196 CACGAATAATACCGGAGCACCCCACGATGAAAAGCTCGGTCTCACAAAACCCTTGTCAGTCAATT
* *
42778831 CTTGCAACTGTGACTTCAGTTCTTTCAACTCAGTCGAAGCCATCCTATACAGAGCAATCGAAATA
261 CTTACAACTGTGACTTCAGGTCTTTCAACTCAGTCGAAGCCATCCTATACAGAGCAATCGAAATA
* * * * *
42778896 GGTTTCGTCCTTAGCATTACATCAATACCAAATTCCACTTCTCTAATTGGAGGTAAACCTGGCAA
326 GGTTCCATCCCTAGCATTACATCAATACCAAATTCCACTTCTCTAATTAGAGGTAAACCTAGCAA
42778961 TTCTTCTGAAAATACATCCAAATATTCACATACAACAGGCACTGATTCAATTCTCAATTCAGACT
391 TTCTTCTGAAAATACATCCAAATATTCACATACAACAGGCACTGATTCAATTCTCAATTCAGACT
** * *
42779026 CTTTTGTATTCAACACATAGGCCAAATAAGTCTCACACCCTTTTCTCATACGTTTCTGAGCAGAC
456 CTTTTGTATTCAACACATAAACCAAATAAGTCTCACACCCTTTTCCCATACATTTCTGAGCAGAC
* * *
42779091 ATCAAAGAAATCACGATTGGCAACCTATCTGACTCATCTAATTCAGCCCGGAGAATTTCACCATT
521 ATCAAAGAAATCACGATTGGCAACCTATCTAACTCATCTAATTCAACCCAGAGAATTTCACCATT
*
42779156 TTCACATTTCAATTCAATAACTTTTTGTCTACAATTTACTACAGCATCATGAAGTGTCAACCAAT
586 TTCACATTTCAATTCAATAACTTTTTATCTACAATTTACTACAGCATCATGAAGTGTCAACCAAT
* * *
42779221 CCATTCCCAATATAACATCAAACTCATCAAGCGGTAATAACATCAAGTCAGCCGAAAAACAATGG
651 CCATTCCCAATATAACATCAAACTCATCAAGCGGCAATAACATCAAGTCAACCGAAAAACAATGA
* *
42779286 CCTCTAATCATCAAGGGACATTTCTTGCATACTCTATCAACTAAAACATGCTTGCCTAACGGTTT
716 CCTCTAATCATCAAGGGACATTTCTTGCATACCCTATCAACTAAAACATGCTTGCCTAACGGGTT
*
42779351 TAACACTTTAATCATAAATTCTATAGACTCAACATACATATTCATGCTAGATACCAATTTAATGC
781 TAACACTTTAATCATAAATTCTATAGACTCAACAGACATATTCATGCTAGATACCAATTTAATGC
*
42779416 ACACATATGAATGAGTAAAACCAGGGTCAATCAAGGCAATAACAGTAATATCATAAAGAGAAAAA
846 ACACATATGAATGAGTAAAACCAGGGTCAATCAAGGCAATAACAATAATATCATAAAGAGAAAAA
* *
42779481 GTACTAATGATCACATTGGGAGAAGATGCATCTTCACGCGCATGTATGACATAGGCCCTAGCCTG
911 GTACCAATGATCACATTGGGAGAAGATGCATCTTCACGCGCACGTATGACATAGGCCCTAGCCTG
*
42779546 AGCTCTAGCTTTAAATCTCATAGTA
976 AGCTCTAGCTTCAAATCTCATAGTA
* * *
42779571 GTTTTAGGCACATTTGACTCTTTAGCTCGCAACTGATAGTAGCCGGACCTCAAGTCTATTTTAGA
1 GTTTTAGGCACATTCGACTCTTTAACTCACAACTGATAGTAGCCGGACCTCAAGTCTATTTTAGA
* *
42779636 AAACCTTGACGCTCTTTTCAATTGATCAAACAAGTCATCAATCCTTGGCAAGGGATACTTGTTCT
66 AAACCTTAACACTCTTTTCAATTGATCAAACAAGTCATCAATCCTTGGCAAGGGATACTTGTTCT
42779701 TGATCGTTATCTTATTGAGTTGTCGGTAGTCTATACACAACCTCATAAAACCATCTTTC-TTTTT
131 TGATCGTTATCTTATTGAGTTGTCGGTAGTCTATACACAACCTCATAAAACCATCTTTCTTTTTT
*
42779765 CACGAATAATACCGGAGCACCCCACGGTGAAAAGCTCGGTCTCACAAAACCCTTGTCAGTCAATT
196 CACGAATAATACCGGAGCACCCCACGATGAAAAGCTCGGTCTCACAAAACCCTTGTCAGTCAATT
* ** * * *
42779830 CTTACAACTGTGACTTCAGGTCTTTCAACTTAGTCGGGGCCATCTTATACGGA-CAATTGAAATA
261 CTTACAACTGTGACTTCAGGTCTTTCAACTCAGTCGAAGCCATCCTATACAGAGCAATCGAAATA
*
42779894 GGTTCCATCCCTGGCATTACATCAATACCAAATTCCACTTCTCTAATTAGAGGTAAACCTAGCAA
326 GGTTCCATCCCTAGCATTACATCAATACCAAATTCCACTTCTCTAATTAGAGGTAAACCTAGCAA
42779959 TTCTTCTGAAAATACATCCAAATATTCACATACAACAGGCACTGATTCAATTCTCAATTCAGACT
391 TTCTTCTGAAAATACATCCAAATATTCACATACAACAGGCACTGATTCAATTCTCAATTCAGACT
*
42780024 CTTTTGTATTCAGCACATAAACCAAATAAG-CGTCACACCCTTTTCCCATACATTTCTGAGCAGA
456 CTTTTGTATTCAACACATAAACCAAATAAGTC-TCACACCCTTTTCCCATACATTTCTGAGCAGA
*
42780088 CATCGAAGAAATCACGATTGGCAACCTATCTAACTCATCTAATTCAACCCAGAGAATTTCACCAT
520 CATCAAAGAAATCACGATTGGCAACCTATCTAACTCATCTAATTCAACCCAGAGAATTTCACCAT
42780153 TTTCACATTTCAATTCAATAACTTTTTATCTACAATTTACTACAGCATCATGAAGTGTCAACCAA
585 TTTCACATTTCAATTCAATAACTTTTTATCTACAATTTACTACAGCATCATGAAGTGTCAACCAA
42780218 TCCATTCCCAATATAACATCAAACTCATCAAGCGGCAATAACATCAAGTCAACCGAAAAACAATG
650 TCCATTCCCAATATAACATCAAACTCATCAAGCGGCAATAACATCAAGTCAACCGAAAAACAATG
*
42780283 ACCTCTAATCATCAAGGGACATTTCTTGCATACCCTATCAACTAAAACATGCTTTCCTAACGGGT
715 ACCTCTAATCATCAAGGGACATTTCTTGCATACCCTATCAACTAAAACATGCTTGCCTAACGGGT
* ** *
42780348 TTGACACTTTAATCATAAATTCTATAGACTCAACAGGTATATTCATGCTAGATACCAATTTGATG
780 TTAACACTTTAATCATAAATTCTATAGACTCAACAGACATATTCATGCTAGATACCAATTTAATG
*
42780413 CACACATATGAATGAGTAAAACCAGGGTCAATCAAGGCAATAACAATAATATCATAAAGAGGAAA
845 CACACATATGAATGAGTAAAACCAGGGTCAATCAAGGCAATAACAATAATATCATAAAGAGAAAA
* *
42780478 AGTACCAGTGATCACATTGGGAGAAGATGCATCTTCACGCGCACGTATGACATAGGCCCTAGCTT
910 AGTACCAATGATCACATTGGGAGAAGATGCATCTTCACGCGCACGTATGACATAGGCCCTAGCCT
42780543 GAGCTCTAGCTTCAAATCTCA
975 GAGCTCTAGCTTCAAATCTCA
42780564 CAGTTGTATC
Statistics
Matches: 937, Mismatches: 55, Indels: 4
0.94 0.06 0.00
Matches are distributed among these distances:
997 1 0.00
998 644 0.69
999 111 0.12
1000 181 0.19
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (1000 bp):
GTTTTAGGCACATTCGACTCTTTAACTCACAACTGATAGTAGCCGGACCTCAAGTCTATTTTAGA
AAACCTTAACACTCTTTTCAATTGATCAAACAAGTCATCAATCCTTGGCAAGGGATACTTGTTCT
TGATCGTTATCTTATTGAGTTGTCGGTAGTCTATACACAACCTCATAAAACCATCTTTCTTTTTT
CACGAATAATACCGGAGCACCCCACGATGAAAAGCTCGGTCTCACAAAACCCTTGTCAGTCAATT
CTTACAACTGTGACTTCAGGTCTTTCAACTCAGTCGAAGCCATCCTATACAGAGCAATCGAAATA
GGTTCCATCCCTAGCATTACATCAATACCAAATTCCACTTCTCTAATTAGAGGTAAACCTAGCAA
TTCTTCTGAAAATACATCCAAATATTCACATACAACAGGCACTGATTCAATTCTCAATTCAGACT
CTTTTGTATTCAACACATAAACCAAATAAGTCTCACACCCTTTTCCCATACATTTCTGAGCAGAC
ATCAAAGAAATCACGATTGGCAACCTATCTAACTCATCTAATTCAACCCAGAGAATTTCACCATT
TTCACATTTCAATTCAATAACTTTTTATCTACAATTTACTACAGCATCATGAAGTGTCAACCAAT
CCATTCCCAATATAACATCAAACTCATCAAGCGGCAATAACATCAAGTCAACCGAAAAACAATGA
CCTCTAATCATCAAGGGACATTTCTTGCATACCCTATCAACTAAAACATGCTTGCCTAACGGGTT
TAACACTTTAATCATAAATTCTATAGACTCAACAGACATATTCATGCTAGATACCAATTTAATGC
ACACATATGAATGAGTAAAACCAGGGTCAATCAAGGCAATAACAATAATATCATAAAGAGAAAAA
GTACCAATGATCACATTGGGAGAAGATGCATCTTCACGCGCACGTATGACATAGGCCCTAGCCTG
AGCTCTAGCTTCAAATCTCATAGTA
Found at i:42782198 original size:18 final size:18
Alignment explanation
Indices: 42782175--42782217 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
42782165 ATGTGCGTAA
42782175 GCCGTGTGGTCACACACG
1 GCCGTGTGGTCACACACG
42782193 GCCGTGTGGTCACACACG
1 GCCGTGTGGTCACACACG
*
42782211 CCCGTGT
1 GCCGTGT
42782218 CCTCAGCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.14, C:0.35, G:0.33, T:0.19
Consensus pattern (18 bp):
GCCGTGTGGTCACACACG
Found at i:42786056 original size:46 final size:45
Alignment explanation
Indices: 42785987--42786076 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
42785977 GCCACAAAAA
* *
42785987 TTAGCGGCATTTTTTAGAAAAAAAGCGCCGCTAAAGACAAGGACCT
1 TTAGCAGCATTTTATAGAAAAAAA-CGCCGCTAAAGACAAGGACCT
*
42786033 TTAGCAGCACTTTTATA-AAAAAAACGCCGCTAAAGACCAGGACC
1 TTAGCAGCA-TTTTATAGAAAAAAACGCCGCTAAAGACAAGGACC
42786077 ACTTGGGGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
45 19 0.47
46 15 0.38
47 6 0.15
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (45 bp):
TTAGCAGCATTTTATAGAAAAAAACGCCGCTAAAGACAAGGACCT
Found at i:42787018 original size:15 final size:15
Alignment explanation
Indices: 42786998--42787029 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
42786988 AAATAATAAT
*
42786998 TTATATATATTTATC
1 TTATATACATTTATC
42787013 TTATATACATTTATC
1 TTATATACATTTATC
42787028 TT
1 TT
42787030 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:42788160 original size:40 final size:40
Alignment explanation
Indices: 42788065--42788201 Score: 220
Period size: 40 Copynumber: 3.4 Consensus size: 40
42788055 GTTATATGAC
*
42788065 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCT-GT
* * * *
42788106 TTTTAGCAGCGTTTTACCAAAAGCACCACTATTGCTCTAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGT
42788146 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGT
42788186 TTTTAGCGGCGTTTTA
1 TTTTAGCGGCGTTTTA
42788202 GTAAAAAACG
Statistics
Matches: 87, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 53 0.61
41 34 0.39
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGT
Found at i:42789963 original size:72 final size:72
Alignment explanation
Indices: 42789878--42790024 Score: 267
Period size: 72 Copynumber: 2.0 Consensus size: 72
42789868 TGTAACCTTC
* *
42789878 AAATATCTTTTAATTTTTATTATTAAATTTTGAATGGTGTTATTCTTTTAAAATAATTTTAGAAA
1 AAATATCTTTTAATTTATATTATTAAAATTTGAATGGTGTTATTCTTTTAAAATAATTTTAGAAA
42789943 ACTTTTT
66 ACTTTTT
*
42789950 AAATATCTTTTAATTTATATTATTAAAATTTGAATGGTGTTATTCTTTTAAAATAATTTTAGAAT
1 AAATATCTTTTAATTTATATTATTAAAATTTGAATGGTGTTATTCTTTTAAAATAATTTTAGAAA
42790015 ACTTTTT
66 ACTTTTT
42790022 AAA
1 AAA
42790025 GAGGCCAATT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (72 bp):
AAATATCTTTTAATTTATATTATTAAAATTTGAATGGTGTTATTCTTTTAAAATAATTTTAGAAA
ACTTTTT
Found at i:42792868 original size:94 final size:94
Alignment explanation
Indices: 42792769--42793059 Score: 239
Period size: 94 Copynumber: 3.1 Consensus size: 94
42792759 TTCTATTACC
* * * ** * * *
42792769 ACCTTCCGTAAGCCTTCTCCCATGTGTCTTGGAGCAAGGCCACTTTATGATCTTTCATAAG-CTC
1 ACCTTCCATAAACCTCCTCCCATGCATCTAGGAGCAAGGCCACTTTATGACCTTCCATAAGCCTC
* * * *
42792833 CTCCCTATGTGCAAGAGTAGGGCCATTATT
66 C-CCCTATATGCAAGAGCAAGACCATTATT
* *
42792863 ACCTTCCATAAACCTCCTCCCATGCATCTAGGAGCAAGGCCACTTTATTACCTTCCGTAAGCCTC
1 ACCTTCCATAAACCTCCTCCCATGCATCTAGGAGCAAGGCCACTTTATGACCTTCCATAAGCCTC
*
42792928 CCCCTATATGCAGGAGCAAGACCATTATT
66 CCCCTATATGCAAGAGCAAGACCATTATT
**** ** * * * * * *
42792957 ACCTTTTGCAAGTCTCCTCCCATGCGTTTGGGAGCAGGGCCA--TTACT-ACCTTCCGTAAGTCT
1 ACCTTCCATAAACCTCCTCCCATGCATCTAGGAGCAAGGCCACTTTA-TGACCTTCCATAAGCCT
* * * * *
42793019 CCCCTTATGTACGAGAGCAATACCATTATT
65 CCCCCTATATGCAAGAGCAAGACCATTATT
*
42793049 ACCTTTCATAA
1 ACCTTCCATAA
42793060 GCTTCCTCTT
Statistics
Matches: 160, Mismatches: 35, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
92 49 0.31
93 1 0.01
94 106 0.66
95 4 0.03
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (94 bp):
ACCTTCCATAAACCTCCTCCCATGCATCTAGGAGCAAGGCCACTTTATGACCTTCCATAAGCCTC
CCCCTATATGCAAGAGCAAGACCATTATT
Found at i:42792914 original size:49 final size:49
Alignment explanation
Indices: 42792723--42793020 Score: 172
Period size: 47 Copynumber: 6.3 Consensus size: 49
42792713 ACCACTATTT
* * ** **
42792723 TTCCATAAGCCTCC-CCCATTCGTCTAGGAGCAGGGCTTCTATTACCACC
1 TTCCATAAGCCTCCTCCCATGCGTCTAGGAGCAAGGCCACT-TTATTACC
* * * * * *
42792772 TTCCGTAAGCCTTCTCCCATGTGTCTTGGAGCAAGGCCACTTTATGATC
1 TTCCATAAGCCTCCTCCCATGCGTCTAGGAGCAAGGCCACTTTATTACC
* * * * *
42792821 TTTCATAAG-CTCCTCCCTATGTG-C-AAGAGTAGGGCCA--TTATTACC
1 TTCCATAAGCCTCCTCCC-ATGCGTCTAGGAGCAAGGCCACTTTATTACC
* *
42792866 TTCCATAAACCTCCTCCCATGCATCTAGGAGCAAGGCCACTTTATTACC
1 TTCCATAAGCCTCCTCCCATGCGTCTAGGAGCAAGGCCACTTTATTACC
* ** *
42792915 TTCCGTAAGCCTCC-CCCTATATG-C-AGGAGCAAGACCA--TTATTACC
1 TTCCATAAGCCTCCTCCC-ATGCGTCTAGGAGCAAGGCCACTTTATTACC
**** * * * * *
42792960 TTTTGCAAGTCTCCTCCCATGCGTTTGGGAGCAGGGCCA--TTACTACC
1 TTCCATAAGCCTCCTCCCATGCGTCTAGGAGCAAGGCCACTTTATTACC
* *
42793007 TTCCGTAAGTCTCC
1 TTCCATAAGCCTCC
42793021 CCTTATGTAC
Statistics
Matches: 191, Mismatches: 47, Indels: 24
0.73 0.18 0.09
Matches are distributed among these distances:
45 37 0.19
46 12 0.06
47 59 0.31
48 12 0.06
49 51 0.27
50 20 0.10
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.29
Consensus pattern (49 bp):
TTCCATAAGCCTCCTCCCATGCGTCTAGGAGCAAGGCCACTTTATTACC
Found at i:42793017 original size:47 final size:47
Alignment explanation
Indices: 42792853--42793235 Score: 156
Period size: 47 Copynumber: 8.3 Consensus size: 47
42792843 GCAAGAGTAG
* * * *
42792853 GGCCATTATTACCTTCCATAAACCTCCTCCCATGCATCTAGGAGCAA
1 GGCCATTATTACCTTCCGTAAGCCTCCTCCCATGCATATGGGAGCAA
42792900 GGCCACTTTATTACCTTCCGTAAGCCTCC-CCC-T--ATATGCAGGAGCAA
1 GGCCA--TTATTACCTTCCGTAAGCCTCCTCCCATGCATATG--GGAGCAA
* ** * * * * *
42792947 GACCATTATTACCTTTTGCAAGTCTCCTCCCATGCGTTTGGGAGCAG
1 GGCCATTATTACCTTCCGTAAGCCTCCTCCCATGCATATGGGAGCAA
* * * * *
42792994 GGCCATTACTACCTTCCGTAAGTCTCC-CCTTATG--TACGAGAGCAA
1 GGCCATTATTACCTTCCGTAAGCCTCCTCC-CATGCATATGGGAGCAA
** * * * ** * *
42793039 TACCATTATTACCTTTCATAAGCTTCCTCTTATG--TACGAGAGCAA
1 GGCCATTATTACCTTCCGTAAGCCTCCTCCCATGCATATGGGAGCAA
* ** * *
42793084 TGCCACTTTATTACCTTTTGAAAGCCTCC-CCCATG--TACGGGAG-AA
1 GGCCA--TTATTACCTTCCGTAAGCCTCCTCCCATGCATATGGGAGCAA
* * * * *
42793129 GGGTCATATTATTACCATT-CGTAGGCCTCCCCCCATG--TGTAGGAGCAA
1 -GG-C-CATTATTACC-TTCCGTAAGCCTCCTCCCATGCATATGGGAGCAA
* * * * *
42793177 AGTCATTATTACCTTCCATAA-CCTCCTCCTATG--TGTGGGAGCAA
1 GGCCATTATTACCTTCCGTAAGCCTCCTCCCATGCATATGGGAGCAA
*
42793221 AGCCATTATTACCTT
1 GGCCATTATTACCTT
42793236 GTACACCTCC
Statistics
Matches: 262, Mismatches: 55, Indels: 41
0.73 0.15 0.11
Matches are distributed among these distances:
44 36 0.14
45 81 0.31
46 34 0.13
47 82 0.31
48 6 0.02
49 23 0.09
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.30
Consensus pattern (47 bp):
GGCCATTATTACCTTCCGTAAGCCTCCTCCCATGCATATGGGAGCAA
Found at i:42793050 original size:92 final size:93
Alignment explanation
Indices: 42792876--42793054 Score: 238
Period size: 92 Copynumber: 1.9 Consensus size: 93
42792866 TTCCATAAAC
*
42792876 CTCCTCCCATGCATCTAGGAGCAAGGCCACTTTATTACCTTCCGTAAGCCTCCCCCTATATGCAG
1 CTCCTCCCATGCATCTAGGAGCAAGGCCAC-TTACTACCTTCCGTAAGCCTCCCCCTATATGCAG
42792941 GAGCAAGACCATTATTACCTTTTGCAAGT
65 GAGCAAGACCATTATTACCTTTTGCAAGT
* * * * * *
42792970 CTCCTCCCATGCGTTTGGGAGCAGGGCCA-TTACTACCTTCCGTAAGTCT-CCCCT-TATGTACG
1 CTCCTCCCATGCATCTAGGAGCAAGGCCACTTACTACCTTCCGTAAGCCTCCCCCTATATGCA-G
*
42793032 AGAGCAATACCATTATTACCTTT
65 -GAGCAAGACCATTATTACCTTT
42793055 CATAAGCTTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
90 5 0.07
91 6 0.08
92 39 0.52
94 25 0.33
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (93 bp):
CTCCTCCCATGCATCTAGGAGCAAGGCCACTTACTACCTTCCGTAAGCCTCCCCCTATATGCAGG
AGCAAGACCATTATTACCTTTTGCAAGT
Found at i:42793052 original size:45 final size:45
Alignment explanation
Indices: 42792996--42793100 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 45
42792986 GGGAGCAGGG
* *
42792996 CCATTACTACCTTCCGTAAG-TCTCCCCTTATGTACGAGAGCAATA
1 CCATTATTACCTTCCATAAGCT-TCCCCTTATGTACGAGAGCAATA
* * *
42793041 CCATTATTACCTTTCATAAGCTTCCTCTTATGTACGAGAGCAATG
1 CCATTATTACCTTCCATAAGCTTCCCCTTATGTACGAGAGCAATA
42793086 CCACTTTATTACCTT
1 CCA--TTATTACCTT
42793101 TTGAAAGCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
45 41 0.79
46 1 0.02
47 10 0.19
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (45 bp):
CCATTATTACCTTCCATAAGCTTCCCCTTATGTACGAGAGCAATA
Found at i:42793099 original size:92 final size:93
Alignment explanation
Indices: 42792800--42793115 Score: 225
Period size: 94 Copynumber: 3.4 Consensus size: 93
42792790 ATGTGTCTTG
* * * * * * * * *
42792800 GAGCAAGGCCACTTTATGATCTTTCATAAG-CTCCTCCCTATGTGCAAGAGTAGGGCCATTATTA
1 GAGCAAGGCCACTTTATTACCTTCCGTAAGCCTCC-CCCTATATGCAGGAGCAAGACCATTATTA
* * ** * *
42792864 CCTTCCATAAACCTCCTCCCAT-GCATCTA
65 CCTTTCACAAGTCTCCTCCCATCGTA-CGA
42792893 GGAGCAAGGCCACTTTATTACCTTCCGTAAGCCTCCCCCTATATGCAGGAGCAAGACCATTATTA
1 -GAGCAAGGCCACTTTATTACCTTCCGTAAGCCTCCCCCTATATGCAGGAGCAAGACCATTATTA
** ** *
42792958 CCTTTTGCAAGTCTCCTCCCATGCGTTTGG
65 CCTTTCACAAGTCTCCTCCCAT-CGTACGA
* * * * *
42792988 GAGCAGGGCCA--TTACTACCTTCCGTAAGTCT-CCCCT-TATGTACGAGAGCAATACCATTATT
1 GAGCAAGGCCACTTTATTACCTTCCGTAAGCCTCCCCCTATATGCA-G-GAGCAAGACCATTATT
* **
42793049 ACCTTTCATAAG-CTTCCTCTTAT-GTACGA
64 ACCTTTCACAAGTC-TCCTCCCATCGTACGA
* ** *
42793078 GAGCAATGCCACTTTATTACCTTTTGAAAGCCTCCCCC
1 GAGCAAGGCCACTTTATTACCTTCCGTAAGCCTCCCCC
42793116 ATGTACGGGA
Statistics
Matches: 173, Mismatches: 40, Indels: 19
0.75 0.17 0.08
Matches are distributed among these distances:
90 17 0.10
91 7 0.04
92 64 0.37
93 4 0.02
94 76 0.44
95 4 0.02
96 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.29
Consensus pattern (93 bp):
GAGCAAGGCCACTTTATTACCTTCCGTAAGCCTCCCCCTATATGCAGGAGCAAGACCATTATTAC
CTTTCACAAGTCTCCTCCCATCGTACGA
Found at i:42793249 original size:44 final size:43
Alignment explanation
Indices: 42793136--42793263 Score: 134
Period size: 44 Copynumber: 2.9 Consensus size: 43
42793126 GAAGGGTCAT
* * *
42793136 ATTATTACCATTCGTAGGCCTCCCCCCATGTGTAGGAGCAAAGTC
1 ATTATTACC-TTCGTA-ACCTCCCTCCATGTGTAGGAGCAAAGCC
* *
42793181 ATTATTACCTTCCATAACCT-CCTCCTATGTGTGGGAGCAAAGCC
1 ATTATTACCTT-CGTAACCTCCCTCC-ATGTGTAGGAGCAAAGCC
**
42793225 ATTATTACCTT-GTACACCTCCCTCCATGTACAGGAGCAA
1 ATTATTACCTTCGTA-ACCTCCCTCCATGTGTAGGAGCAA
42793264 TGCCGCTTTA
Statistics
Matches: 70, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
42 2 0.03
43 19 0.27
44 37 0.53
45 12 0.17
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (43 bp):
ATTATTACCTTCGTAACCTCCCTCCATGTGTAGGAGCAAAGCC
Found at i:42796111 original size:28 final size:28
Alignment explanation
Indices: 42796074--42796130 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
42796064 AGTACTTTAA
* *
42796074 ATTAAGTTTTAAT-TAGATATTATTTATT
1 ATTAAATTTTAATAT-GATATTAATTATT
*
42796102 ATTAAATTTTTATATGATATTAATTATT
1 ATTAAATTTTAATATGATATTAATTATT
42796130 A
1 A
42796131 CAAAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (28 bp):
ATTAAATTTTAATATGATATTAATTATT
Found at i:42796333 original size:22 final size:23
Alignment explanation
Indices: 42796305--42796348 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
42796295 CCAAACATCA
*
42796305 AAAAAATATAAT-TTTTTTCTAT
1 AAAAAATATAATCTATTTTCTAT
*
42796327 AAAAAATTTAATCTATTTTCTA
1 AAAAAATATAATCTATTTTCTA
42796349 GAAATTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (23 bp):
AAAAAATATAATCTATTTTCTAT
Found at i:42800356 original size:50 final size:50
Alignment explanation
Indices: 42800298--42800581 Score: 307
Period size: 50 Copynumber: 5.8 Consensus size: 50
42800288 TGATGTTAGA
*
42800298 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTT
1 GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTT
* *
42800348 GAGATATGAGAGCTAGTGTAAG-CCTATGTCTGGGACTTGGCATCGA-CTT
1 GAGATATGAGAGCCAGTGTAAGACC-ATGTCTGGGACATGGCATCGACCTT
* * *
42800397 --GATAT-A-TGCCAGTGTAAGACCATGTCTGGGACATGGCATC-AGCATC
1 GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CCTT
* * * * * **
42800443 GATAGATGAGAACCAGTGTAAGACCATGTCTGGGATATGGCATTGACCCC
1 GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTT
* *
42800493 GATATATGAGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTT
1 GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTT
* * * * *
42800542 -TGATGTGTGAGCCAGTGTGAGACCATGTCCGGGACATGGC
1 GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGC
42800582 GTCGGTACAT
Statistics
Matches: 197, Mismatches: 28, Indels: 20
0.80 0.11 0.08
Matches are distributed among these distances:
44 1 0.01
45 28 0.14
46 4 0.02
47 5 0.03
48 36 0.18
49 7 0.04
50 115 0.58
51 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (50 bp):
GAGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTT
Found at i:42800475 original size:95 final size:97
Alignment explanation
Indices: 42800312--42800539 Score: 277
Period size: 95 Copynumber: 2.3 Consensus size: 97
42800302 TATGAGAGCT
* * * * *
42800312 AGTGTAAGACCATGTCTGGGACATGGCATCGACCTTGAGATATGAGAGCTAGTGTAAGCCTATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATCGAGAGATGAGAACCAGTGTAAGCCTATGT
**
42800377 CTGGGACT-TGGCATCGA-CTTGATATAT-GCC
66 CTGGGA-TATGGCATCGACCCCGATATATAGCC
*
42800407 AGTGTAAGACCATGTCTGGGACATGGCATC-AGCATCGATAGATGAGAACCAGTGTAAGACC-AT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CATCGAGAGATGAGAACCAGTGTAAG-CCTAT
* *
42800470 GTCTGGGATATGGCATTGACCCCGATATATGAGAGTC
64 GTCTGGGATATGGCATCGACCCCGATATAT---AGCC
42800507 AGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC
42800540 TTTGATGTGT
Statistics
Matches: 114, Mismatches: 10, Indels: 13
0.83 0.07 0.09
Matches are distributed among these distances:
94 2 0.02
95 68 0.60
96 10 0.09
100 33 0.29
101 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (97 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACATCGAGAGATGAGAACCAGTGTAAGCCTATGT
CTGGGATATGGCATCGACCCCGATATATAGCC
Found at i:42816641 original size:39 final size:39
Alignment explanation
Indices: 42816598--42816672 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
42816588 AGTTAAATTT
42816598 ATATCAGGTTACCCGTTCAG-GCCAAACCTATATCATGAC
1 ATATCAGGTTACCCG-TCAGAGCCAAACCTATATCATGAC
* * *
42816637 ATATCAGGTTACTCGTCTGAGCTAAACCTATATCAT
1 ATATCAGGTTACCCGTCAGAGCCAAACCTATATCAT
42816673 ACAATACTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 3 0.09
39 29 0.91
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (39 bp):
ATATCAGGTTACCCGTCAGAGCCAAACCTATATCATGAC
Found at i:42821393 original size:32 final size:32
Alignment explanation
Indices: 42821348--42821422 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 32
42821338 TACCAAACTC
* *
42821348 TGTGGTCCACACAGTCTGGGTTGTTTAGGCTT-
1 TGTGGGCCACACAGTCTGGGTCGTTT-GGCTTG
* *
42821380 TGTGGGCCTCACAGTCTGGGTCGTTTGGGTTG
1 TGTGGGCCACACAGTCTGGGTCGTTTGGCTTG
42821412 TGTGGGCCACA
1 TGTGGGCCACA
42821423 GGAGCATGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 4 0.11
32 33 0.89
ACGTcount: A:0.11, C:0.20, G:0.36, T:0.33
Consensus pattern (32 bp):
TGTGGGCCACACAGTCTGGGTCGTTTGGCTTG
Found at i:42822173 original size:20 final size:20
Alignment explanation
Indices: 42822148--42822189 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
42822138 GTAGGAAGTT
*
42822148 TTTTTTTTGAAAA-ATCTGCA
1 TTTTTTCTGAAAATAT-TGCA
42822168 TTTTTTCTGAAAATATTGCA
1 TTTTTTCTGAAAATATTGCA
42822188 TT
1 TT
42822190 AACATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (20 bp):
TTTTTTCTGAAAATATTGCA
Found at i:42823709 original size:18 final size:17
Alignment explanation
Indices: 42823686--42823723 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
42823676 TATAAAACAC
42823686 AAAAAAAATCCTTTAAGT
1 AAAAAAAAT-CTTTAAGT
*
42823704 AAAAAAAATCTTTAATT
1 AAAAAAAATCTTTAAGT
42823721 AAA
1 AAA
42823724 TTCAGTTCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.29
Consensus pattern (17 bp):
AAAAAAAATCTTTAAGT
Found at i:42836930 original size:44 final size:44
Alignment explanation
Indices: 42836868--42837026 Score: 164
Period size: 44 Copynumber: 3.6 Consensus size: 44
42836858 TGATATTTCG
* * * *
42836868 TGTAAAACTACGTATGGGACGTTGGCATCGACTTATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTACA
* * *
42836912 TGTAAGACCACATCTGGGACATTGACATCGACTTATGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTACA
* * * *
42836956 TGTAAGACTC-TGTCTAGGATAG-TGGCATCGA-TATTTGA-TTACA
1 TGTAAGAC-CACGTCTGGGA-CGTTGGCATCGACT-TATGATTTACA
42836999 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
42837027 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
42 2 0.02
43 27 0.29
44 63 0.68
45 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTACA
Found at i:42843859 original size:34 final size:35
Alignment explanation
Indices: 42843813--42843879 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
42843803 ACCAAAGTGC
*
42843813 AATCAGGAGCACGAGTGTGCAATCA-GGGCACCGA
1 AATCAGGAGCACGAATGTGCAATCAGGGGCACCGA
* *
42843847 AATCAGGGGCACGAATGTGCTATCAGGGGCACC
1 AATCAGGAGCACGAATGTGCAATCAGGGGCACC
42843880 AAAGTGCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 22 0.76
35 7 0.24
ACGTcount: A:0.30, C:0.24, G:0.33, T:0.13
Consensus pattern (35 bp):
AATCAGGAGCACGAATGTGCAATCAGGGGCACCGA
Found at i:42843873 original size:20 final size:19
Alignment explanation
Indices: 42843848--42843908 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 19
42843838 GGGCACCGAA
42843848 ATCAGGGGCACGAATGTGC
1 ATCAGGGGCACGAATGTGC
* *
42843867 TATCAGGGGCACCAAAGTGC
1 -ATCAGGGGCACGAATGTGC
42843887 ATTCAAGGGGCACGAATGTGC
1 A-TC-AGGGGCACGAATGTGC
42843908 A
1 A
42843909 AATAGGGACA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.03
20 19 0.54
21 15 0.43
ACGTcount: A:0.30, C:0.21, G:0.33, T:0.16
Consensus pattern (19 bp):
ATCAGGGGCACGAATGTGC
Found at i:42843897 original size:21 final size:22
Alignment explanation
Indices: 42843870--42843940 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 22
42843860 AATGTGCTAT
42843870 CAGGGGCACCAAAGTGCATTCA
1 CAGGGGCACCAAAGTGCATTCA
* * *
42843892 -AGGGGCACGAATGTGCA--AA
1 CAGGGGCACCAAAGTGCATTCA
* *
42843911 TAGGGACACCAAAGTG--TTCA
1 CAGGGGCACCAAAGTGCATTCA
42843931 CAGGGGCACC
1 CAGGGGCACC
42843941 GATGTGCAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
19 1 0.03
20 21 0.57
21 15 0.41
ACGTcount: A:0.32, C:0.24, G:0.31, T:0.13
Consensus pattern (22 bp):
CAGGGGCACCAAAGTGCATTCA
Found at i:42843921 original size:41 final size:41
Alignment explanation
Indices: 42843850--42843949 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 41
42843840 GCACCGAAAT
* *
42843850 CAGGGGCACGAATGTGC-TATCAGGGGCACCAAAGTGCATTCA
1 CAGGGGCACGAATGTGCAAATCAGGGACACCAAAGTG--TTCA
42843892 -AGGGGCACGAATGTGCAAAT-AGGGACACCAAAGTGTTCA
1 CAGGGGCACGAATGTGCAAATCAGGGACACCAAAGTGTTCA
42843931 CAGGGGCACCG-ATGTGCAA
1 CAGGGGCA-CGAATGTGCAA
42843950 TGAAAGCACG
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
39 4 0.08
40 15 0.28
41 32 0.60
42 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.32, T:0.15
Consensus pattern (41 bp):
CAGGGGCACGAATGTGCAAATCAGGGACACCAAAGTGTTCA
Found at i:42845204 original size:93 final size:93
Alignment explanation
Indices: 42845045--42845230 Score: 354
Period size: 93 Copynumber: 2.0 Consensus size: 93
42845035 TAATCTTTTT
*
42845045 TTACTTAATTAACTATCTAAACATTATAATTTCTTAACCATATTTTAATATGACCCTCGTATAAC
1 TTACTTAATTAACTATCTAAACATTATAATTTCTTAACCATATTTTAATATGACCCTCATATAAC
42845110 TCTATAAGCATTAATTAAATAAAAAAAC
66 TCTATAAGCATTAATTAAATAAAAAAAC
42845138 TTACTTAATTAACTATCTAAACATTATAATTTCTTAACCATATTTTAATATGACCCTCATATAAC
1 TTACTTAATTAACTATCTAAACATTATAATTTCTTAACCATATTTTAATATGACCCTCATATAAC
*
42845203 TCTATAAGCATTAATTAAATAATAAAAC
66 TCTATAAGCATTAATTAAATAAAAAAAC
42845231 ACTTCACATA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (93 bp):
TTACTTAATTAACTATCTAAACATTATAATTTCTTAACCATATTTTAATATGACCCTCATATAAC
TCTATAAGCATTAATTAAATAAAAAAAC
Found at i:42850002 original size:19 final size:20
Alignment explanation
Indices: 42849980--42850031 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
42849970 ACAAGTGTGT
42849980 AATCAAGGCACCAAA-ATGC
1 AATCAAGGCACCAAATATGC
*
42849999 AATC-AGGGACACAAATATGC
1 AATCAAGGCAC-CAAATATGC
*
42850019 TATCAAAGGCACC
1 AATC-AAGGCACC
42850032 CGAGTGCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 5 0.19
19 8 0.31
20 7 0.27
21 1 0.04
22 5 0.19
ACGTcount: A:0.44, C:0.25, G:0.17, T:0.13
Consensus pattern (20 bp):
AATCAAGGCACCAAATATGC
Found at i:42850024 original size:39 final size:40
Alignment explanation
Indices: 42849950--42850031 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 40
42849940 AAATAGGGGT
* * *
42849950 ACCAAAGTGCAATCAGGAGCACAAGTGTGTAATC-AAGGC
1 ACCAAAATGCAATCAGGAGCACAAATATGTAATCAAAGGC
42849989 ACCAAAATGCAATCAGG-GACACAAATATGCT-ATCAAAGGC
1 ACCAAAATGCAATCAGGAG-CACAAATATG-TAATCAAAGGC
42850029 ACC
1 ACC
42850032 CGAGTGCATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
38 1 0.03
39 27 0.73
40 9 0.24
ACGTcount: A:0.41, C:0.23, G:0.21, T:0.15
Consensus pattern (40 bp):
ACCAAAATGCAATCAGGAGCACAAATATGTAATCAAAGGC
Found at i:42855472 original size:46 final size:47
Alignment explanation
Indices: 42855410--42855728 Score: 366
Period size: 46 Copynumber: 7.0 Consensus size: 47
42855400 TTTGACATGA
* * * * * *
42855410 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* ** * ***
42855456 TTCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*** *** *
42855502 TGCCATGGTATCTTTCAACCATGGTCTTATTTA-TTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
42855548 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGG-
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* *
42855593 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
42855639 TGTCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
42855685 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
42855729 AGAGCACACT
Statistics
Matches: 244, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
45 49 0.20
46 195 0.80
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:42855646 original size:137 final size:137
Alignment explanation
Indices: 42855405--42855728 Score: 416
Period size: 137 Copynumber: 2.4 Consensus size: 137
42855395 TTATCTTTGA
* * * * * * * *
42855405 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTTCCATGGTATCT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCA-GGTGCCATGGTATCT
** * ***
42855469 TTCAACCATGGTCTTATTCATTTCATGTCACACTGCCATGGTATCTTTCAACCATGGTCTTATTT
64 TTCAACCATGGTCTTACACATTTCATATCACACTGCCATGGTATCTTTCAACCATGGTCTTACAC
* *
42855534 ATTTCCCGT
129 ATTTCACAT
*
42855543 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTGCCATGGTATCTTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTGCCATGGTATCTTT
* ** *
42855608 CAACCATGGTCTTACACGTTTCATATCAGGCTGTCATGGTATCTTTCAACCATGGTCTTACACAT
66 CAACCATGGTCTTACACATTTCATATCACACTGCCATGGTATCTTTCAACCATGGTCTTACACAT
*
42855673 TTCATAT
131 TTCACAT
*
42855680 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
42855729 AGAGCACACT
Statistics
Matches: 161, Mismatches: 24, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
137 125 0.78
138 36 0.22
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (137 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTGCCATGGTATCTTT
CAACCATGGTCTTACACATTTCATATCACACTGCCATGGTATCTTTCAACCATGGTCTTACACAT
TTCACAT
Found at i:42863226 original size:10 final size:10
Alignment explanation
Indices: 42863211--42863248 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
42863201 TTATAAAATA
42863211 AAATATTTTT
1 AAATATTTTT
**
42863221 AAATATAGTT
1 AAATATTTTT
42863231 AAATATTTTT
1 AAATATTTTT
42863241 -AATATTTT
1 AAATATTTT
42863249 AAAAATAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (10 bp):
AAATATTTTT
Found at i:42869775 original size:576 final size:575
Alignment explanation
Indices: 42868683--42869784 Score: 2104
Period size: 576 Copynumber: 1.9 Consensus size: 575
42868673 CTTGTTAGAC
42868683 TTGAGACACCTTGACCTCTCCAAAGCTGGATTCGGAGGCTTGGTCCCTAATCAACTTGGAAATCT
1 TTGAGACACCTTGACCTCTCCAAAGCTGGATTCGGAGGCTTGGTCCCTAATCAACTTGGAAATCT
42868748 CTCGAGTTTGGAGTACCTTAATCTTAGAGCAGATATTGAAGATAATCTCTATGTTACCGATCTCC
66 CTCGAGTTTGGAGTACCTTAATCTTAGAGCAGATATTGAAGATAATCTCTATGTTACCGATCTCC
*
42868813 AATGGTTGTCTGGACTTTCACTCGAGCTCATGATACCATTTGTAGGAACAATGGCAGCAGCAAAA
131 AATGGTTGTCTGGACTTTCACTCGA-CTCATGACACCATTTGTAGGAACAATGGCAGCAGCAAAA
42868878 ATCAAACAAAGTTGCAAAACAGAATTTGCAAAACTGAAGCAAGAAGTATCGAAGCAAAAGAAAAC
195 ATCAAACAAAGTTGCAAAACAGAATTTGCAAAACTGAAGCAAGAAGTATCGAAGCAAAAGAAAAC
42868943 AAAGCAAAGCAAAAGCAGTGAACAAAATTGAATACTCAGCAAATTGTAACTGAACATTACCAATT
260 AAAGCAAAGCAAAAGCAGTGAACAAAATTGAATACTCAGCAAATTGTAACTGAACATTACCAATT
42869008 TTCATTCAAAATTTGAATATATAAAAGAGTTACAAATTTTGATTCATTTGACAGTTACCTAATGA
325 TTCATTCAAAATTTGAATATATAAAAGAGTTACAAATTTTGATTCATTTGACAGTTACCTAATGA
42869073 CATAACTGCTCCCACTTAAACTAAACTAATACAAGCTTAAGTCAAATACAAAATAAGCTGACATA
390 CATAACTGCTCCCACTTAAACTAAACTAATACAAGCTTAAGTCAAATACAAAATAAGCTGACATA
42869138 TCAGCTTTTACATCATCAATCCAATCACAAACTTAATCCAACTAACTTTGGAAACTAGTTAAAGT
455 TCAGCTTTTACATCATCAATCCAATCACAAACTTAATCCAACTAACTTTGGAAACTAGTTAAAGT
42869203 TGAACTACGGGTTTGGAGGTATTCCCATTCTCGACTTCATAGGTTCTGTTGAGAGT
520 TGAACTACGGGTTTGGAGGTATTCCCATTCTCGACTTCATAGGTTCTGTTGAGAGT
42869259 TTGAGACACCTTGACCTCTCCAAAGCTGGATTCGGAGGCTTGGTCCCTAATCAACTTGGAAATCT
1 TTGAGACACCTTGACCTCTCCAAAGCTGGATTCGGAGGCTTGGTCCCTAATCAACTTGGAAATCT
42869324 CTCGAGTTTGGAGTACCTTAATCTTAGAGCAGATATTGAAGATAATCTCTATGTTACCGATCTCC
66 CTCGAGTTTGGAGTACCTTAATCTTAGAGCAGATATTGAAGATAATCTCTATGTTACCGATCTCC
*
42869389 AATGGTTGTCTGGACTTTC-CTTGA-T-A-GAACACCTTGATTTTGTAGGAACAATGGCAGCAGC
131 AATGGTTGTCTGGACTTTCACTCGACTCATG-ACACC---A-TTTGTAGGAACAATGGCAGCAGC
42869450 AAAAATCAAACAAAGTTGCAAAACAGAATTTGCAAAACTGAAGCAAGAAGTATCGAAGCAAAAGA
191 AAAAATCAAACAAAGTTGCAAAACAGAATTTGCAAAACTGAAGCAAGAAGTATCGAAGCAAAAGA
42869515 AAACAAAGCAAAGCAAAAGCAGTGAACAAAATTGAATACTCAGCAAATTGTAACTGAACATTACC
256 AAACAAAGCAAAGCAAAAGCAGTGAACAAAATTGAATACTCAGCAAATTGTAACTGAACATTACC
42869580 AATTTTCATTCAAAATTTGAATATATAAAAGAGTTACAAATTTTGATTCATTTGACAGTTACCTA
321 AATTTTCATTCAAAATTTGAATATATAAAAGAGTTACAAATTTTGATTCATTTGACAGTTACCTA
42869645 ATGACATAACTGCTCCCACTTAAACTAAACTAATACAAGCTTAAGTCAAATACAAAATAAGCTGA
386 ATGACATAACTGCTCCCACTTAAACTAAACTAATACAAGCTTAAGTCAAATACAAAATAAGCTGA
42869710 CATATCAGCTTTTACATCATCAATCCAATCACAAACTTAATCCAACTAACTTTGGAAACTAGTTA
451 CATATCAGCTTTTACATCATCAATCCAATCACAAACTTAATCCAACTAACTTTGGAAACTAGTTA
42869775 AAGTTGAACT
516 AAGTTGAACT
42869785 GAACTAAATT
Statistics
Matches: 519, Mismatches: 2, Indels: 10
0.98 0.00 0.02
Matches are distributed among these distances:
571 1 0.00
572 5 0.01
573 1 0.00
575 5 0.01
576 507 0.98
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (575 bp):
TTGAGACACCTTGACCTCTCCAAAGCTGGATTCGGAGGCTTGGTCCCTAATCAACTTGGAAATCT
CTCGAGTTTGGAGTACCTTAATCTTAGAGCAGATATTGAAGATAATCTCTATGTTACCGATCTCC
AATGGTTGTCTGGACTTTCACTCGACTCATGACACCATTTGTAGGAACAATGGCAGCAGCAAAAA
TCAAACAAAGTTGCAAAACAGAATTTGCAAAACTGAAGCAAGAAGTATCGAAGCAAAAGAAAACA
AAGCAAAGCAAAAGCAGTGAACAAAATTGAATACTCAGCAAATTGTAACTGAACATTACCAATTT
TCATTCAAAATTTGAATATATAAAAGAGTTACAAATTTTGATTCATTTGACAGTTACCTAATGAC
ATAACTGCTCCCACTTAAACTAAACTAATACAAGCTTAAGTCAAATACAAAATAAGCTGACATAT
CAGCTTTTACATCATCAATCCAATCACAAACTTAATCCAACTAACTTTGGAAACTAGTTAAAGTT
GAACTACGGGTTTGGAGGTATTCCCATTCTCGACTTCATAGGTTCTGTTGAGAGT
Found at i:42878008 original size:5 final size:5
Alignment explanation
Indices: 42878000--42878054 Score: 51
Period size: 5 Copynumber: 10.4 Consensus size: 5
42877990 AGTGATTAAT
42878000 AATAA AATAA AATAA TAA-AA TAATAA AATAAA AATAAA AATAA AGA-AA
1 AATAA AATAA AATAA -AATAA -AATAA AAT-AA AAT-AA AATAA A-ATAA
42878048 AATAA AA
1 AATAA AA
42878055 ATTGGGTTGC
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
4 1 0.02
5 28 0.62
6 16 0.36
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:42878015 original size:13 final size:13
Alignment explanation
Indices: 42877997--42878038 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
42877987 CAAAGTGATT
42877997 AATAATAAAATAA
1 AATAATAAAATAA
42878010 AATAATAAAATAA
1 AATAATAAAATAA
42878023 TAA-AATAAAAATAA
1 -AATAAT-AAAATAA
42878037 AA
1 AA
42878039 ATAAAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 18 0.67
14 9 0.33
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AATAATAAAATAA
Found at i:42878016 original size:8 final size:8
Alignment explanation
Indices: 42877996--42878030 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
42877986 ACAAAGTGAT
42877996 TAATAATAA
1 TAATAA-AA
42878005 -AATAAAA
1 TAATAAAA
42878012 TAATAAAA
1 TAATAAAA
42878020 TAATAAAA
1 TAATAAAA
42878028 TAA
1 TAA
42878031 AAATAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 2 0.08
8 23 0.92
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
TAATAAAA
Found at i:42885719 original size:37 final size:37
Alignment explanation
Indices: 42885638--42885719 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
42885628 GATTCACGGG
* * *
42885638 ATTTTTTAGTTTTTTTATATATTTTTATAAATTTATA
1 ATTTTTTAGTTGTTTTATACATTTATATAAATTTATA
** *
42885675 AAATTTTAGTTGTTTTATACATTTATATATATTTATA
1 ATTTTTTAGTTGTTTTATACATTTATATAAATTTATA
42885712 ATTTTTTA
1 ATTTTTTA
42885720 AAAATTTTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (37 bp):
ATTTTTTAGTTGTTTTATACATTTATATAAATTTATA
Found at i:42885730 original size:19 final size:19
Alignment explanation
Indices: 42885706--42885759 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
42885696 TTTATATATA
42885706 TTTATAATTTTTTAAAAAT
1 TTTATAATTTTTTAAAAAT
* *
42885725 TTTAT-ATATATTTCAAAAT
1 TTTATAAT-TTTTTAAAAAT
*
42885744 ATTATAAGTTTTTTAA
1 TTTATAA-TTTTTTAA
42885760 TATATTTCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
18 2 0.07
19 18 0.67
20 6 0.22
21 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTATAATTTTTTAAAAAT
Found at i:42889349 original size:26 final size:24
Alignment explanation
Indices: 42889299--42889347 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
42889289 TTCTCTACAC
*
42889299 ATTATATATGTATCTTACAAAAAA
1 ATTATATACGTATCTTACAAAAAA
42889323 ATTATATACGTATCTTACAAAAAA
1 ATTATATACGTATCTTACAAAAAA
42889347 A
1 A
42889348 AAAAAAGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
ATTATATACGTATCTTACAAAAAA
Found at i:42891174 original size:20 final size:20
Alignment explanation
Indices: 42891147--42891185 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
42891137 ATTTTATGGT
42891147 TATATTTAAATATT-TAAAA
1 TATATTTAAATATTCTAAAA
*
42891166 TATAGTTTATATATTCTAAA
1 TATA-TTTAAATATTCTAAA
42891186 TAAATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (20 bp):
TATATTTAAATATTCTAAAA
Found at i:42891322 original size:18 final size:19
Alignment explanation
Indices: 42891289--42891333 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
42891279 TTTTATATTT
42891289 TTACTAAAATATAATAATA
1 TTACTAAAATATAATAATA
42891308 TTACTAAAA-ATAATAATA
1 TTACTAAAATATAATAATA
42891326 TTAACTAA
1 TT-ACTAA
42891334 TTTAAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (19 bp):
TTACTAAAATATAATAATA
Found at i:42895340 original size:27 final size:27
Alignment explanation
Indices: 42895302--42895356 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
42895292 TTACCAAAAG
42895302 TTTGATCCTTTTTATTTTCGTCTCTTT
1 TTTGATCCTTTTTATTTTCGTCTCTTT
42895329 TTTGATCCTTTTTATTTTCGTCTCTTT
1 TTTGATCCTTTTTATTTTCGTCTCTTT
42895356 T
1 T
42895357 GGCTAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.07, C:0.18, G:0.07, T:0.67
Consensus pattern (27 bp):
TTTGATCCTTTTTATTTTCGTCTCTTT
Found at i:42896690 original size:29 final size:29
Alignment explanation
Indices: 42896657--42896716 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
42896647 TTACCAACAG
42896657 TATGTCACATTTTAGTCTCTGAAAGAAAA
1 TATGTCACATTTTAGTCTCTGAAAGAAAA
42896686 TATGTCACATTTTAGTCTCTGAAAGAAAA
1 TATGTCACATTTTAGTCTCTGAAAGAAAA
42896715 TA
1 TA
42896717 AAAATGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (29 bp):
TATGTCACATTTTAGTCTCTGAAAGAAAA
Found at i:42905581 original size:41 final size:41
Alignment explanation
Indices: 42905524--42905606 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
42905514 CCTAAATGAA
42905524 TGTTTATGGATTGATTTGAATGACTTGGTGAATTAAAGGGT
1 TGTTTATGGATTGATTTGAATGACTTGGTGAATTAAAGGGT
42905565 TGTTTATGGATTGATTTGAATGACTTGGTGAATTAAAGGGT
1 TGTTTATGGATTGATTTGAATGACTTGGTGAATTAAAGGGT
42905606 T
1 T
42905607 AATTTTGAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.27, C:0.02, G:0.29, T:0.42
Consensus pattern (41 bp):
TGTTTATGGATTGATTTGAATGACTTGGTGAATTAAAGGGT
Found at i:42907592 original size:38 final size:38
Alignment explanation
Indices: 42907550--42907625 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
42907540 TTATTCTTGA
42907550 TGGTCATTTTATCGAGCTGTCGATAATAGATACACATT
1 TGGTCATTTTATCGAGCTGTCGATAATAGATACACATT
*
42907588 TGGTCATTTTATCGAGCTGTCGATAATCGATACACATT
1 TGGTCATTTTATCGAGCTGTCGATAATAGATACACATT
42907626 CTCATCGTGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (38 bp):
TGGTCATTTTATCGAGCTGTCGATAATAGATACACATT
Found at i:42922890 original size:42 final size:42
Alignment explanation
Indices: 42922840--42922933 Score: 136
Period size: 42 Copynumber: 2.3 Consensus size: 42
42922830 AGATATTCTA
** *
42922840 GGAA-TATTTTATTTTATCTTTTAGTAGTTTATTAGAATAAT
1 GGAATTATTTTACCTTATCTTTTAGTAGTTTATTAGAATAAG
* *
42922881 GGAATTATTTTCCCTTATCTTTTAGTAGTTTATTAGAATGAG
1 GGAATTATTTTACCTTATCTTTTAGTAGTTTATTAGAATAAG
42922923 GGAATTATTTT
1 GGAATTATTTT
42922934 CCCAATTAGG
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 4 0.09
42 43 0.91
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (42 bp):
GGAATTATTTTACCTTATCTTTTAGTAGTTTATTAGAATAAG
Found at i:42922934 original size:42 final size:42
Alignment explanation
Indices: 42922853--42922936 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
42922843 ATATTTTATT
*
42922853 TTATCTTTTAGTAGTTTATTAGAATAATGGAATTATTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCCC
*
42922895 TTATCTTTTAGTAGTTTATTAGAATGAGGGAATTATTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCCC
42922937 AATTAGGTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (42 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCCC
Found at i:42927963 original size:25 final size:24
Alignment explanation
Indices: 42927941--42928021 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 24
42927931 ATATGCTCTC
42927941 ACGAGCTATAAATCGGTAAGCTCAT
1 ACGAGCT-TAAATCGGTAAGCTCAT
*
42927966 ATGAGCTTAGAATCGGTAAGCTC-T
1 ACGAGCTTA-AATCGGTAAGCTCAT
* *
42927990 CACCAG-TTGCAATCGGTAAGCTCAT
1 -ACGAGCTT-AAATCGGTAAGCTCAT
42928015 ACGAGCT
1 ACGAGCT
42928022 AAGAATTGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
24 22 0.48
25 24 0.52
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (24 bp):
ACGAGCTTAAATCGGTAAGCTCAT
Found at i:42931348 original size:43 final size:43
Alignment explanation
Indices: 42931249--42931350 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 43
42931239 ATCGAGATGT
* * * * * *
42931249 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACGTGTAAGACCATATCTGGAACATTGGCATCGTAATCA
*
42931292 GATTACGTATAAGACCATATCTGGAACATTGGCATCGTTAATCA
1 GATTACGTGTAAGACCATATCTGGAACATTGGCATCG-TAATCA
*
42931336 -ATTTCGTGTAAGACC
1 GATTACGTGTAAGACC
42931351 CTGTCTAGGA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 45 0.92
44 4 0.08
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (43 bp):
GATTACGTGTAAGACCATATCTGGAACATTGGCATCGTAATCA
Found at i:42938497 original size:43 final size:44
Alignment explanation
Indices: 42938396--42938511 Score: 130
Period size: 43 Copynumber: 2.7 Consensus size: 44
42938386 GGTTTTTGAG
* *
42938396 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTA
1 ATGTGATTACATGTAAGACCATGTCTGGGACAGTGGCATCGATA
* * * *
42938440 AT-CGATTTCGTGTAAGACTC-TGTTTGGGACAGTGGCATCGAT-
1 ATGTGATTACATGTAAGAC-CATGTCTGGGACAGTGGCATCGATA
* *
42938482 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATGTCTGGGA
42938512 TATGACATTG
Statistics
Matches: 57, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
42 3 0.05
43 51 0.89
44 3 0.05
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACAGTGGCATCGATA
Found at i:42941994 original size:73 final size:73
Alignment explanation
Indices: 42941873--42942019 Score: 267
Period size: 73 Copynumber: 2.0 Consensus size: 73
42941863 TAAGCCTTCG
*
42941873 GATAGTGTGAACGAGTCTTCGACCTATCCCGATTCTCAAGCCGGCTTGTCAAAACTACAATGAAA
1 GATAGTGTGAACGAGTCTTCGACCTATCCCGATTCTCAAGCCGACTTGTCAAAACTACAATGAAA
42941938 GAAAAGGA
66 GAAAAGGA
* *
42941946 GATAGTGTGAATGAGTCTTCGACCTATCCCGATTCTCAAGCCGACTTGTCAAAAGTACAATGAAA
1 GATAGTGTGAACGAGTCTTCGACCTATCCCGATTCTCAAGCCGACTTGTCAAAACTACAATGAAA
42942011 GAAAAGGA
66 GAAAAGGA
42942019 G
1 G
42942020 GGAGTAAGCA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (73 bp):
GATAGTGTGAACGAGTCTTCGACCTATCCCGATTCTCAAGCCGACTTGTCAAAACTACAATGAAA
GAAAAGGA
Found at i:42942965 original size:30 final size:30
Alignment explanation
Indices: 42942929--42942988 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
42942919 ATTTAATACG
*
42942929 AACTTTTCCAAAATTACATTTTTGCCCCTA
1 AACTTTTCCAAAATTACACTTTTGCCCCTA
* *
42942959 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTCCAAAATTACACTTTTGCCCCTA
42942989 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.27, G:0.05, T:0.40
Consensus pattern (30 bp):
AACTTTTCCAAAATTACACTTTTGCCCCTA
Found at i:42948254 original size:21 final size:21
Alignment explanation
Indices: 42948230--42948271 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
42948220 TCATCAGATC
*
42948230 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
42948251 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
42948272 GGTGGGGGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:42949769 original size:34 final size:34
Alignment explanation
Indices: 42949730--42949796 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
42949720 CGGAATATAA
42949730 TTCGAATACGCGGATCTCATGAACATAAGAGCCG
1 TTCGAATACGCGGATCTCATGAACATAAGAGCCG
*
42949764 TTCGAATATGCGGATCTCATGAACATAAGAGCC
1 TTCGAATACGCGGATCTCATGAACATAAGAGCC
42949797 ATACCCGCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (34 bp):
TTCGAATACGCGGATCTCATGAACATAAGAGCCG
Found at i:42950678 original size:310 final size:310
Alignment explanation
Indices: 42950116--42950733 Score: 1191
Period size: 310 Copynumber: 2.0 Consensus size: 310
42950106 ACTTCGGTGA
42950116 TAGTTCATACTCATCAAGTAATTCACATAATTAAAAATTATTGAACAATAACAACAAAGCATAAT
1 TAGTTCATACTCATCAAGTAATTCACATAATTAAAAATTATTGAACAATAACAACAAAGCATAAT
42950181 ATTTCATGATAATAATCAGCATCATATCATATAAACAACATTAAATTGCTTAAAATGACAATTAT
66 ATTTCATGATAATAATCAGCATCATATCATATAAACAACATTAAATTGCTTAAAATGACAATTAT
42950246 GTTACTACATTTACACATGAACTTACCTCGGTACAAAATTATTAGCAATCGAGCCTATTCTTCGT
131 GTTACTACATTTACACATGAACTTACCTCGGTACAAAATTATTAGCAATCGAGCCTATTCTTCGT
* *
42950311 AAAGTTTGTTTTTCCCTCGATCACGACTTGAATCTCTTTTCTCTTGATCTATAATGCCAAATTAA
196 AAAGTTTGTTTTTCCCTCGATCACGAATTGAATCTCATTTCTCTTGATCTATAATGCCAAATTAA
42950376 TCTTATTTAATACATACATTCATCAAAACAGCATTTAATACGAACTTTGG
261 TCTTATTTAATACATACATTCATCAAAACAGCATTTAATACGAACTTTGG
42950426 TAGTTCATACTCATCAAGTAATTCACATAATTAAAAATTATTGAACAATAACAACAAAGCATAAT
1 TAGTTCATACTCATCAAGTAATTCACATAATTAAAAATTATTGAACAATAACAACAAAGCATAAT
42950491 ATTTCATGATAATAATCAGCATCATATCATATAAACAACATTAAATTGCTTAAAATGACAATTAT
66 ATTTCATGATAATAATCAGCATCATATCATATAAACAACATTAAATTGCTTAAAATGACAATTAT
42950556 GTTACTACATTTACACATGAACTTACCTCGGTACAAAATTATTAGCAATCGAGCCTATTCTTCGT
131 GTTACTACATTTACACATGAACTTACCTCGGTACAAAATTATTAGCAATCGAGCCTATTCTTCGT
* *
42950621 AAAGTTTGTTTTTCCCTCGTTCGCGAATTGAATCTCATTTCTCTTGATCTATAATGCCAAATTAA
196 AAAGTTTGTTTTTCCCTCGATCACGAATTGAATCTCATTTCTCTTGATCTATAATGCCAAATTAA
*
42950686 TCTTATTTAATACATACATTTATCAAAACAGCATTTAATACGAACTTT
261 TCTTATTTAATACATACATTCATCAAAACAGCATTTAATACGAACTTT
42950734 AAAAAAATTA
Statistics
Matches: 303, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
310 303 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (310 bp):
TAGTTCATACTCATCAAGTAATTCACATAATTAAAAATTATTGAACAATAACAACAAAGCATAAT
ATTTCATGATAATAATCAGCATCATATCATATAAACAACATTAAATTGCTTAAAATGACAATTAT
GTTACTACATTTACACATGAACTTACCTCGGTACAAAATTATTAGCAATCGAGCCTATTCTTCGT
AAAGTTTGTTTTTCCCTCGATCACGAATTGAATCTCATTTCTCTTGATCTATAATGCCAAATTAA
TCTTATTTAATACATACATTCATCAAAACAGCATTTAATACGAACTTTGG
Found at i:42955356 original size:46 final size:46
Alignment explanation
Indices: 42955292--42955412 Score: 242
Period size: 46 Copynumber: 2.6 Consensus size: 46
42955282 TACATTTCAC
42955292 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
42955338 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
42955384 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
42955413 TGCTCAACCA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
Found at i:42955431 original size:46 final size:45
Alignment explanation
Indices: 42955240--42955412 Score: 226
Period size: 46 Copynumber: 3.8 Consensus size: 45
42955230 AACCCGCCCC
* *
42955240 TAAGTGAACTCGGAGTCAACTCAACGAGTTCGG-ATTC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATTCGC-A--TCCA
* *
42955286 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-ATTCGCATCCA
42955333 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-ATTCGCATCCA
42955379 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
42955413 TGCTCAACCA
Statistics
Matches: 115, Mismatches: 6, Indels: 10
0.88 0.05 0.08
Matches are distributed among these distances:
45 2 0.02
46 75 0.65
47 30 0.26
48 2 0.02
49 5 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATTCGCATCCA
Found at i:42962968 original size:46 final size:46
Alignment explanation
Indices: 42962875--42962960 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
42962865 TACATTTCAC
* * *
42962875 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGAACTCAACTCAACGAGTTCGGACATGCGCAACCATAAGT
*
42962921 GAACTCGAACTCAACTCAACGAGTTC-GA-ATGCTCAACCAT
1 GAACTCGAACTCAACTCAACGAGTTCGGACATGCGCAACCAT
42962961 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 9 0.25
45 2 0.06
46 25 0.69
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (46 bp):
GAACTCGAACTCAACTCAACGAGTTCGGACATGCGCAACCATAAGT
Found at i:42964862 original size:25 final size:24
Alignment explanation
Indices: 42964808--42964971 Score: 108
Period size: 25 Copynumber: 6.7 Consensus size: 24
42964798 CATAGATCTT
42964808 ATGAGCTTCCTGATTATGGCTCTC
1 ATGAGCTTCCTGATTATGGCTCTC
*
42964832 ATGAGCTTCCTGATTAATGGCTTTTC
1 ATGAGCTTCCTGATT-ATGGC-TCTC
* *
42964858 A-GAGCTTCCCGATATTTGGCTCT-
1 ATGAGCTTCCTGAT-TATGGCTCTC
*
42964881 ATTGAGCTTCC-CATTTATGGCTCGT-
1 A-TGAGCTTCCTGA-TTATGGCTC-TC
* *
42964906 ATGAGCTTCCCT-ATAATTGGCTCGC
1 ATGAGCTT-CCTGATTA-TGGCTCTC
* * *
42964931 AAGAGCTTCCCG-TTACATGGCTCAC
1 ATGAGCTTCCTGATT--ATGGCTCTC
42964956 ATGAGCTTCCT-ATTAT
1 ATGAGCTTCCTGATTAT
42964972 ATGGATCGAA
Statistics
Matches: 111, Mismatches: 14, Indels: 31
0.71 0.09 0.20
Matches are distributed among these distances:
23 3 0.03
24 37 0.33
25 65 0.59
26 6 0.05
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (24 bp):
ATGAGCTTCCTGATTATGGCTCTC
Found at i:42964902 original size:49 final size:50
Alignment explanation
Indices: 42964807--42964965 Score: 139
Period size: 49 Copynumber: 3.2 Consensus size: 50
42964797 TCATAGATCT
* * * **
42964807 TATGAGCTTCCTGAT-TATGGCTCTCATGAGCTTCCTGATTAATGGCTTT
1 TATGAGCTTCCCGATATTTGGCTCTCATGAGCTTCCTCATTAATGGCTCG
*
42964856 TCA-GAGCTTCCCGATATTTGGCTCT-ATTGAGCTTCC-CATTTATGGCTCG
1 T-ATGAGCTTCCCGATATTTGGCTCTCA-TGAGCTTCCTCATTAATGGCTCG
* * * * * *
42964905 TATGAGCTTCCCTATAATTGGCTCGCAAGAGCTTCC-CGTTACATGGCTCA
1 TATGAGCTTCCCGATATTTGGCTCTCATGAGCTTCCTCATTA-ATGGCTCG
*
42964955 CATGAGCTTCC
1 TATGAGCTTCC
42964966 TATTATATGG
Statistics
Matches: 90, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
48 1 0.01
49 53 0.59
50 36 0.40
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (50 bp):
TATGAGCTTCCCGATATTTGGCTCTCATGAGCTTCCTCATTAATGGCTCG
Found at i:42964965 original size:50 final size:51
Alignment explanation
Indices: 42964884--42965016 Score: 148
Period size: 50 Copynumber: 2.6 Consensus size: 51
42964874 TGGCTCTATT
** * *
42964884 GAGCTTCCCATT-TATGGCTCGTATGAGCTTCCCTATAAT-TGGCTCGCAA
1 GAGCTTCCCATTATATGGCTCACATGAGCTTCCCTATAATATGGATCGAAA
* * *
42964933 GAGCTTCCCGTTACATGGCTCACATGAGCTT-CCTATTATATGGATCGAAA
1 GAGCTTCCCATTATATGGCTCACATGAGCTTCCCTATAATATGGATCGAAA
*
42964983 GAGCTACCCATTTATAT-GCTCACATGAGCATTCC
1 GAGCTTCCCA-TTATATGGCTCACATGAGC-TTCC
42965017 TGAATATGAA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
49 18 0.26
50 43 0.62
51 7 0.10
52 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (51 bp):
GAGCTTCCCATTATATGGCTCACATGAGCTTCCCTATAATATGGATCGAAA
Done.