Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 2 of 325
Found at i:289410 original size:28 final size:28
Alignment explanation
Indices: 289370--289448 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
289360 GCAATCAAAT
* * *
289370 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
289398 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
289426 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
289449 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:293144 original size:40 final size:40
Alignment explanation
Indices: 293089--293256 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
293079 TGAATGATAC
* *
293089 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-TTATAT
293129 CCGGGCTAAGACCCGAAGGCATTTGA-GCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTT-ATGCGAGTTGTTATAT
* * *
293169 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
* * * ** *
293209 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
293249 CC-GGCTAA
1 CCGGGCTAA
293257 ATTTCGAAGA
Statistics
Matches: 112, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 5 0.04
40 104 0.93
41 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
Found at i:294780 original size:28 final size:28
Alignment explanation
Indices: 294749--294899 Score: 140
Period size: 28 Copynumber: 5.3 Consensus size: 28
294739 ACATAGGCAT
* *
294749 TGTGTGTGTGAGTTCCGTAACCGAGCAC
1 TGTGTGTGCGAGTTCCGTAATCGAGCAC
* * ** *
294777 TGTGTGTGCGAGATCGGTCGTTGAGGCAC
1 TGTGTGTGCGAGTTCCGTAATCGA-GCAC
* *
294806 TGTGTGTGCGAGTTCCATAACCGAGCAC
1 TGTGTGTGCGAGTTCCGTAATCGAGCAC
* * * ** *
294834 TATGTGTGCGAGATCGGTTGTTGAGGCAC
1 TGTGTGTGCGAGTTCCGTAATCGA-GCAC
*
294863 TGTGTGTGCGAGTTCCGTAATCGAACAC
1 TGTGTGTGCGAGTTCCGTAATCGAGCAC
294891 TGTGTGTGC
1 TGTGTGTGC
294900 AAGATCGGTT
Statistics
Matches: 92, Mismatches: 29, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
28 49 0.53
29 43 0.47
ACGTcount: A:0.17, C:0.19, G:0.34, T:0.29
Consensus pattern (28 bp):
TGTGTGTGCGAGTTCCGTAATCGAGCAC
Found at i:294809 original size:29 final size:29
Alignment explanation
Indices: 294773--294908 Score: 123
Period size: 29 Copynumber: 4.8 Consensus size: 29
294763 CCGTAACCGA
*
294773 GCACTGTGTGTGCGAGATCGGTCGTTGAG
1 GCACTGTGTGTGCGAGATCGGTAGTTGAG
* ** ***
294802 GCACTGTGTGTGCGAGTTCCATAACCGA-
1 GCACTGTGTGTGCGAGATCGGTAGTTGAG
* *
294830 GCACTATGTGTGCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTAGTTGAG
* * * *
294859 GCACTGTGTGTGCGAGTTCCGTAATCGA-
1 GCACTGTGTGTGCGAGATCGGTAGTTGAG
* *
294887 ACACTGTGTGTGCAAGATCGGT
1 GCACTGTGTGTGCGAGATCGGT
294909 TGTTAGGGCA
Statistics
Matches: 81, Mismatches: 25, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
28 38 0.47
29 43 0.53
ACGTcount: A:0.18, C:0.19, G:0.35, T:0.28
Consensus pattern (29 bp):
GCACTGTGTGTGCGAGATCGGTAGTTGAG
Found at i:294812 original size:57 final size:57
Alignment explanation
Indices: 294743--294929 Score: 268
Period size: 57 Copynumber: 3.2 Consensus size: 57
294733 AAGTGAACAT
* * *
294743 AGGCATTGTGTGTGTGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTCGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* *
294800 AGGCACTGTGTGTGCGAGTTCCATAACCGAGCACTATGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* * *
294857 AGGCACTGTGTGTGCGAGTTCCGTAATCGAACACTGTGTGTGCAAGATCGGTTGTT-
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
294913 AGGGCACTAAGTGTGTG
1 A-GGCACT--GTGTGTG
294930 AAATGAGATC
Statistics
Matches: 117, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
56 1 0.01
57 109 0.93
59 7 0.06
ACGTcount: A:0.19, C:0.18, G:0.35, T:0.29
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
Found at i:299900 original size:28 final size:28
Alignment explanation
Indices: 299860--299938 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
299850 GCAATCAAAT
* * *
299860 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
299888 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
299916 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
299939 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:301983 original size:18 final size:18
Alignment explanation
Indices: 301947--302003 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
301937 AATTTTAGAG
301947 TTAATATATT-ATATTAATT
1 TTAATAT-TTAAT-TTAATT
*
301966 TT-GTATTTGAATTTAATT
1 TTAATATTT-AATTTAATT
*
301984 TTAATATTTAATTTGATT
1 TTAATATTTAATTTAATT
302002 TT
1 TT
302004 TGATTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.06
18 21 0.66
19 9 0.28
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.61
Consensus pattern (18 bp):
TTAATATTTAATTTAATT
Found at i:302016 original size:21 final size:21
Alignment explanation
Indices: 301990--302029 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
301980 AATTTTAATA
* *
301990 TTTAATTTGATTTTTGATTTT
1 TTTAATTTCATATTTGATTTT
302011 TTTAATTTCATATTTGATT
1 TTTAATTTCATATTTGATT
302030 CTGATTTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.68
Consensus pattern (21 bp):
TTTAATTTCATATTTGATTTT
Found at i:308492 original size:37 final size:37
Alignment explanation
Indices: 308451--308535 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
308441 TTCTTGAATT
308451 TCTGTTAATTCGGTTTAACCAATCTAACTAATCAAAA
1 TCTGTTAATTCGGTTTAACCAATCTAACTAATCAAAA
*
308488 TCTGTTAATTCGGTTTAACCGATCTAACTAATCAAAA
1 TCTGTTAATTCGGTTTAACCAATCTAACTAATCAAAA
*
308525 TATGTTAATTC
1 TCTGTTAATTC
308536 AGGTCGGTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (37 bp):
TCTGTTAATTCGGTTTAACCAATCTAACTAATCAAAA
Found at i:309307 original size:7 final size:7
Alignment explanation
Indices: 309297--309322 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
309287 AAAATTTAAA
309297 AAAATTC
1 AAAATTC
309304 AAAATTC
1 AAAATTC
309311 AAAATTC
1 AAAATTC
309318 AAAAT
1 AAAAT
309323 ATTCAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTC
Found at i:313454 original size:18 final size:17
Alignment explanation
Indices: 313409--313455 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
313399 GATTAATTTA
*
313409 AAATTC-AAAAACAATT
1 AAATTCTAAAAAAAATT
313425 AAATATCATAAAAAAAATT
1 AAAT-TC-TAAAAAAAATT
313444 ACAATTCTAAAA
1 A-AATTCTAAAA
313456 TTTATATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 4 0.15
17 2 0.08
18 5 0.19
19 12 0.46
20 3 0.12
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATTCTAAAAAAAATT
Found at i:316491 original size:30 final size:31
Alignment explanation
Indices: 316439--316496 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
316429 ATCCCTAAAT
*
316439 TATTTGAAAGCTTTCGTTTAAGTCATTGAAC
1 TATTTGAAAGCTTTCATTTAAGTCATTGAAC
*
316470 TATTTGAAAG-TTTTATTTAAGTCATTG
1 TATTTGAAAGCTTTCATTTAAGTCATTG
316497 GACTGTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.47
Consensus pattern (31 bp):
TATTTGAAAGCTTTCATTTAAGTCATTGAAC
Found at i:318222 original size:263 final size:260
Alignment explanation
Indices: 317756--318470 Score: 900
Period size: 263 Copynumber: 2.7 Consensus size: 260
317746 AATTCCCCGA
* *
317756 TAATACTTTATTTGAGTAGCTTATCAGTTTAATGCAGCTTTTTTCTATTCTTAATGAGTATCGGG
1 TAATACTTTATTTGAGTAGCTTATCAGTTTAATCCAGCTTTTTTCTATT-TTAATGAGTATCGAG
* * * * ** *
317821 AAACTACAAGTTAAACCTTTAAACACGAGTTC-GAGTTTGAGCACTAATCATTGAGCTTGAAATC
65 AAACTTCAATTTAAACATTTAAACATGAGTTCAG-GTTAAAGCACTAATAATTGAGCTTGAAATC
* * *
317885 GAGCATGAAAGTTTAGCTTTAAACA-TGGAACTCGATTGAGCTTCTGTTGAGTTTCAGGCTTCGA
129 GAGCATGAGAG-TTAGCTTTAAA-AGTGGAACTCGATTGAGCTTCTGTTGAGTTTCAAGCTTTGA
** *
317949 GTTTCAAGTCAAACTTGAGCTCAAGCTTCTTTTGGCTTGAGCTGTTGAACTGGTCGAATTCGAGT
192 GTTTCAAGTCAAACTTGAGCTCAAGCTTCTTAGGGCTTGAGCTGTTGAACTGGTCAAATTCGAGT
318014 ATAC
257 ATAC
* * * *
318018 TAATACTTTATTTGTGTAGCTTATCAGCTTAGTCCTGCTTTTTTCTATGTTTAATGAGTATCGAG
1 TAATACTTTATTTGAGTAGCTTATCAGTTTAATCCAGCTTTTTTCTAT-TTTAATGAGTATCGAG
* * *
318083 AAACTTCAATTTTGAACATTTAAACATGAGTTCAGGTTAAAGCACTAATAATTGCGATTGAAATC
65 AAACTTCAA-TTTAAACATTTAAACATGAGTTCAGGTTAAAGCACTAATAATTGAGCTTGAAATC
* * *
318148 GAGCGTGAGAGTTGAGCTTTAAATGTGGAACTCGATTGAGCTTCTGTTGAGTTTCAAGCTTTGAT
129 GAGCATGAGAGTT-AGCTTTAAAAGTGGAACTCGATTGAGCTTCTGTTGAGTTTCAAGCTTTGAG
* *
318213 TTTCAAGTCAAACTTGAGCTCAAGCTTCTTAGGGCTTGGGCTGTTGAAGTGGTCAAATTCGAGTA
193 TTTCAAGTCAAACTTGAGCTCAAGCTTCTTAGGGCTTGAGCTGTTGAACTGGTCAAATTCGAGTA
318278 TAC
258 TAC
* * * * * *
318281 TAATACTTAATCTGAGTACCTTATCAGTTTAATCCAGCTTTTTTCTATATTTAACGA-TATTGAA
1 TAATACTTTATTTGAGTAGCTTATCAGTTTAATCCAGCTTTTTTCTAT-TTTAATGAGTATCGAG
* * * * ** *
318345 AAACTTCAATGTAAACATTTAAACACTTAATTCTA-GCTCCAGTACTAATAATTGAGCTTGAAAT
65 AAACTTCAATTTAAACATTTAAACA-TGAGTTC-AGGTTAAAGCACTAATAATTGAGCTTGAAAT
* * * *
318409 TGATCATGAGAGTTATGCTTTAAAAGTGGAACTCAATCGAGCTTCTGTTGAGTTTCAA-CTTT
128 CGAGCATGAGAGTTA-GCTTTAAAAGTGGAACTCGATTGAGCTTCTGTTGAGTTTCAAGCTTT
318471 CAAGCTTTGA
Statistics
Matches: 391, Mismatches: 54, Indels: 17
0.85 0.12 0.04
Matches are distributed among these distances:
261 19 0.05
262 159 0.41
263 212 0.54
264 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (260 bp):
TAATACTTTATTTGAGTAGCTTATCAGTTTAATCCAGCTTTTTTCTATTTTAATGAGTATCGAGA
AACTTCAATTTAAACATTTAAACATGAGTTCAGGTTAAAGCACTAATAATTGAGCTTGAAATCGA
GCATGAGAGTTAGCTTTAAAAGTGGAACTCGATTGAGCTTCTGTTGAGTTTCAAGCTTTGAGTTT
CAAGTCAAACTTGAGCTCAAGCTTCTTAGGGCTTGAGCTGTTGAACTGGTCAAATTCGAGTATAC
Found at i:322275 original size:58 final size:58
Alignment explanation
Indices: 322206--322375 Score: 191
Period size: 58 Copynumber: 2.9 Consensus size: 58
322196 CAAAATGATT
* * * *
322206 AGGTCCCAATGTGGGAATAATTGTTAAGTTCAGGGACCAATTTGGACAAAAAGAATTT
1 AGGTCCTAATGTGGGAATAATTGTTAAGTTCAGGGACTAACTTGGACAAAAAGAATTC
* * * *
322264 AGG-CTCTAATGTGGGAACAGTTGTCT-AGTTCAGGTACTAACTTGGACTAAAAAGAGTTC
1 AGGTC-CTAATGTGGGAATAATTGT-TAAGTTCAGGGACTAACTTGGAC-AAAAAGAATTC
** *
322323 AGGTCCTAATGTTGGGAATAATTGCCAAGTTCAGTGACTAACTTGGACAAAAA
1 AGGTCCTAATG-TGGGAATAATTGTTAAGTTCAGGGACTAACTTGGACAAAAA
322376 AAAATTCAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
57 1 0.01
58 37 0.40
59 24 0.26
60 30 0.33
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (58 bp):
AGGTCCTAATGTGGGAATAATTGTTAAGTTCAGGGACTAACTTGGACAAAAAGAATTC
Found at i:323213 original size:17 final size:17
Alignment explanation
Indices: 323191--323229 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
323181 GATCAAGTTT
323191 TGTTTAAATTTTAGGCC
1 TGTTTAAATTTTAGGCC
*
323208 TGTTT-AGTTTTAGGCC
1 TGTTTAAATTTTAGGCC
323224 TGTTTA
1 TGTTTA
323230 GTTTGAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.18, C:0.10, G:0.21, T:0.51
Consensus pattern (17 bp):
TGTTTAAATTTTAGGCC
Found at i:323220 original size:16 final size:16
Alignment explanation
Indices: 323199--323233 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
323189 TTTGTTTAAA
323199 TTTTAGGCCTGTTTAG
1 TTTTAGGCCTGTTTAG
323215 TTTTAGGCCTGTTTAG
1 TTTTAGGCCTGTTTAG
323231 TTT
1 TTT
323234 GAAGAATGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.23, T:0.54
Consensus pattern (16 bp):
TTTTAGGCCTGTTTAG
Found at i:323375 original size:9 final size:9
Alignment explanation
Indices: 323361--323407 Score: 60
Period size: 9 Copynumber: 5.1 Consensus size: 9
323351 AATACAATGC
323361 ATTAAAAAT
1 ATTAAAAAT
*
323370 ATTAAAAAC
1 ATTAAAAAT
323379 A-TAAAAAT
1 ATTAAAAAT
323387 ATTAAAAAT
1 ATTAAAAAT
323396 AAATTAAAAAT
1 --ATTAAAAAT
323407 A
1 A
323408 AATTTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 7 0.21
9 17 0.52
11 9 0.27
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:323403 original size:11 final size:11
Alignment explanation
Indices: 323387--323411 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
323377 ACATAAAAAT
323387 ATTAAAAATAA
1 ATTAAAAATAA
323398 ATTAAAAATAA
1 ATTAAAAATAA
323409 ATT
1 ATT
323412 TTTAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATTAAAAATAA
Found at i:323488 original size:11 final size:11
Alignment explanation
Indices: 323474--323518 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
323464 TAAATATCTT
323474 TAAAATAATAA
1 TAAAATAATAA
*
323485 TAAAATAACAA
1 TAAAATAATAA
*
323496 TAAAATAAAAA
1 TAAAATAATAA
323507 TTAAAATAATAA
1 -TAAAATAATAA
323519 GTAACATAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 20 0.67
12 10 0.33
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:323497 original size:17 final size:17
Alignment explanation
Indices: 323477--323530 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
323467 ATATCTTTAA
323477 AATAATAATAAAATAAC
1 AATAATAATAAAATAAC
323494 AATAA-AATAAAAATTAA-
1 AATAATAAT-AAAA-TAAC
*
323511 AATAATAAGTAACATAAC
1 AATAATAA-TAAAATAAC
323529 AA
1 AA
323531 AATGTTTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
16 3 0.10
17 17 0.55
18 10 0.32
19 1 0.03
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.22
Consensus pattern (17 bp):
AATAATAATAAAATAAC
Found at i:326526 original size:31 final size:31
Alignment explanation
Indices: 326472--326550 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 31
326462 AAAAAATTAG
* * *
326472 CTTTTAA-GGGCC-CAAAATTTTTTTTACCAA
1 CTTTTAAGGGGCCTAAAAAATTTTTCT-CCAA
*
326502 CTTTTAAGGGGCCTAAAAAATTTTTCTTCAA
1 CTTTTAAGGGGCCTAAAAAATTTTTCTCCAA
**
326533 CTTTTAAGGAACCTAAAA
1 CTTTTAAGGGGCCTAAAA
326551 CCTCATTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 7 0.17
31 24 0.59
32 10 0.24
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (31 bp):
CTTTTAAGGGGCCTAAAAAATTTTTCTCCAA
Found at i:331470 original size:22 final size:21
Alignment explanation
Indices: 331394--331470 Score: 52
Period size: 22 Copynumber: 3.6 Consensus size: 21
331384 GTATTATTTT
331394 ATTAAAATTTTAAATCGTGTCAA
1 ATTAAAATTTTAAAT--TGTCAA
* *
331417 A-TGAAATTATTTAATT-T-AA
1 ATTAAAATT-TTAAATTGTCAA
* **
331436 CTTAAAAAATTAAATATGTCAA
1 ATTAAAATTTTAAAT-TGTCAA
331458 ATTAAAATTTTAA
1 ATTAAAATTTTAA
331471 TACAGTATAA
Statistics
Matches: 39, Mismatches: 10, Indels: 11
0.65 0.17 0.18
Matches are distributed among these distances:
19 7 0.18
20 6 0.15
21 2 0.05
22 18 0.46
23 6 0.15
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.40
Consensus pattern (21 bp):
ATTAAAATTTTAAATTGTCAA
Found at i:331676 original size:18 final size:19
Alignment explanation
Indices: 331655--331691 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
331645 TTTTTAAAAA
331655 TATAAA-ATTTTAAATTTT
1 TATAAATATTTTAAATTTT
*
331673 TATAAATATTTTTAATTTT
1 TATAAATATTTTAAATTTT
331692 AAATATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATAAATATTTTAAATTTT
Found at i:332640 original size:2 final size:2
Alignment explanation
Indices: 332633--332662 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
332623 ATTTTATCTT
*
332633 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
332663 ACATGTCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:333229 original size:36 final size:35
Alignment explanation
Indices: 333184--333253 Score: 113
Period size: 36 Copynumber: 2.0 Consensus size: 35
333174 ATGGTTGACA
*
333184 AAAAGATTACATGGAAGGTTTTTAAAGTTGGTATAT
1 AAAAGATTACATGGAAGGTTTTT-AAGTTGATATAT
*
333220 AAAATATTACATGGAAGGTTTTTAAGTTGATATA
1 AAAAGATTACATGGAAGGTTTTTAAGTTGATATA
333254 ATAACAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 10 0.31
36 22 0.69
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.37
Consensus pattern (35 bp):
AAAAGATTACATGGAAGGTTTTTAAGTTGATATAT
Found at i:335222 original size:30 final size:30
Alignment explanation
Indices: 335186--335245 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
335176 TTCCCGAGCC
335186 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
335216 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
335246 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:335787 original size:46 final size:47
Alignment explanation
Indices: 335668--335796 Score: 206
Period size: 46 Copynumber: 2.8 Consensus size: 47
335658 GGTTGAACAT
** * *
335668 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACAAACGC
335715 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-ACAAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACAAACGC
*
335761 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
335797 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
46 39 0.51
47 38 0.49
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (47 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACAAACGC
Found at i:340500 original size:42 final size:43
Alignment explanation
Indices: 340404--340500 Score: 146
Period size: 42 Copynumber: 2.3 Consensus size: 43
340394 TTTATTTCTT
* * *
340404 TCTTTCT-TTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTTAG
1 TCTTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
340446 TCTTTCTA-TCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
1 TCTTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
340488 T-TTTCTATTCTTT
1 TCTTTCTATTCTTT
340501 ACTTATTATT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
41 6 0.12
42 44 0.88
ACGTcount: A:0.07, C:0.27, G:0.07, T:0.59
Consensus pattern (43 bp):
TCTTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
Found at i:354928 original size:132 final size:131
Alignment explanation
Indices: 354714--354976 Score: 370
Period size: 132 Copynumber: 2.0 Consensus size: 131
354704 TACAGAAAAA
354714 GGGAGCATGTATGTTACATCAACGGTTACAAGGATCAGCAAACCTATGTTACAATTCGCATCAAG
1 GGGAGCATGTATGTTACATCAACGGTTACAAGGATCAGCAAACCTATGTTACAATTCGCATCAAG
354779 CTCATCTATGCCCCTATTACAAACTAACATATCGATTACAAGTATATACAAGCATGAACAAGTGC
66 CTCATCTATG-CCCTATTACAAACTAACATATCGATTACAAGTATATACAAGCATGAACAAGTGC
354844 TG
130 TG
* * * * *
354846 GGGAGCATTTATGTTACATCCATGGTTAC-AGCTGAATCAG-AAACACTATGTTACAATTTGTAT
1 GGGAGCATGTATGTTACATCAACGGTTACAAG--G-ATCAGCAAAC-CTATGTTACAATTCGCAT
* * * * *
354909 CTAGCTCATCTATG-GCTATTATAAATTAACATATTGATTACAAGTATATACAAGCATGAACAAG
62 CAAGCTCATCTATGCCCTATTACAAACTAACATATCGATTACAAGTATATACAAGCATGAACAAG
354973 TGCT
127 TGCT
354977 TACACAAAAA
Statistics
Matches: 117, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
131 2 0.02
132 76 0.65
133 5 0.04
134 34 0.29
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (131 bp):
GGGAGCATGTATGTTACATCAACGGTTACAAGGATCAGCAAACCTATGTTACAATTCGCATCAAG
CTCATCTATGCCCTATTACAAACTAACATATCGATTACAAGTATATACAAGCATGAACAAGTGCT
G
Found at i:355006 original size:132 final size:130
Alignment explanation
Indices: 354747--355249 Score: 422
Period size: 130 Copynumber: 3.7 Consensus size: 130
354737 GGTTACAAGG
* * * *
354747 ATCAGCAAACCTATGTTACAATTCGCATCAAGCTCATCTATGCCCCTATTACAAACTAACATATC
1 ATCAGCAAACCTATGTTACAATTTGCATCTAGCTCATCTATG--CCTATTATAAACTAACATATT
** * *** ** * *
354812 GATTACAAGTATATACAAGCATGAACAAGTGCTGGGGAGCATTTA-T-GTTA-CATCCATGGTTA
64 GATTACAAGTATATACAAGCATGAACAAGTGCT--TAAACAAAAACTGGGAAGTATGCAT-GTTA
*
354874 CAGCTGA
126 CA--TCA
* * *
354881 ATCAG-AAACACTATGTTACAATTTGTATCTAGCTCATCTATGGCTATTATAAATTAACATATTG
1 ATCAGCAAAC-CTATGTTACAATTTGCATCTAGCTCATCTATGCCTATTATAAACTAACATATTG
* *
354945 ATTACAAGTATATACAAGCATGAACAAGTGCTTACACAAAAACTGGGAAGTATGTATGTTACATC
65 ATTACAAGTATATACAAGCATGAACAAGTGCTTAAACAAAAACTGGGAAGTATGCATGTTACATC
355010 A
130 A
* * * * *
355011 A-CAGCGAACCTATGCTACAATTTGCATCTAAGCTCATCTATGCCCATTCTAAGCTAACATATTG
1 ATCAGCAAACCTATGTTACAATTTGCATCT-AGCTCATCTATGCCTATTATAAACTAACATATTG
* * * *
355075 ATTACAAGTGTATACAAGCATGAACAAGTGCTTAAACAGAAACCGGGGAGTATGCATGTTACATC
65 ATTACAAGTATATACAAGCATGAACAAGTGCTTAAACAAAAACTGGGAAGTATGCATGTTACATC
355140 A
130 A
* *
355141 ATGGTTACAGTTGGATAGGTGATCCTATGTTACAATTTGCATCTAGCTCATCTATGCCTATTCTA
1 A----T-CA---GCA-A----A-CCTATGTTACAATTTGCATCTAGCTCATCTATGCCTATTATA
* * ** * *
355206 CACTAACAAATCAATTACAAGTGTATACATAGCACGAACAAGTG
52 AACTAACATATTGATTACAAGTATATACA-AGCATGAACAAGTG
355250 TTGGCCTCGA
Statistics
Matches: 303, Mismatches: 44, Indels: 33
0.80 0.12 0.09
Matches are distributed among these distances:
129 21 0.07
130 99 0.33
131 1 0.00
132 58 0.19
133 8 0.03
134 34 0.11
136 2 0.01
139 1 0.00
140 1 0.00
144 45 0.15
145 33 0.11
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (130 bp):
ATCAGCAAACCTATGTTACAATTTGCATCTAGCTCATCTATGCCTATTATAAACTAACATATTGA
TTACAAGTATATACAAGCATGAACAAGTGCTTAAACAAAAACTGGGAAGTATGCATGTTACATCA
Found at i:355187 original size:274 final size:264
Alignment explanation
Indices: 354749--355249 Score: 600
Period size: 274 Copynumber: 1.9 Consensus size: 264
354739 TTACAAGGAT
*
354749 CAGCAAACCTATGTTACAATTCGCATCAAGCTCATCTATGCCCCTATTACAAACTAACATATCGA
1 CAGCAAACCTATGCTACAATTCGCATCAAGCTCATCTATGCCCCTATTACAAACTAACATATCGA
** *
354814 TTACAAGTATATACAAGCATGAACAAGTGCTGGGGAGCATTTATGTTACATCCATGGTTACAGCT
66 TTACAAGTATATACAAGCATGAACAAGTGCTGGGGAGCATGCATGTTACATCAATGGTTACAGCT
* * * * *
354879 GAATCAGAAACACTATGTTACAATTTGTATCTAGCTCATCTATGGCTATTATAAATTAACATATT
131 GAATCAGAAACACTATGTTACAATTTGCATCTAGCTCATCTATGCCTATTATAAACTAACAAATC
* *
354944 GATTACAAGTATATACA-AGCATGAACAAGTGCTTACACAAAAACTGGGAAGTATGTATGTTACA
196 AATTACAAGTATATACATAGCACGAACAAGTGCTTACACAAAAACTGGGAAGTATGTATGTTACA
355008 TCAA
261 TCAA
* * * *
355012 CAGCGAACCTATGCTACAATTTGCATCTAAGCTCATCTATG-CCC-ATT-CTAAGCTAACATATT
1 CAGCAAACCTATGCTACAATTCGCATC-AAGCTCATCTATGCCCCTATTAC-AAACTAACATATC
* *
355074 GATTACAAGTGTATACAAGCATGAACAAGTGCTTAAACAGAAACCGGGGAGTATGCATGTTACAT
64 GATTACAAGTATATACAAGCATGAACAAGTGC-T-----------GGGGAGCATGCATGTTACAT
* * * *
355139 CAATGGTTACAGTTGGAT-AGGTGATC-CTATGTTACAATTTGCATCTAGCTCATCTATGCCTAT
117 CAATGGTTACAGCTGAATCA-G-AAACACTATGTTACAATTTGCATCTAGCTCATCTATGCCTAT
* * *
355202 TCTACACTAACAAATCAATTACAAGTGTATACATAGCACGAACAAGTG
180 TATAAACTAACAAATCAATTACAAGTATATACATAGCACGAACAAGTG
355250 TTGGCCTCGA
Statistics
Matches: 197, Mismatches: 24, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
261 1 0.01
262 45 0.23
263 28 0.14
264 13 0.07
273 1 0.01
274 94 0.48
275 15 0.08
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (264 bp):
CAGCAAACCTATGCTACAATTCGCATCAAGCTCATCTATGCCCCTATTACAAACTAACATATCGA
TTACAAGTATATACAAGCATGAACAAGTGCTGGGGAGCATGCATGTTACATCAATGGTTACAGCT
GAATCAGAAACACTATGTTACAATTTGCATCTAGCTCATCTATGCCTATTATAAACTAACAAATC
AATTACAAGTATATACATAGCACGAACAAGTGCTTACACAAAAACTGGGAAGTATGTATGTTACA
TCAA
Found at i:365344 original size:14 final size:14
Alignment explanation
Indices: 365327--365357 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
365317 TAAAACTTCA
365327 AAATCCAAATCGAT
1 AAATCCAAATCGAT
365341 AAATCCAAATCGAT
1 AAATCCAAATCGAT
365355 AAA
1 AAA
365358 AAAAACCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.55, C:0.19, G:0.06, T:0.19
Consensus pattern (14 bp):
AAATCCAAATCGAT
Found at i:371193 original size:18 final size:17
Alignment explanation
Indices: 371152--371194 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
371142 ACTAAGGTTT
*
371152 TTATAAAATAGGATTTC
1 TTATAAAATAAGATTTC
*
371169 TTAATAAAATAATATTTC
1 TT-ATAAAATAAGATTTC
371187 TCTATAAA
1 T-TATAAA
371195 GTTTAGAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 19 0.86
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42
Consensus pattern (17 bp):
TTATAAAATAAGATTTC
Found at i:378599 original size:15 final size:15
Alignment explanation
Indices: 378571--378603 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
378561 CTGAGAGGAT
378571 AGCAGCAAAAGAAGC
1 AGCAGCAAAAGAAGC
378586 AGCAG-AAAAGGAAGC
1 AGCAGCAAAA-GAAGC
378601 AGC
1 AGC
378604 CAAAGCCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.52, C:0.18, G:0.30, T:0.00
Consensus pattern (15 bp):
AGCAGCAAAAGAAGC
Found at i:385134 original size:31 final size:31
Alignment explanation
Indices: 385096--385175 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
385086 CCCAATGTAA
*
385096 GAACAATTGCCTAGTTCAGG-CCACAATATGG
1 GAACAATTGCCAAGTTCAGGTCC-CAATATGG
** *
385127 GAACAATTATCAAGTTCAGGTCCCAATGTGG
1 GAACAATTGCCAAGTTCAGGTCCCAATATGG
* *
385158 GAATAGTTGCCAAGTTCA
1 GAACAATTGCCAAGTTCA
385176 AACCCTAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 38 0.95
32 2 0.05
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (31 bp):
GAACAATTGCCAAGTTCAGGTCCCAATATGG
Found at i:388952 original size:22 final size:23
Alignment explanation
Indices: 388927--388972 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
388917 CAACCAAATC
388927 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
388949 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
388972 A
1 A
388973 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:388978 original size:23 final size:23
Alignment explanation
Indices: 388934--388978 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
388924 ATCAATTCAA
*
388934 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
388957 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
388979 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:392763 original size:87 final size:87
Alignment explanation
Indices: 392571--392826 Score: 336
Period size: 87 Copynumber: 2.9 Consensus size: 87
392561 TCTTACAACG
* * * *
392571 ATTAGTAAGGAATTGATTCACTTTGTGTTGAAGCAGTTCAAATTACT-TGGCACTATTTTTTTTT
1 ATTAGTAAGGAACTGATTCACTTTGTGTTTAAGTAGTTGAAATTACTCT-GCAC--TTTTTTTTT
* *
392635 TCTAGATTCTTTAATGTTGCATACT
63 TCTAGATTCTTTTATGTTGCATACC
* * * * *
392660 ATTAGTAAGGAGCTGATTTACTTTGTGTTTAAGTAGTTGAAATTAGTCTGCACTTCTTTTTCTCT
1 ATTAGTAAGGAACTGATTCACTTTGTGTTTAAGTAGTTGAAATTACTCTGCACTTTTTTTTTTCT
392725 AGATTCTTTTATGTTGCATACC
66 AGATTCTTTTATGTTGCATACC
* * *
392747 ATTAGTAAGGAACTGATTCACTTCGTGTTTAAGTAGTTGAAGTTACTC-GATACTTTTTTTTTTC
1 ATTAGTAAGGAACTGATTCACTTTGTGTTTAAGTAGTTGAAATTACTCTG-CACTTTTTTTTTTC
392811 TAGATTCTTTTATGTT
65 TAGATTCTTTTATGTT
392827 AAATAGGAAT
Statistics
Matches: 146, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
86 1 0.01
87 100 0.68
89 44 0.30
90 1 0.01
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.47
Consensus pattern (87 bp):
ATTAGTAAGGAACTGATTCACTTTGTGTTTAAGTAGTTGAAATTACTCTGCACTTTTTTTTTTCT
AGATTCTTTTATGTTGCATACC
Found at i:401821 original size:25 final size:25
Alignment explanation
Indices: 401759--401821 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
401749 ACTCTAAAAA
*
401759 AGTAATAAAATTAATAATAAAACAAG
1 AGTAATAAAA-TAATAACAAAACAAG
* * * *
401785 AGTTATACAATAATAACAAAATAAT
1 AGTAATAAAATAATAACAAAACAAG
*
401810 AGTAATATAATA
1 AGTAATAAAATA
401822 TGAAATGTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 22 0.73
26 8 0.27
ACGTcount: A:0.62, C:0.05, G:0.06, T:0.27
Consensus pattern (25 bp):
AGTAATAAAATAATAACAAAACAAG
Found at i:402505 original size:32 final size:32
Alignment explanation
Indices: 402464--402528 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
402454 ATTTATTAAG
402464 TAAAAAATAAATATTAAACTTCAACTCAACTA
1 TAAAAAATAAATATTAAACTTCAACTCAACTA
402496 TAAAAAATAAATATTAAACTTCAACTCAACTA
1 TAAAAAATAAATATTAAACTTCAACTCAACTA
402528 T
1 T
402529 TTAAGAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.29
Consensus pattern (32 bp):
TAAAAAATAAATATTAAACTTCAACTCAACTA
Found at i:418171 original size:24 final size:28
Alignment explanation
Indices: 418126--418177 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 28
418116 TTGCATCTTA
418126 ATTTATAAACAAATGTATTTTTTAAATT
1 ATTTATAAACAAATGTATTTTTTAAATT
*
418154 ATTTAT-AA-AAA-GTATTTTTAAAAT
1 ATTTATAAACAAATGTATTTTTTAAAT
418178 AAAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 12 0.52
26 3 0.13
27 2 0.09
28 6 0.26
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (28 bp):
ATTTATAAACAAATGTATTTTTTAAATT
Found at i:424371 original size:26 final size:27
Alignment explanation
Indices: 424341--424407 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 27
424331 GTATTCAGGC
424341 TGCTAACACTAGCTTCTGAT-C-AGGAT
1 TGCTAACACTAGCTTCTGATACAAGG-T
* * *
424367 TGCTAACAGTATC-T-TGATACAATGT
1 TGCTAACACTAGCTTCTGATACAAGGT
424392 TGCTAACACTAGCTTC
1 TGCTAACACTAGCTTC
424408 AGAGAATCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
24 4 0.12
25 14 0.44
26 14 0.44
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.33
Consensus pattern (27 bp):
TGCTAACACTAGCTTCTGATACAAGGT
Found at i:431867 original size:34 final size:34
Alignment explanation
Indices: 431829--431932 Score: 112
Period size: 34 Copynumber: 3.2 Consensus size: 34
431819 AATATGTATA
431829 ATATATGACACTAATACAAAATAATTTTATGCCG
1 ATATATGACACTAATACAAAATAATTTTATGCCG
** * * *
431863 ATATATG-TGCTATATACATAAT-A-TGTAT---A
1 ATATATGACACTA-ATACAAAATAATTTTATGCCG
431892 ATATATGACACTAATACAAAATAATTTTATGCCG
1 ATATATGACACTAATACAAAATAATTTTATGCCG
431926 ATATATG
1 ATATATG
431933 TGCTCACCCT
Statistics
Matches: 53, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
29 15 0.28
30 4 0.08
31 4 0.08
32 4 0.08
33 4 0.08
34 22 0.42
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.36
Consensus pattern (34 bp):
ATATATGACACTAATACAAAATAATTTTATGCCG
Found at i:431908 original size:29 final size:29
Alignment explanation
Indices: 431813--431914 Score: 89
Period size: 29 Copynumber: 3.3 Consensus size: 29
431803 TGCATAATAT
*
431813 ATACATAATATGTATAATATATGACACTA
1 ATACAAAATATGTATAATATATGACACTA
* * **
431842 ATACAAAATAATTTTATGCCGATATATG-TGCTA
1 ATACAAAAT-A-TGTAT---AATATATGACACTA
*
431875 TATACATAATATGTATAATATATGACACTA
1 -ATACAAAATATGTATAATATATGACACTA
431905 ATACAAAATA
1 ATACAAAATA
431915 ATTTTATGCC
Statistics
Matches: 55, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
29 24 0.44
30 4 0.07
31 4 0.07
32 4 0.07
33 4 0.07
34 15 0.27
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (29 bp):
ATACAAAATATGTATAATATATGACACTA
Found at i:431909 original size:63 final size:63
Alignment explanation
Indices: 431810--431936 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
431800 ACATGCATAA
431810 TATATACATAATATGTATAATATATGACACTAATACAAAATAATTTTATGCCGATATATGTGC
1 TATATACATAATATGTATAATATATGACACTAATACAAAATAATTTTATGCCGATATATGTGC
431873 TATATACATAATATGTATAATATATGACACTAATACAAAATAATTTTATGCCGATATATGTGC
1 TATATACATAATATGTATAATATATGACACTAATACAAAATAATTTTATGCCGATATATGTGC
431936 T
1 T
431937 CACCCTAATA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (63 bp):
TATATACATAATATGTATAATATATGACACTAATACAAAATAATTTTATGCCGATATATGTGC
Found at i:434031 original size:47 final size:46
Alignment explanation
Indices: 433978--434070 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 46
433968 CTTCCCATCA
*
433978 AAACAATCTTACTCAAGAAACCAATTAAACCTCAAAATTTGTAGTAT
1 AAACAATCTTACTCAAGAAACCAATT-AACCTCAAAAATTGTAGTAT
*
434025 AAACAATCTTACTCAAGAAATCAATTAACCTCAAAAATTGTAGTAT
1 AAACAATCTTACTCAAGAAACCAATTAACCTCAAAAATTGTAGTAT
434071 TAACGTTATA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 19 0.43
47 25 0.57
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.28
Consensus pattern (46 bp):
AAACAATCTTACTCAAGAAACCAATTAACCTCAAAAATTGTAGTAT
Found at i:437631 original size:31 final size:31
Alignment explanation
Indices: 437596--437659 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
437586 ATTTTTAGGG
437596 TTAATATACT-ATTTGGTACCTGAGTTTGGTT
1 TTAATAT-CTAATTTGGTACCTGAGTTTGGTT
* * *
437627 TTAATGTTTAATTTGGTACCTGAGTTTTGTT
1 TTAATATCTAATTTGGTACCTGAGTTTGGTT
437658 TT
1 TT
437660 TATGTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.20, C:0.08, G:0.19, T:0.53
Consensus pattern (31 bp):
TTAATATCTAATTTGGTACCTGAGTTTGGTT
Found at i:437665 original size:31 final size:31
Alignment explanation
Indices: 437606--437666 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
437596 TTAATATACT
437606 ATTTGGTACCTGAGTTTGGTTTTAATGTTTA
1 ATTTGGTACCTGAGTTTGGTTTTAATGTTTA
* *
437637 ATTTGGTACCTGAGTTTTGTTTTTATGTTT
1 ATTTGGTACCTGAGTTTGGTTTTAATGTTT
437667 TTTTTTTCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.16, C:0.07, G:0.21, T:0.56
Consensus pattern (31 bp):
ATTTGGTACCTGAGTTTGGTTTTAATGTTTA
Found at i:440697 original size:25 final size:24
Alignment explanation
Indices: 440638--440698 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
440628 AGTTTTGGGT
440638 TAGAGTTTATGATTTAGGATTTATA
1 TAGAGTTTA-GATTTAGGATTTATA
* * *
440663 TTGGGTTTTAGATTTAGGGTTTATA
1 TAGAG-TTTAGATTTAGGATTTATA
440688 TAGAGCTTTAG
1 TAGAG-TTTAG
440699 GTTTCAGATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.26, C:0.02, G:0.25, T:0.48
Consensus pattern (24 bp):
TAGAGTTTAGATTTAGGATTTATA
Found at i:441356 original size:176 final size:175
Alignment explanation
Indices: 440974--441407 Score: 602
Period size: 176 Copynumber: 2.5 Consensus size: 175
440964 TCATCAACAA
* * * * * ** *
440974 CCAACTGGGCAGAAAAAAAATTCCTAACATAGTAAGAAGCAAACATTATAATATAAGGAGCCATT
1 CCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAGCCACT
* * * * * *
441039 GAAA-AATTAATCAACTTCACCACGTTTTCACAAAACATGCTTTGTCAATAAAATGTCGGCATAC
66 -AAATAATTAATCAATTTCACCACGTCTTCACAAAACATGCTCTATCAATAAAATATCGACATAC
* * *
441103 CAATCACTTCACGAACAAATGTTCAAAAAGAAAACGTTGCCAATCG
130 CAATCACTTCACAAACAAATGTTCAAAAAGAAAACGTGGCCAATAG
*
441149 CCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAACCACT
1 CCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAGCCACT
* * *
441214 AAATAATTAATCAATTTCACCACGTCTTCATAAAATATTCTCTATCAATAAAATATCGACATAAC
66 AAATAATTAATCAATTTCACCACGTCTTCACAAAACATGCTCTATCAATAAAATATCGACAT-AC
**
441279 CAATCACTTTGCAAACAAATGTTCAAAAAGAAAACGTGGCCAACTAG
130 CAATCACTTCACAAACAAATGTTCAAAAAGAAAACGTGGCCAA-TAG
* *
441326 -CAAGTGGGCAGGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAGGCCACT
1 CCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAGCCACT
441390 AAATAATTAATCAATTTC
66 AAATAATTAATCAATTTC
441408 CACATCTTAT
Statistics
Matches: 230, Mismatches: 26, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
174 3 0.01
175 105 0.46
176 120 0.52
177 2 0.01
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.23
Consensus pattern (175 bp):
CCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAGAAGCAAACATGATAATATGACAAGCCACT
AAATAATTAATCAATTTCACCACGTCTTCACAAAACATGCTCTATCAATAAAATATCGACATACC
AATCACTTCACAAACAAATGTTCAAAAAGAAAACGTGGCCAATAG
Found at i:441458 original size:18 final size:17
Alignment explanation
Indices: 441430--441467 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
441420 TTTTTATAAT
441430 TTTAATTTATAATTTAC
1 TTTAATTTATAATTTAC
441447 TTTAATTTTATAATTTAC
1 TTTAA-TTTATAATTTAC
441465 TTT
1 TTT
441468 CTCTCCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTAATTTATAATTTAC
Found at i:446660 original size:173 final size:175
Alignment explanation
Indices: 446112--446827 Score: 909
Period size: 175 Copynumber: 4.1 Consensus size: 175
446102 CGAACATCGT
* * * * * * *
446112 CAACCACCAACTGGGCAGGAAAAAAAATTCCTAACATAGTAAGAAGCAAACATTATAATATAACG
1 CAACCACCAAGTGGGCAAG-AAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACA
* * * * * *
446177 AGCCATTGAAA-AATTAATCAA-TTTCACCACGTTTTCATAAAACATGCTTTGTCAATAAAATGT
65 AACCACT-AAATAATTAATCAACTTT-ACCACATCTTCATAAAACATTCTCTGTCAATAAAATGT
* * *
446240 CGGCGTACCAATCACTTCACGAACAAATGTTCAAAAAGAAAACGTTGC
128 CGGCATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACGTCGC
* * *
446288 CAATCGCCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACACGATAATATGACAA
1 CAACCACCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
* ** * * *
446353 ACCACTAAATAATTAATCAATTTTACCATGTCTTCATAAAACATTCTCTGTTAATAAAATATCGA
66 ACCACTAAATAATTAATCAACTTTACCACATCTTCATAAAACATTCTCTGTCAATAAAATGTCGG
* * * *
446418 CATACCAATCACTTTGTGAACAAAGGTTCAAAAAGAAAACGTGGC
131 CATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACGTCGC
* *
446463 CAACCAGCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
1 CAACCACCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
* * *
446528 ACCACAAAATAATTAATCAA-TTT-CCACATCTTCATAAAACATTTTCTGTCAATAAAATTTCGG
66 ACCACTAAATAATTAATCAACTTTACCACATCTTCATAAAACATTCTCTGTCAATAAAATGTCGG
* * *
446591 CATACCAATCGCTTTGCGGACAAATGTTCAAAAAGAAAACGTCGC
131 CATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACGTCGC
*
446636 CAACCACCAAGTGGGCAAGAAACAAATTCTTAACATAGTAAAAAGCAAACATGATAATATGACAA
1 CAACCACCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
** *
446701 ACCACTAAATAATTAATCAACTTGATCATGACATCTCCATAAAACATTCTCTGTCAATAAAATGT
66 ACCACTAAATAATTAATCAACTT--T-ACCACATCTTCATAAAACATTCTCTGTCAATAAAATGT
* * * * * * * *
446766 CGGCAGATCAATCGCTTCGCAAACAAACGTTGAAAAAGAAAACATCGT
128 CGGCATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACGTCGC
446814 CAACCACCAAGTGG
1 CAACCACCAAGTGG
446828 TAGCTAATTG
Statistics
Matches: 473, Mismatches: 60, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
173 155 0.33
174 8 0.02
175 206 0.44
176 19 0.04
178 85 0.18
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.23
Consensus pattern (175 bp):
CAACCACCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
ACCACTAAATAATTAATCAACTTTACCACATCTTCATAAAACATTCTCTGTCAATAAAATGTCGG
CATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACGTCGC
Found at i:447619 original size:175 final size:175
Alignment explanation
Indices: 447304--447841 Score: 687
Period size: 175 Copynumber: 3.1 Consensus size: 175
447294 CGAACATCGT
* * * * *
447304 CAACCA-CCAACTGGGCAGGAAAAAAAATTCCTAACATAGTAAGAAGCAAACATTATAATATAAC
1 CAACCAGCCAAGTGGGCAGG-AAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGAC
* * * * * * *
447368 GAGCCATTGAAA-AATTAATCAATTTCACCACGTTTTCATAAAACATGCTTTGTCAATAAAATGT
65 AAACCACT-AAATAATTAATCAATTTCACCA-GTCTTCATAAAACATTCTCTGTCAATAAAATAT
* *
447432 CGGCATACCAATCACTTCACGAACAAATGTTCAAAAAGAAAACGTT-GC
128 CGACATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAAC-TTGGC
* * *
447480 CAATC-GCCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACACGATAATATGACA
1 CAACCAGCCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACA
*
447544 AACCACTAAATAATTAATCAATTTCACCATGTCTTCATAAAACATTCTCTGTTAATAAAATATCG
66 AACCACTAAATAATTAATCAATTTCACCA-GTCTTCATAAAACATTCTCTGTCAATAAAATATCG
* *
447609 ACATACCAATCACTTTGTGAACAAATGTTCAAAAAGAAAACTTGGC
130 ACATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACTTGGC
447655 CAACCAG-CAAGTGGGCAGGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACA
1 CAACCAGCCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACA
* * * *
447719 GACCACAAAATAATTAATCAATTTC-CACA-TCTTCATAAAACATTCTCTGTCAATAAAATTTTG
66 AACCACTAAATAATTAATCAATTTCAC-CAGTCTTCATAAAACATTCTCTGTCAATAAAATATCG
** * * * * *
447782 ACATACCAATTGCTTCGCGGACAAATGTTGAAAAAGAAAACATCGT
130 ACATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACTTGGC
447828 CAACCA-CCAAGTGG
1 CAACCAGCCAAGTGG
447842 TAGCTAATTG
Statistics
Matches: 318, Mismatches: 38, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
173 81 0.25
174 6 0.02
175 215 0.68
176 16 0.05
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.23
Consensus pattern (175 bp):
CAACCAGCCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACA
AACCACTAAATAATTAATCAATTTCACCAGTCTTCATAAAACATTCTCTGTCAATAAAATATCGA
CATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACTTGGC
Found at i:448855 original size:173 final size:173
Alignment explanation
Indices: 448318--449033 Score: 898
Period size: 175 Copynumber: 4.1 Consensus size: 173
448308 CGAACATCGT
* * * * * *
448318 CAACCACCAACTGGGCAGGAAAAAAAATTCCTAACATAGTAAGAAGCAAACAT-TTAAATATAAC
1 CAACCACCAAGTGGGCAAG-AAACAAATTCCTAACATAGTAAAAAGCAAACATGAT-AATATGAC
* * * * * * *
448382 GAGCCATTGAAA-AATTAATCAATTTCACCACGTTTTCATAAAACATGCTTTGTCAATAAAATGT
64 AAACCACT-AAATAATTAATCAATTT--CCACATCTTCATAAAACATTCTCTGTCAATAAAATGT
* *
448446 CGGCATACCAATCACTTCACGAACAAATGTTCAAAAAGAAAACGTTGC
126 CGGCATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACGTCGC
* * *
448494 CAATCGCCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACACGATAATATGACAA
1 CAACCACCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
* *
448559 ACCACTAAATAATTAATCAATTT-CACCATGTCTTCATAAAACATTCTCTGTTAATAAAATATCG
66 ACCACTAAATAATTAATCAATTTCCA-CA--TCTTCATAAAACATTCTCTGTCAATAAAATGTCG
* * * *
448623 ACATACCAATCACTTTGTGAACAAATGTTCAAAAAGAAAACGTGGC
128 GCATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACGTCGC
* * * * *
448669 CAACTAGCAAGTGGGCAGGAAATAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAG
1 CAACCACCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
* *
448734 ACCACAAAATAATTAATCAATTTCCACATCTTCATAAAACATTCTCTGTCAATAAAATTTCGGCA
66 ACCACTAAATAATTAATCAATTTCCACATCTTCATAAAACATTCTCTGTCAATAAAATGTCGGCA
* *
448799 TACCAATCGCTTCGCGGACAAATGTTCAAAAAGAAAACGTCGC
131 TACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACGTCGC
*
448842 CAACCACCAAGTGGGCAAGAAACAAATTCTTAACATAGTAAAAAGCAAACATGATAATATGACAA
1 CAACCACCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
* *
448907 ACCACTAAATAATTAATCAACTTGATCATGACATCTCCATAAAACATTCTCTGTCAATAAAATGT
66 ACCACTAAATAATTAATCAA-TT--TC--CACATCTTCATAAAACATTCTCTGTCAATAAAATGT
* * * * * * * *
448972 CGGCAGATCAATCGCTTCGCAAACAAACGTTGAAAAAGAAAACATCGT
126 CGGCATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACGTCGC
449020 CAACCACCAAGTGG
1 CAACCACCAAGTGG
449034 TAGCTAATTG
Statistics
Matches: 471, Mismatches: 58, Indels: 20
0.86 0.11 0.04
Matches are distributed among these distances:
172 2 0.00
173 151 0.32
174 5 0.01
175 206 0.44
176 20 0.04
178 87 0.18
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.23
Consensus pattern (173 bp):
CAACCACCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
ACCACTAAATAATTAATCAATTTCCACATCTTCATAAAACATTCTCTGTCAATAAAATGTCGGCA
TACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACGTCGC
Found at i:449825 original size:175 final size:175
Alignment explanation
Indices: 449510--450047 Score: 687
Period size: 175 Copynumber: 3.1 Consensus size: 175
449500 CGAACATCGT
* * * * *
449510 CAACCA-CCAACTGGGCAGGAAAAAAAATTCCTAACATAGTAAGAAGCAAACATTATAATATAAC
1 CAACCAGCCAAGTGGGCAGG-AAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGAC
* * * * * * *
449574 GAGCCATTGAAA-AATTAATCAATTTCACCACGTTTTCATAAAACATGCTTTGTCAATAAAATGT
65 AAACCACT-AAATAATTAATCAATTTCACCA-GTCTTCATAAAACATTCTCTGTCAATAAAATAT
* *
449638 CGGCATACCAATCACTTCACGAACAAATGTTCAAAAAGAAAACGTT-GC
128 CGACATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAAC-TTGGC
* * *
449686 CAATC-GCCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACACGATAATATGACA
1 CAACCAGCCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACA
*
449750 AACCACTAAATAATTAATCAATTTCACCATGTCTTCATAAAACATTCTCTGTTAATAAAATATCG
66 AACCACTAAATAATTAATCAATTTCACCA-GTCTTCATAAAACATTCTCTGTCAATAAAATATCG
* *
449815 ACATACCAATCACTTTGTGAACAAATGTTCAAAAAGAAAACTTGGC
130 ACATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACTTGGC
449861 CAACCAG-CAAGTGGGCAGGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACA
1 CAACCAGCCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACA
* * * *
449925 GACCACAAAATAATTAATCAATTTC-CACA-TCTTCATAAAACATTCTCTGTCAATAAAATTTTG
66 AACCACTAAATAATTAATCAATTTCAC-CAGTCTTCATAAAACATTCTCTGTCAATAAAATATCG
** * * * * *
449988 ACATACCAATTGCTTCGCGGACAAATGTTGAAAAAGAAAACATCGT
130 ACATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACTTGGC
450034 CAACCA-CCAAGTGG
1 CAACCAGCCAAGTGG
450048 TAGCTAATTG
Statistics
Matches: 318, Mismatches: 38, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
173 81 0.25
174 6 0.02
175 215 0.68
176 16 0.05
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.23
Consensus pattern (175 bp):
CAACCAGCCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACA
AACCACTAAATAATTAATCAATTTCACCAGTCTTCATAAAACATTCTCTGTCAATAAAATATCGA
CATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACTTGGC
Found at i:451061 original size:173 final size:173
Alignment explanation
Indices: 450524--451239 Score: 898
Period size: 175 Copynumber: 4.1 Consensus size: 173
450514 CGAACATCGT
* * * * * *
450524 CAACCACCAACTGGGCAGGAAAAAAAATTCCTAACATAGTAAGAAGCAAACAT-TTAAATATAAC
1 CAACCACCAAGTGGGCAAG-AAACAAATTCCTAACATAGTAAAAAGCAAACATGAT-AATATGAC
* * * * * * *
450588 GAGCCATTGAAA-AATTAATCAATTTCACCACGTTTTCATAAAACATGCTTTGTCAATAAAATGT
64 AAACCACT-AAATAATTAATCAATTT--CCACATCTTCATAAAACATTCTCTGTCAATAAAATGT
* *
450652 CGGCATACCAATCACTTCACGAACAAATGTTCAAAAAGAAAACGTTGC
126 CGGCATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACGTCGC
* * *
450700 CAATCGCCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACACGATAATATGACAA
1 CAACCACCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
* *
450765 ACCACTAAATAATTAATCAATTT-CACCATGTCTTCATAAAACATTCTCTGTTAATAAAATATCG
66 ACCACTAAATAATTAATCAATTTCCA-CA--TCTTCATAAAACATTCTCTGTCAATAAAATGTCG
* * * *
450829 ACATACCAATCACTTTGTGAACAAATGTTCAAAAAGAAAACGTGGC
128 GCATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACGTCGC
* * * * *
450875 CAACTAGCAAGTGGGCAGGAAATAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAG
1 CAACCACCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
* *
450940 ACCACAAAATAATTAATCAATTTCCACATCTTCATAAAACATTCTCTGTCAATAAAATTTCGGCA
66 ACCACTAAATAATTAATCAATTTCCACATCTTCATAAAACATTCTCTGTCAATAAAATGTCGGCA
* *
451005 TACCAATCGCTTCGCGGACAAATGTTCAAAAAGAAAACGTCGC
131 TACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACGTCGC
*
451048 CAACCACCAAGTGGGCAAGAAACAAATTCTTAACATAGTAAAAAGCAAACATGATAATATGACAA
1 CAACCACCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
* *
451113 ACCACTAAATAATTAATCAACTTGATCATGACATCTCCATAAAACATTCTCTGTCAATAAAATGT
66 ACCACTAAATAATTAATCAA-TT--TC--CACATCTTCATAAAACATTCTCTGTCAATAAAATGT
* * * * * * * *
451178 CGGCAGATCAATCGCTTCGCAAACAAACGTTGAAAAAGAAAACATCGT
126 CGGCATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACGTCGC
451226 CAACCACCAAGTGG
1 CAACCACCAAGTGG
451240 TAGCTAATTG
Statistics
Matches: 471, Mismatches: 58, Indels: 20
0.86 0.11 0.04
Matches are distributed among these distances:
172 2 0.00
173 151 0.32
174 5 0.01
175 206 0.44
176 20 0.04
178 87 0.18
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.23
Consensus pattern (173 bp):
CAACCACCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
ACCACTAAATAATTAATCAATTTCCACATCTTCATAAAACATTCTCTGTCAATAAAATGTCGGCA
TACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACGTCGC
Found at i:452031 original size:175 final size:175
Alignment explanation
Indices: 451716--452253 Score: 687
Period size: 175 Copynumber: 3.1 Consensus size: 175
451706 CGAACATCGT
* * * * *
451716 CAACCA-CCAACTGGGCAGGAAAAAAAATTCCTAACATAGTAAGAAGCAAACATTATAATATAAC
1 CAACCAGCCAAGTGGGCAGG-AAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGAC
* * * * * * *
451780 GAGCCATTGAAA-AATTAATCAATTTCACCACGTTTTCATAAAACATGCTTTGTCAATAAAATGT
65 AAACCACT-AAATAATTAATCAATTTCACCA-GTCTTCATAAAACATTCTCTGTCAATAAAATAT
* *
451844 CGGCATACCAATCACTTCACGAACAAATGTTCAAAAAGAAAACGTT-GC
128 CGACATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAAC-TTGGC
* * *
451892 CAATC-GCCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACACGATAATATGACA
1 CAACCAGCCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACA
*
451956 AACCACTAAATAATTAATCAATTTCACCATGTCTTCATAAAACATTCTCTGTTAATAAAATATCG
66 AACCACTAAATAATTAATCAATTTCACCA-GTCTTCATAAAACATTCTCTGTCAATAAAATATCG
* *
452021 ACATACCAATCACTTTGTGAACAAATGTTCAAAAAGAAAACTTGGC
130 ACATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACTTGGC
452067 CAACCAG-CAAGTGGGCAGGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACA
1 CAACCAGCCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACA
* * * *
452131 GACCACAAAATAATTAATCAATTTC-CACA-TCTTCATAAAACATTCTCTGTCAATAAAATTTTG
66 AACCACTAAATAATTAATCAATTTCAC-CAGTCTTCATAAAACATTCTCTGTCAATAAAATATCG
** * * * * *
452194 ACATACCAATTGCTTCGCGGACAAATGTTGAAAAAGAAAACATCGT
130 ACATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACTTGGC
452240 CAACCA-CCAAGTGG
1 CAACCAGCCAAGTGG
452254 TAGCTAATTG
Statistics
Matches: 318, Mismatches: 38, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
173 81 0.25
174 6 0.02
175 215 0.68
176 16 0.05
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.23
Consensus pattern (175 bp):
CAACCAGCCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACA
AACCACTAAATAATTAATCAATTTCACCAGTCTTCATAAAACATTCTCTGTCAATAAAATATCGA
CATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACTTGGC
Found at i:453290 original size:173 final size:173
Alignment explanation
Indices: 452730--453445 Score: 851
Period size: 175 Copynumber: 4.1 Consensus size: 173
452720 CGAACATCGT
* * * * * * *
452730 CAACCACCAACTGGGCAGGAAAAAAAATTCCTAACATAGTAAGAAGCAAACATTATAATATAACG
1 CAACCACCAAGTGGGCAAG-AAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACA
* * * * * * *
452795 AGCCATTGAAA-AATTGATCAATTTCACCACGTTTTCATAAAACATGCTTTGTCAATAAAATGTC
65 AACCACT-AAATAATTAATCAATTT--CCACATCTTCATAAAACATTCTCTGTCAATAAAATGTC
* *
452859 GGCATACCAATCACTTCACGAACAAATGTTCAAAAAGAAAATGTTGC
127 GGCATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACGTTGC
* * *
452906 CAATCGCCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACACGATAATATGACAA
1 CAACCACCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
* *
452971 ACCACTAAATAATTAATCAATTT-CACCATGTCTTCATAAAACATTCTCTGTTAATAAAATATCG
66 ACCACTAAATAATTAATCAATTTCCA-CA--TCTTCATAAAACATTCTCTGTCAATAAAATGTCG
* * * * *
453035 ACATACCAATCACTTTGTGAACAAATATTCAAAAAGAAAACGTGGC
128 GCATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACGTTGC
* * * * * *
453081 CAACTAGCAAGTGGGCAGGAAATAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGATAG
1 CAACCACCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
* *
453146 ACCACAAAATAATTAATCAATTTCCACATCTTCATAAAACATTCTCTGTCAATAAAATTTCGGCA
66 ACCACTAAATAATTAATCAATTTCCACATCTTCATAAAACATTCTCTGTCAATAAAATGTCGGCA
* * *
453211 TACTAATCGCTTCGCGGACAAATGTTCAAAAAGAAAACGTTGC
131 TACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACGTTGC
* *
453254 CAACCACCAAGTGGGCAAGAAACAAATTCTTAACATAGTAAAAAGCAAATATGATAATATGACAA
1 CAACCACCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
* *
453319 ACCACTAAATAATTAATCAACTTGATCATGACATCTCCATAAAACATTCTCTGTCAATAAAATGT
66 ACCACTAAATAATTAATCAA-TT--TC--CACATCTTCATAAAACATTCTCTGTCAATAAAATGT
* * * ** * * * * *
453384 CGGCAGATCAATCGCTTCGTAAACAAACGTTGAAAAAGAAAACATCGT
126 CGGCATACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACGTTGC
453432 CAACCACCAAGTGG
1 CAACCACCAAGTGG
453446 TAGCTAATTG
Statistics
Matches: 461, Mismatches: 69, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
172 2 0.00
173 147 0.32
174 5 0.01
175 204 0.44
176 19 0.04
178 84 0.18
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.24
Consensus pattern (173 bp):
CAACCACCAAGTGGGCAAGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
ACCACTAAATAATTAATCAATTTCCACATCTTCATAAAACATTCTCTGTCAATAAAATGTCGGCA
TACCAATCACTTCGCGAACAAATGTTCAAAAAGAAAACGTTGC
Found at i:454341 original size:20 final size:20
Alignment explanation
Indices: 454298--454341 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
454288 TTTATTTATT
* * *
454298 AAAATAATAATTTTATGAAT
1 AAAATAATAATCTTATAAAC
454318 AAAATAATAATCTTATAAAC
1 AAAATAATAATCTTATAAAC
454338 AAAA
1 AAAA
454342 AAAAAGAAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAATAATAATCTTATAAAC
Found at i:454719 original size:20 final size:20
Alignment explanation
Indices: 454694--454739 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
454684 CAGAAAATAA
*
454694 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATAATTTACT
454714 TTTCT-GAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
454733 TTTCTGG
1 TTTCTGG
454740 TGTTTAGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:454839 original size:14 final size:16
Alignment explanation
Indices: 454819--454868 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 16
454809 ACTATTTTAC
454819 ATTATATTAATAAATTT
1 ATTATATTAATAAA-TT
454836 ATATATATTAATAAA-T
1 AT-TATATTAATAAATT
*
454852 -TTATATT-TTAAATT
1 ATTATATTAATAAATT
454866 ATT
1 ATT
454869 TTTACATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
13 4 0.14
14 7 0.24
15 3 0.10
16 1 0.03
17 2 0.07
18 12 0.41
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTATATTAATAAATT
Found at i:454844 original size:18 final size:18
Alignment explanation
Indices: 454821--454857 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
454811 TATTTTACAT
454821 TATATTAATAAATTTATA
1 TATATTAATAAATTTATA
454839 TATATTAATAAATTTATA
1 TATATTAATAAATTTATA
454857 T
1 T
454858 TTTAAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATATTAATAAATTTATA
Found at i:455333 original size:27 final size:21
Alignment explanation
Indices: 455282--455322 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
455272 AGAGGAAACA
455282 ACAAATGCAAAGAAAGATTAC
1 ACAAATGCAAAGAAAGATTAC
455303 ACAAATGCAAAGAAAGATTA
1 ACAAATGCAAAGAAAGATTA
455323 TAGCATTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.15
Consensus pattern (21 bp):
ACAAATGCAAAGAAAGATTAC
Found at i:464329 original size:99 final size:99
Alignment explanation
Indices: 464158--464363 Score: 394
Period size: 99 Copynumber: 2.1 Consensus size: 99
464148 TTTTTTTAAA
464158 GGATGTTTTGAAATGTAATATTGTTTTCTGATTGTCAAAATTTACTATTAGTTTGTGATGGATTT
1 GGATGTTTTGAAATGTAATATTGTTTTCTGATTGTCAAAATTTACTATTAGTTTGTGATGGATTT
464223 TGCTTTGAAAAGCTTAGAAGTAATGTTGTTTTAG
66 TGCTTTGAAAAGCTTAGAAGTAATGTTGTTTTAG
* *
464257 GGATGTTTTGAAATGTAATCTTGTTTTGTGATTGTCAAAATTTACTATTAGTTTGTGATGGATTT
1 GGATGTTTTGAAATGTAATATTGTTTTCTGATTGTCAAAATTTACTATTAGTTTGTGATGGATTT
464322 TGCTTTGAAAAGCTTAGAAGTAATGTTGTTTTAG
66 TGCTTTGAAAAGCTTAGAAGTAATGTTGTTTTAG
464356 GGATGTTT
1 GGATGTTT
464364 GTGATTGTCA
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 105 1.00
ACGTcount: A:0.26, C:0.05, G:0.22, T:0.47
Consensus pattern (99 bp):
GGATGTTTTGAAATGTAATATTGTTTTCTGATTGTCAAAATTTACTATTAGTTTGTGATGGATTT
TGCTTTGAAAAGCTTAGAAGTAATGTTGTTTTAG
Found at i:464414 original size:80 final size:80
Alignment explanation
Indices: 464281--464443 Score: 317
Period size: 80 Copynumber: 2.0 Consensus size: 80
464271 GTAATCTTGT
*
464281 TTTGTGATTGTCAAAATTTACTATTAGTTTGTGATGGATTTTGCTTTGAAAAGCTTAGAAGTAAT
1 TTTGTGATTGTCAAAATTTACTATTAGTTTGTGATGGATTTTGCTTCGAAAAGCTTAGAAGTAAT
464346 GTTGTTTTAGGGATG
66 GTTGTTTTAGGGATG
464361 TTTGTGATTGTCAAAATTTACTATTAGTTTGTGATGGATTTTGCTTCGAAAAGCTTAGAAGTAAT
1 TTTGTGATTGTCAAAATTTACTATTAGTTTGTGATGGATTTTGCTTCGAAAAGCTTAGAAGTAAT
464426 GTTGTTTTAGGGATG
66 GTTGTTTTAGGGATG
464441 TTT
1 TTT
464444 TGAAATGTAA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.45
Consensus pattern (80 bp):
TTTGTGATTGTCAAAATTTACTATTAGTTTGTGATGGATTTTGCTTCGAAAAGCTTAGAAGTAAT
GTTGTTTTAGGGATG
Found at i:464983 original size:2 final size:2
Alignment explanation
Indices: 464976--465015 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
464966 TAAATATGAG
464976 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
465016 TCATTCTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:465332 original size:2 final size:2
Alignment explanation
Indices: 465327--465353 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
465317 ATATATATAT
465327 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
465354 TATTTGATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:469154 original size:116 final size:114
Alignment explanation
Indices: 468889--469417 Score: 340
Period size: 116 Copynumber: 4.5 Consensus size: 114
468879 CTTTGAAATA
* * ** * * * *
468889 AATTCAAATTTATCAGCAAAGAAACACTAGTACAAATCAAA-AT-AAAAA-AAATGACAT-TGCT
1 AATTCAAATTAATCAGCAAAGAAATACTAACACAAATCAAATTTAAAAAAGAAATAAAATATGAT
* * * * *
468950 GAACTTTAAAATGAAAAGCGAGATCAAGAAGGACACAA-TGAACTAAAAATC
66 GAACTTTGAAATGAATAGCAAGATCTAG-AGGAGA-AATTGAACTAAAAA-C
* * *
469001 AATTCAAATTAATCACCAAAGAAATGCTAACACAAATCAAACTTTAAAAAAGACAATAATATAAT
1 AATTCAAATTAATCAGCAAAGAAATACTAACACAAATCAAA-TTTAAAAAAGA-AATAAAAT-AT
* *
469066 GGTGAACTTTGAAATGAATAGCCAGATCTAGAGTGAGAAATTGAACT-AAAA-
63 GATGAACTTTGAAATGAATAGCAAGATCTAGAG-GAGAAATTGAACTAAAAAC
* * * *
469117 AATTCAAATTTATCAGCAAAGAAATACTAACACAAATCAATTTTTATTTTTTAAGAAG-AAGAAA
1 AATTCAAATTAATCAGCAAAGAAATACTAACACAAATCAA-----A--TTTAAAAAAGAAATAAA
*
469181 ATATTGACGAACTTTGAAATGAATAGCAAGATCTAGAGCGAGAAATTGAACTAAAAATC
59 ATA-TGATGAACTTTGAAATGAATAGCAAGATCTAGAG-GAGAAATTGAACTAAAAA-C
* * * * * * * * * ** *
469240 AATTCAAATTAATCAGAAAAGAAACACCAATAAAAATCGAACTAAAAAAAGAGAGGAAATGTTGA
1 AATTCAAATTAATCAGCAAAGAAATACTAACACAAATCAAATTTAAAAAAGAAATAAAAT-ATGA
* ** * * * * *
469305 TGAACTTCGAAACCAATA-CGAGGTCTAGAAGGAGAAAATG-ACTCGAAATC
65 TGAACTTTGAAATGAATAGCAAGATCTAG-AGGAGAAATTGAACT-AAAAAC
* * ** * *
469355 AATTCAAACTAATCAGCAAAGAAAAACTATTATAAATCAAATTAACAAAAAAGAAATATAAAT
1 AATTCAAATTAATCAGCAAAGAAATACTAACACAAATCAAATT--TAAAAAAGAAATA-AAAT
469418 GAATAACGAG
Statistics
Matches: 329, Mismatches: 62, Indels: 46
0.75 0.14 0.11
Matches are distributed among these distances:
112 35 0.11
114 1 0.00
115 44 0.13
116 63 0.19
117 40 0.12
118 13 0.04
119 37 0.11
120 50 0.15
121 5 0.02
122 8 0.02
123 33 0.10
ACGTcount: A:0.52, C:0.13, G:0.13, T:0.22
Consensus pattern (114 bp):
AATTCAAATTAATCAGCAAAGAAATACTAACACAAATCAAATTTAAAAAAGAAATAAAATATGAT
GAACTTTGAAATGAATAGCAAGATCTAGAGGAGAAATTGAACTAAAAAC
Found at i:469594 original size:204 final size:203
Alignment explanation
Indices: 469244--469951 Score: 949
Period size: 204 Copynumber: 3.5 Consensus size: 203
469234 AAAATCAATT
* * * * * *
469244 CAAATTAATCAGAAAAGAAACACCAATAAAAATCGAACTAAAAAAAGAGAGGAAATGTTGATGAA
1 CAAATTAATCAGCAAAGAAACACTAATACAAATCAAACTAAAAAAAG-G-GGAAATATCGATGAA
* ** *
469309 CTTCGAAACCAAT-ACGAGGTCTAGAAGGAGAAAATGA-CTCGAAATCAATTCAAACTAATCAGC
64 CTTCGAAACGAATAACGAGGTCTAGAAGGAGAAAATGAGCTAAAAATGAATTCAAACTAATCAGC
* *
469372 AAAGAAAAACTATTATAAATCAAATTAACAAAAAAGAAATATAAATGAATAACGAGATCTAGAAG
129 AAAGAAAAACTATTATAAATCAAATTAA-AAAAAAGAAATATAAATGAATAGCGAGATCTAGAAC
469437 GAGAAATTGAA
193 GAGAAATTGAA
* * *
469448 CAAATTAATGAGCAAAGAAACACTAATTCAAATCAAAGTAAAAAAAGGGGAAATATCGATGAACT
1 CAAATTAATCAGCAAAGAAACACTAATACAAATCAAACTAAAAAAAGGGGAAATATCGATGAACT
* * * *
469513 TTGAAATGAATAACCAGGTCTAGAAGGAGAAAATAAGCTAAAAATGAATTCAAACTAATCAGCAA
66 TCGAAACGAATAACGAGGTCTAGAAGGAGAAAATGAGCTAAAAATGAATTCAAACTAATCAGCAA
* *
469578 AGAAAAACTATTATAAATCAAATTTTAAAAAAAGGAAATATAAATGAATAGCGAGATCTAGAACA
131 AGAAAAACTATTATAAATCAAA--TTAAAAAAAAGAAATATAAATGAATAGCGAGATCTAGAACG
469643 AGAAATTGAA
194 AGAAATTGAA
* * * ** *
469653 TAAAATAATCAGCAAAGAAACATTAATAC-AATCAAACTAAAAAAACCGGAAATATAGATGAACT
1 CAAATTAATCAGCAAAGAAACACTAATACAAATCAAACTAAAAAAAGGGGAAATATCGATGAACT
* * *
469717 TCGAAATGAATAACGAGGTCTGGAAGGAGAAAGTGAGCTAAAAATGAATTCAAACTAATCAGCAA
66 TCGAAACGAATAACGAGGTCTAGAAGGAGAAAATGAGCTAAAAATGAATTCAAACTAATCAGCAA
* * * *
469782 AGAAATACTATTATAAATC-ATTTAAAAAAAAGGAAATATAAACGAAGAGCGAGATCTAGAACGA
131 AGAAAAACTATTATAAATCAAATTAAAAAAAA-GAAATATAAATGAATAGCGAGATCTAGAACGA
469846 -AAGATTGAA
195 GAA-ATTGAA
* *
469855 CAAATTAATCAGCAAAGAAACACTAAAACAAATCAAACTAAAAAAAAGGGAAATATCGATGAACT
1 CAAATTAATCAGCAAAGAAACACTAATACAAATCAAACTAAAAAAAGGGGAAATATCGATGAACT
* * * * *
469920 TTGAAACGAACAGCTAGATCTAGAAGGAGAAA
66 TCGAAACGAATAACGAGGTCTAGAAGGAGAAA
469952 TAGAACTAAC
Statistics
Matches: 442, Mismatches: 55, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
201 11 0.02
202 83 0.19
203 81 0.18
204 196 0.44
205 67 0.15
206 4 0.01
ACGTcount: A:0.54, C:0.12, G:0.16, T:0.19
Consensus pattern (203 bp):
CAAATTAATCAGCAAAGAAACACTAATACAAATCAAACTAAAAAAAGGGGAAATATCGATGAACT
TCGAAACGAATAACGAGGTCTAGAAGGAGAAAATGAGCTAAAAATGAATTCAAACTAATCAGCAA
AGAAAAACTATTATAAATCAAATTAAAAAAAAGAAATATAAATGAATAGCGAGATCTAGAACGAG
AAATTGAA
Found at i:471535 original size:11 final size:12
Alignment explanation
Indices: 471519--471553 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
471509 TTTCCTAATA
471519 ATATTTAATTTT
1 ATATTTAATTTT
471531 A-ATTTAATTTT
1 ATATTTAATTTT
*
471542 ATTTTTAATTTT
1 ATATTTAATTTT
471554 GTAAATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
ATATTTAATTTT
Found at i:472186 original size:25 final size:24
Alignment explanation
Indices: 472140--472192 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
472130 TTTGTTGAAT
*
472140 ATTTGTAATTTTTATAACATTTAA
1 ATTTGTAATTTTTATAAAATTTAA
*
472164 ATTTGTAAATTTATT-TAAAATTTAG
1 ATTTGT-AATTT-TTATAAAATTTAA
472189 ATTT
1 ATTT
472193 ATTTATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 17 0.68
26 2 0.08
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.55
Consensus pattern (24 bp):
ATTTGTAATTTTTATAAAATTTAA
Found at i:472194 original size:17 final size:18
Alignment explanation
Indices: 472158--472197 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
472148 TTTTTATAAC
*
472158 ATTTAAATTTGTAAATTT
1 ATTTAAAATTGTAAATTT
*
472176 ATTTAAAATT-TAGATTT
1 ATTTAAAATTGTAAATTT
472193 ATTTA
1 ATTTA
472198 TTATTTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
ATTTAAAATTGTAAATTT
Found at i:474784 original size:5 final size:5
Alignment explanation
Indices: 474763--474796 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
474753 AATATGTTTT
* *
474763 ATATA ATAAA ATATA ATGTA ATATA ATATA ATAT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATAT
474797 TCATGGGCAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:475722 original size:20 final size:19
Alignment explanation
Indices: 475684--475761 Score: 72
Period size: 19 Copynumber: 4.2 Consensus size: 19
475674 ACTATTATTT
475684 AATTCAAATTTAAATAAAA
1 AATTCAAATTTAAATAAAA
*
475703 TATTCAAATTTAACATAAAA
1 AATTCAAATTTAA-ATAAAA
* * *
475723 AATTCGAGTTT--AT-ACA
1 AATTCAAATTTAAATAAAA
* *
475739 AATTAAAATTAAAATAAAA
1 AATTCAAATTTAAATAAAA
475758 AATT
1 AATT
475762 ATTTAAAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
16 9 0.20
17 2 0.04
18 2 0.04
19 18 0.40
20 14 0.31
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (19 bp):
AATTCAAATTTAAATAAAA
Found at i:476619 original size:34 final size:35
Alignment explanation
Indices: 476580--476654 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
476570 CTAAAATGAT
476580 AAGATTTTAAAT-TA-GGCGTCCAACAAAAACTATA
1 AAGATTTT-AATGTACGGCGTCCAACAAAAACTATA
* *
476614 AAGATTTTAATGTACGGGGTCCATCAAAAACTATA
1 AAGATTTTAATGTACGGCGTCCAACAAAAACTATA
476649 AAGATT
1 AAGATT
476655 ACAACTAGCC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 3 0.08
34 10 0.27
35 24 0.65
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (35 bp):
AAGATTTTAATGTACGGCGTCCAACAAAAACTATA
Found at i:478581 original size:70 final size:70
Alignment explanation
Indices: 478499--478637 Score: 251
Period size: 70 Copynumber: 2.0 Consensus size: 70
478489 TCATACAATT
* *
478499 ATTTTAGTAAAACAATAATTATCATTAAAATACTCAAAAATATAATAATACTATCGAACTTTTAA
1 ATTTTAGTAAAACAATAATTATCATTAAAATACCCAAAAATATAATAATACCATCGAACTTTTAA
478564 TTTTG
66 TTTTG
*
478569 ATTTTAGTAAAACAATAATTATCATTAAAATACCCAAAAATATAATAATACCATCGAACTTTTGA
1 ATTTTAGTAAAACAATAATTATCATTAAAATACCCAAAAATATAATAATACCATCGAACTTTTAA
478634 TTTT
66 TTTT
478638 ATAAATGAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.37
Consensus pattern (70 bp):
ATTTTAGTAAAACAATAATTATCATTAAAATACCCAAAAATATAATAATACCATCGAACTTTTAA
TTTTG
Found at i:480301 original size:38 final size:40
Alignment explanation
Indices: 480231--480318 Score: 135
Period size: 38 Copynumber: 2.2 Consensus size: 40
480221 TAAAAAGTAT
*
480231 TTATATTAAAAACACTACCATAAATATAATAAATATTTTA
1 TTATATTAAAAACACTACAATAAATATAATAAATATTTTA
*
480271 TTATATTAAAAACAC-A-AATAAATATAATAAATGTTTTA
1 TTATATTAAAAACACTACAATAAATATAATAAATATTTTA
*
480309 TTTTATTAAA
1 TTATATTAAA
480319 TATAATTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 29 0.64
39 1 0.02
40 15 0.33
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.40
Consensus pattern (40 bp):
TTATATTAAAAACACTACAATAAATATAATAAATATTTTA
Found at i:483558 original size:2 final size:2
Alignment explanation
Indices: 483551--483579 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
483541 GTTGATATTA
483551 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
483580 ATAGTTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:486217 original size:20 final size:20
Alignment explanation
Indices: 486194--486236 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
486184 AAATCCAAAT
486194 TAAAATACTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
*
486214 TAAAATCCTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
486234 TAA
1 TAA
486237 GAGTACTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.26
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:488554 original size:2 final size:2
Alignment explanation
Indices: 488547--488575 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
488537 AAATATTTTA
488547 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
488576 GTAAATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:491543 original size:14 final size:14
Alignment explanation
Indices: 491526--491568 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
491516 ATATTACATA
491526 AAAAATATATTTAT
1 AAAAATATATTTAT
*
491540 AAAAAT-T-TATAT
1 AAAAATATATTTAT
*
491552 GAAAATATATTTAT
1 AAAAATATATTTAT
491566 AAA
1 AAA
491569 TTTCACTGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
12 9 0.39
13 2 0.09
14 12 0.52
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
AAAAATATATTTAT
Found at i:495314 original size:85 final size:83
Alignment explanation
Indices: 495188--495344 Score: 183
Period size: 85 Copynumber: 1.9 Consensus size: 83
495178 TTCATAGATC
* * *
495188 AAAACATAAGTTTATTATGCATTAATTTATAATTTTATTATTTTTGAAG-GGACTAAATAGAAAT
1 AAAACATAAGTTTATTATACATTAATTTATAATTCTATTATTTAT-AAGAGGACTAAATAGAAA-
495252 TATTTTTATTTTTAGGGGGCT
64 -ATTTTTATTTTTAGGGGGCT
* * * * * *
495273 AAAATATAATTTTATTATATATTAATTTCTAATCTCT-TTATTTATAAGAGGACTGAATTGAAAA
1 AAAACATAAGTTTATTATACATTAATTTATAAT-TCTATTATTTATAAGAGGACTAAATAGAAAA
495337 TTTTTATT
65 TTTTTATT
495345 CTGGGAGGCC
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
83 9 0.15
84 3 0.05
85 47 0.77
86 2 0.03
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (83 bp):
AAAACATAAGTTTATTATACATTAATTTATAATTCTATTATTTATAAGAGGACTAAATAGAAAAT
TTTTATTTTTAGGGGGCT
Found at i:495437 original size:82 final size:83
Alignment explanation
Indices: 495258--495438 Score: 181
Period size: 82 Copynumber: 2.2 Consensus size: 83
495248 AAATTATTTT
* * * * * *
495258 TATTTTTAGGGGGCTAAAATATAATTTTATTATATATTAATTTCTAATCTCTTTATTTATAAGAG
1 TATTTTTAGGGGGCCAAAATATAAGTTTACTACATATTAATTTATAATCTCTCTATTTATAAGAG
* ****
495323 GACTGAATTGAAAATTTT
66 GACTAAATTGAAAAAAAA
* * *
495341 TA-TTCT-GGGAGGCCAAAATGA-AAGTTTACTACATATTAATTTATAGTTTCTCTATTTATAA-
1 TATTTTTAGGG-GGCCAAAAT-ATAAGTTTACTACATATTAATTTATAATCTCTCTATTTATAAG
*
495402 ATGACTAAATTGAAAAAAAA
64 AGGACTAAATTGAAAAAAAA
495422 TATTTTTAGGGGGCCAA
1 TATTTTTAGGGGGCCAA
495439 GTCCCTACCT
Statistics
Matches: 78, Mismatches: 16, Indels: 9
0.76 0.16 0.09
Matches are distributed among these distances:
81 19 0.24
82 53 0.68
83 6 0.08
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (83 bp):
TATTTTTAGGGGGCCAAAATATAAGTTTACTACATATTAATTTATAATCTCTCTATTTATAAGAG
GACTAAATTGAAAAAAAA
Found at i:496705 original size:21 final size:21
Alignment explanation
Indices: 496681--496723 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
496671 TAATAGTCAC
496681 ATCATTTGTTTGTATTTTACA
1 ATCATTTGTTTGTATTTTACA
496702 ATCATTTGTTTGTATTTTACA
1 ATCATTTGTTTGTATTTTACA
496723 A
1 A
496724 AAATGAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (21 bp):
ATCATTTGTTTGTATTTTACA
Found at i:497606 original size:51 final size:52
Alignment explanation
Indices: 497502--497608 Score: 162
Period size: 52 Copynumber: 2.1 Consensus size: 52
497492 TGTGGCATGT
* * *
497502 AAATGGACCCCTGCAATAACCCTTTTTCAGTAAAATAAAGAAATCCCGACCA
1 AAATGGACCCCTGAAAGAACCCTTTTTCAATAAAATAAAGAAATCCCGACCA
* *
497554 AAATGGACCCCTGAAAGAACTCTTTTTCAAT-AAATAAAGAATTCCCGACCA
1 AAATGGACCCCTGAAAGAACCCTTTTTCAATAAAATAAAGAAATCCCGACCA
497605 AAAT
1 AAAT
497609 TCACAAGAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
51 23 0.46
52 27 0.54
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.22
Consensus pattern (52 bp):
AAATGGACCCCTGAAAGAACCCTTTTTCAATAAAATAAAGAAATCCCGACCA
Found at i:498123 original size:22 final size:24
Alignment explanation
Indices: 498084--498129 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
498074 GATTTTATTT
498084 TTTAAAAATTTATGAAAAT-ATAA
1 TTTAAAAATTTATGAAAATGATAA
* *
498107 TTTATAAA-TTATTAAAATGATAA
1 TTTAAAAATTTATGAAAATGATAA
498130 AATTACATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (24 bp):
TTTAAAAATTTATGAAAATGATAA
Found at i:499816 original size:27 final size:29
Alignment explanation
Indices: 499757--499816 Score: 70
Period size: 31 Copynumber: 2.1 Consensus size: 29
499747 TTTTAACTGA
*
499757 AAGAACTAATTTATTATTTATTTTAATGTAT
1 AAGAACTAATTTATTAATTATTTTAA--TAT
*
499788 AAGAATTAATTTATTAATT-TTTTAA-AT
1 AAGAACTAATTTATTAATTATTTTAATAT
499815 AA
1 AA
499817 AAAAGATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.15
30 6 0.22
31 17 0.63
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (29 bp):
AAGAACTAATTTATTAATTATTTTAATAT
Found at i:505714 original size:257 final size:257
Alignment explanation
Indices: 505253--505736 Score: 835
Period size: 257 Copynumber: 1.9 Consensus size: 257
505243 CAATATTCCT
* *
505253 TATAGAATTCAAGATCCTTACAACTACTATGATTCTATCGTTAACCAGACCGATTCAAAATCACT
1 TATAGAATTCAAGATCATTACAACTACTATGATTCTATCATTAACCAGACCGATTCAAAATCACT
* * *
505318 TATATTAAGAAAGAAAAAAAGGAATTCAAGCAAGCAAACGATTCGGTGCATGCTTTTTAAACAAA
66 TAAACTAAGAAAGAAAAAAAGGAATTCAAGCAAGCAAACGATTCGGCGCATGCTTTTTAAACAAA
505383 CAATTCAAGTAATATTTAAACATGATAATCATGCAAGTAATTAGGGTACCTAAACAGAGATCGAG
131 CAATTCAAGTAATATTTAAACATGATAATCATGCAAGTAATTAGGGTACCTAAACAGAGATCGAG
*
505448 AATAAGATCCGGCATCGTCTCGCAGTTTTTCCCTTGGTTTTTCTTTCGACGCCACTGATCCA
196 AAGAAGATCCGGCATCGTCTCGCAGTTTTTCCCTTGGTTTTTCTTTCGACGCCACTGATCCA
*
505510 TATAGAATTCAAGATCATTACAACTATTATGATTCTATCATTAACCAGACCGATTCAAAATCACT
1 TATAGAATTCAAGATCATTACAACTACTATGATTCTATCATTAACCAGACCGATTCAAAATCACT
*** *
505575 TAAACTAAGGGGGAAAATAAA-GAATTCAAGCAAGCAAACGATTCGGCGCATGCTTTTTGAACAA
66 TAAACTAAGAAAGAAAA-AAAGGAATTCAAGCAAGCAAACGATTCGGCGCATGCTTTTTAAACAA
* *
505639 ACAATTCAAGTAATATTTAAACATGATAATTATGCAAGTAATTAGGGTACCTAAACAGAGGTCGA
130 ACAATTCAAGTAATATTTAAACATGATAATCATGCAAGTAATTAGGGTACCTAAACAGAGATCGA
505704 GAAGAAGATCCGGCATCGTCTCGCAGTTTTTCC
195 GAAGAAGATCCGGCATCGTCTCGCAGTTTTTCC
505737 TTCGACGCCA
Statistics
Matches: 213, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
257 210 0.99
258 3 0.01
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (257 bp):
TATAGAATTCAAGATCATTACAACTACTATGATTCTATCATTAACCAGACCGATTCAAAATCACT
TAAACTAAGAAAGAAAAAAAGGAATTCAAGCAAGCAAACGATTCGGCGCATGCTTTTTAAACAAA
CAATTCAAGTAATATTTAAACATGATAATCATGCAAGTAATTAGGGTACCTAAACAGAGATCGAG
AAGAAGATCCGGCATCGTCTCGCAGTTTTTCCCTTGGTTTTTCTTTCGACGCCACTGATCCA
Found at i:509802 original size:15 final size:16
Alignment explanation
Indices: 509779--509820 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
509769 TTTGATTTTC
*
509779 TTCTCTTCTTCTTC-T
1 TTCTTTTCTTCTTCTT
509794 TTCTTTTCTT-TTCTT
1 TTCTTTTCTTCTTCTT
509809 TTCTTTTCTTCT
1 TTCTTTTCTTCT
509821 ATTTTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 3 0.12
15 20 0.83
16 1 0.04
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCTTTTCTTCTTCTT
Found at i:509825 original size:15 final size:14
Alignment explanation
Indices: 509779--509843 Score: 51
Period size: 15 Copynumber: 4.5 Consensus size: 14
509769 TTTGATTTTC
*
509779 TTCTCTTCTTCTTCT
1 TTCTTTTCTTCTT-T
*
509794 TTCTTTTCTTTTCTT
1 TTCTTTTCTTCT-TT
509809 TTCTTTTCTTCTATT
1 TTCTTTTCTTCT-TT
* *
509824 TT-TTTTATTTTTT
1 TTCTTTTCTTCTTT
*
509837 TTATTTT
1 TTCTTTT
509844 TATTGTTTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
13 4 0.10
14 11 0.26
15 26 0.62
16 1 0.02
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (14 bp):
TTCTTTTCTTCTTT
Found at i:509834 original size:5 final size:5
Alignment explanation
Indices: 509779--509818 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
509769 TTTGATTTTC
*
509779 TTCTC TTCTT CTTC-T TTCTT TTCTT TTCTT TTCTT TTCTT
1 TTCTT TTCTT -TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT
509819 CTATTTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
4 3 0.09
5 26 0.81
6 3 0.09
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (5 bp):
TTCTT
Found at i:509844 original size:10 final size:9
Alignment explanation
Indices: 509797--509844 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
509787 TTCTTCTTTC
*
509797 TTTTCTTTT
1 TTTTATTTT
*
509806 CTTTTCTTTT
1 -TTTTATTTT
*
509816 CTTCTATTTT
1 -TTTTATTTT
509826 TTTTATTTT
1 TTTTATTTT
509835 TTTTATTTT
1 TTTTATTTT
509844 T
1 T
509845 ATTGTTTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
9 18 0.51
10 17 0.49
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTATTTT
Found at i:513661 original size:21 final size:23
Alignment explanation
Indices: 513625--513666 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
513615 AACTAAATAA
*
513625 GATTTTTTATTCAAAT-AACTAT
1 GATTTTTAATTCAAATGAACTAT
513647 GATTTTTAATT-AAATGAACT
1 GATTTTTAATTCAAATGAACT
513667 CATAAAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (23 bp):
GATTTTTAATTCAAATGAACTAT
Found at i:522611 original size:15 final size:15
Alignment explanation
Indices: 522587--522617 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
522577 CAATGCCTAA
*
522587 AACTATCAATAGTTT
1 AACTACCAATAGTTT
522602 AACTACCAATAGTTT
1 AACTACCAATAGTTT
522617 A
1 A
522618 GTCCCTTCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.35
Consensus pattern (15 bp):
AACTACCAATAGTTT
Found at i:525321 original size:39 final size:39
Alignment explanation
Indices: 525267--525346 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
525257 AAGAGCTATC
525267 TGAAGGTGGTGATGATT-TTTGCTTAGGAGGAGGAGGTGA
1 TGAAGGTGGTGATGATTGTTT-CTTAGGAGGAGGAGGTGA
* *
525306 TGAAGGTGGTGATGATTGTTTCTTAGGAGGTGGCGGTGA
1 TGAAGGTGGTGATGATTGTTTCTTAGGAGGAGGAGGTGA
525345 TG
1 TG
525347 GTGACGATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 35 0.92
40 3 0.08
ACGTcount: A:0.20, C:0.04, G:0.44, T:0.33
Consensus pattern (39 bp):
TGAAGGTGGTGATGATTGTTTCTTAGGAGGAGGAGGTGA
Found at i:525420 original size:3 final size:3
Alignment explanation
Indices: 525414--525443 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
525404 ATTGTTCCTC
525414 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
525444 TGAAGGTGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:527769 original size:29 final size:29
Alignment explanation
Indices: 527727--527783 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
527717 AAGATTTAGT
527727 AATTAGATATAACTAAATTTTGGCACACC
1 AATTAGATATAACTAAATTTTGGCACACC
527756 AATTAGATATAACTAAATTTTGGCACAC
1 AATTAGATATAACTAAATTTTGGCACAC
527784 ATGGGTGGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (29 bp):
AATTAGATATAACTAAATTTTGGCACACC
Found at i:536495 original size:12 final size:13
Alignment explanation
Indices: 536478--536506 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
536468 TAATTGTTAA
536478 TTTTGTT-AAATT
1 TTTTGTTAAAATT
536490 TTTTGTTAAAATT
1 TTTTGTTAAAATT
536503 TTTT
1 TTTT
536507 AGTGTGACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTGTTAAAATT
Found at i:550756 original size:31 final size:31
Alignment explanation
Indices: 550697--550756 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
550687 GTTAATTTGA
*
550697 TCAATTTTAGTTCTTATATTATTTGAATTGG
1 TCAATTTTAGTTCTTATATTATTCGAATTGG
* *
550728 TCAATTTTAGTTTTTGTACTT-TTCGAATT
1 TCAATTTTAGTTCTTATA-TTATTCGAATT
550757 TTGAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 23 0.92
32 2 0.08
ACGTcount: A:0.23, C:0.08, G:0.12, T:0.57
Consensus pattern (31 bp):
TCAATTTTAGTTCTTATATTATTCGAATTGG
Found at i:551398 original size:2 final size:2
Alignment explanation
Indices: 551391--551419 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
551381 GCATATAATT
551391 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
551420 CACATTCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:552386 original size:31 final size:31
Alignment explanation
Indices: 552345--552405 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
552335 CTAGTGGCTC
* *
552345 AAATAAAAACTTTTAAATAGTTCAGTGACTT
1 AAATAAAAACTTTCAAATAGTCCAGTGACTT
*
552376 AAATGAAAACTTTCAAATAGTCCAGTGACT
1 AAATAAAAACTTTCAAATAGTCCAGTGACT
552406 ATTTTGTAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.31
Consensus pattern (31 bp):
AAATAAAAACTTTCAAATAGTCCAGTGACTT
Found at i:552782 original size:20 final size:21
Alignment explanation
Indices: 552747--552787 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
552737 TCAACTTTTG
* *
552747 TTAAAAATTTATAAATTATAT
1 TTAAAAATTTAAAAATAATAT
552768 TTAAAAA-TTAAAAATAATAT
1 TTAAAAATTTAAAAATAATAT
552788 ATATAATCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAAAAATTTAAAAATAATAT
Found at i:552955 original size:2 final size:2
Alignment explanation
Indices: 552950--552987 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
552940 ATATTTTAAA
552950 AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
552988 CGATGTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 31 0.91
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:556437 original size:2 final size:2
Alignment explanation
Indices: 556430--556458 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
556420 ATCCTTATTT
556430 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
556459 TAATATAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:556772 original size:2 final size:2
Alignment explanation
Indices: 556767--556811 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
556757 CTATATAGCC
556767 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
556809 AT A
1 AT A
556812 ATACGATCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:560134 original size:137 final size:137
Alignment explanation
Indices: 559888--560158 Score: 515
Period size: 137 Copynumber: 2.0 Consensus size: 137
559878 CTAGAATTTT
** *
559888 CTTTGATTTGAAGGTGTCTGATGGCTACCAAGAAATTAAAAGGGCGGCATATTTCGGAGGTGGTG
1 CTTTGATTCCAAGGTGTCTGATGGCTACCAAGAAATTAAAAGGGCGGCATATTTCGGAGGTGATG
559953 TTTTCTTCATGATTTTCGTTGACGCTCTAGATGTTCTTCATGGTTTTCCCACTAAGTTTCCTTGC
66 TTTTCTTCATGATTTTCGTTGACGCTCTAGATGTTCTTCATGGTTTTCCCACTAAGTTTCCTTGC
560018 ATTGTCC
131 ATTGTCC
560025 CTTTGATTCCAAGGTGTCTGATGGCTACCAAGAAATTAAAAGGGCGGCATATTTCGGAGGTGATG
1 CTTTGATTCCAAGGTGTCTGATGGCTACCAAGAAATTAAAAGGGCGGCATATTTCGGAGGTGATG
560090 TTTTCTTCATGATTTTCGTTGACGCTCTAGATGTTCTTCATGGTTTTCCCACTAAGTTTCCTTGC
66 TTTTCTTCATGATTTTCGTTGACGCTCTAGATGTTCTTCATGGTTTTCCCACTAAGTTTCCTTGC
560155 ATTG
131 ATTG
560159 CCCCAAATAT
Statistics
Matches: 131, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 131 1.00
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (137 bp):
CTTTGATTCCAAGGTGTCTGATGGCTACCAAGAAATTAAAAGGGCGGCATATTTCGGAGGTGATG
TTTTCTTCATGATTTTCGTTGACGCTCTAGATGTTCTTCATGGTTTTCCCACTAAGTTTCCTTGC
ATTGTCC
Found at i:562707 original size:28 final size:27
Alignment explanation
Indices: 562653--562711 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
562643 TTTTGACCTA
**
562653 AAAAAATTACTATTCAATTCTAACCCC
1 AAAAAATTAAAATTCAATTCTAACCCC
*
562680 AAAAAATTAAAATTCAATTCTAGCCCC
1 AAAAAATTAAAATTCAATTCTAACCCC
*
562707 CAAAA
1 AAAAA
562712 GATATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.25
Consensus pattern (27 bp):
AAAAAATTAAAATTCAATTCTAACCCC
Found at i:563540 original size:24 final size:24
Alignment explanation
Indices: 563512--563561 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
563502 ACCACCCGTA
* *
563512 TCCTCGGTTGTGGTTTGGAATTGT
1 TCCTCAGTTGTAGTTTGGAATTGT
563536 TCCTCAGTTGTAGTTTGGAATTGT
1 TCCTCAGTTGTAGTTTGGAATTGT
563560 TC
1 TC
563562 GATTAGTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.14, G:0.28, T:0.46
Consensus pattern (24 bp):
TCCTCAGTTGTAGTTTGGAATTGT
Found at i:564995 original size:28 final size:28
Alignment explanation
Indices: 564955--565010 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
564945 ATAACCAAAT
564955 CCTTTTACTTCTATCACTTAAAATGAAA
1 CCTTTTACTTCTATCACTTAAAATGAAA
564983 CCTTTTACTTCTATCACTTAAAATGAAA
1 CCTTTTACTTCTATCACTTAAAATGAAA
565011 TGAATGAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.39
Consensus pattern (28 bp):
CCTTTTACTTCTATCACTTAAAATGAAA
Found at i:569925 original size:113 final size:112
Alignment explanation
Indices: 569727--569937 Score: 386
Period size: 113 Copynumber: 1.9 Consensus size: 112
569717 TACCATCATC
*
569727 ATGGTAACCATACTGAGAAAGGAGGAAAATAACATAATATAATCCATCATACAAGGTTGATTTCA
1 ATGGTAACCATACTGAGAAAGGAGGAAAATAACATAATATAATCCACCATACAAGGTTGATTTCA
569792 CTCTAATTCAATCATCTACAAAAAAGGGGGGGGGGGGAGGAGGGAGAG
66 CTCTAATTCAATCATCTAC-AAAAAGGGGGGGGGGGGAGGAGGGAGAG
*
569840 ATGGTAACCATACTGAGAAAGGAGGAACATAACATAATATAATCCACCATACAAGGTTGATTTCA
1 ATGGTAACCATACTGAGAAAGGAGGAAAATAACATAATATAATCCACCATACAAGGTTGATTTCA
*
569905 CTCTAATTCAATCATCTACAAAGAGGGGGGGGG
66 CTCTAATTCAATCATCTACAAAAAGGGGGGGGG
569938 AGAAATTCAT
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
112 13 0.14
113 82 0.86
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (112 bp):
ATGGTAACCATACTGAGAAAGGAGGAAAATAACATAATATAATCCACCATACAAGGTTGATTTCA
CTCTAATTCAATCATCTACAAAAAGGGGGGGGGGGGAGGAGGGAGAG
Found at i:572009 original size:23 final size:23
Alignment explanation
Indices: 571979--572025 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
571969 AGAAACCGAG
571979 TAAATCAAAAAACTAATTTGAAC
1 TAAATCAAAAAACTAATTTGAAC
572002 TAAATCAAAAAACTAATTTGAAC
1 TAAATCAAAAAACTAATTTGAAC
572025 T
1 T
572026 GATGTATTTA
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:0.55, C:0.13, G:0.04, T:0.28
Consensus pattern (23 bp):
TAAATCAAAAAACTAATTTGAAC
Found at i:578655 original size:18 final size:17
Alignment explanation
Indices: 578628--578665 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
578618 CGAGTATGTG
578628 GAATATGTGCTACACCT
1 GAATATGTGCTACACCT
578645 GAATGATGTGCTACACCT
1 GAAT-ATGTGCTACACCT
578663 GAA
1 GAA
578666 CATACGACGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (17 bp):
GAATATGTGCTACACCT
Found at i:583934 original size:119 final size:119
Alignment explanation
Indices: 583723--583968 Score: 492
Period size: 119 Copynumber: 2.1 Consensus size: 119
583713 ATATTCAAAC
583723 TTTGAAAATAACATTATCGAAAAATACAATTACGAAACCCCAAAATAATCAATCTCCATGAACCA
1 TTTGAAAATAACATTATCGAAAAATACAATTACGAAACCCCAAAATAATCAATCTCCATGAACCA
583788 TAATACCGAAACAAACAATACATTAATCATACCAAGGGCTAGTTTGGCAATGTT
66 TAATACCGAAACAAACAATACATTAATCATACCAAGGGCTAGTTTGGCAATGTT
583842 TTTGAAAATAACATTATCGAAAAATACAATTACGAAACCCCAAAATAATCAATCTCCATGAACCA
1 TTTGAAAATAACATTATCGAAAAATACAATTACGAAACCCCAAAATAATCAATCTCCATGAACCA
583907 TAATACCGAAACAAACAATACATTAATCATACCAAGGGCTAGTTTGGCAATGTT
66 TAATACCGAAACAAACAATACATTAATCATACCAAGGGCTAGTTTGGCAATGTT
583961 TTTGAAAA
1 TTTGAAAA
583969 GTGCTTTTGA
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 127 1.00
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.25
Consensus pattern (119 bp):
TTTGAAAATAACATTATCGAAAAATACAATTACGAAACCCCAAAATAATCAATCTCCATGAACCA
TAATACCGAAACAAACAATACATTAATCATACCAAGGGCTAGTTTGGCAATGTT
Found at i:583978 original size:13 final size:13
Alignment explanation
Indices: 583960--584020 Score: 86
Period size: 13 Copynumber: 4.7 Consensus size: 13
583950 TTGGCAATGT
583960 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
*
583973 TTTTGAGAAGTGC
1 TTTTGAAAAGTGC
* *
583986 TGTGGAAAAGTGC
1 TTTTGAAAAGTGC
*
583999 TTTTGAGAAGTGC
1 TTTTGAAAAGTGC
584012 TTTTGAAAA
1 TTTTGAAAA
584021 ATTTGGTTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.36
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:584019 original size:26 final size:26
Alignment explanation
Indices: 583960--584020 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
583950 TTGGCAATGT
583960 TTTTGAAAAGTGCTTTTGAGAAGTGC
1 TTTTGAAAAGTGCTTTTGAGAAGTGC
* *
583986 TGTGGAAAAGTGCTTTTGAGAAGTGC
1 TTTTGAAAAGTGCTTTTGAGAAGTGC
584012 TTTTGAAAA
1 TTTTGAAAA
584021 ATTTGGTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.36
Consensus pattern (26 bp):
TTTTGAAAAGTGCTTTTGAGAAGTGC
Found at i:585008 original size:24 final size:25
Alignment explanation
Indices: 584979--585050 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 25
584969 TTTAAAGTTT
584979 TATTTTAT-TTAAATAATTTTTTTA
1 TATTTTATATTAAATAATTTTTTTA
585003 TATTTTTATATAATAAAT-ATTTTTTTA
1 TA-TTTTATAT--TAAATAATTTTTTTA
* * *
585030 CAATTTATGTTAAATAATTTT
1 TATTTTATATTAAATAATTTT
585051 GAAGGGATCA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
24 7 0.17
25 11 0.28
26 7 0.17
27 10 0.25
28 5 0.12
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (25 bp):
TATTTTATATTAAATAATTTTTTTA
Found at i:585010 original size:21 final size:22
Alignment explanation
Indices: 584976--585016 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
584966 TTTTTTAAAG
*
584976 TTTTATTTTATTTAAATAATTT
1 TTTTATATTATTTAAATAATTT
*
584998 TTTTATATT-TTTATATAAT
1 TTTTATATTATTTAAATAAT
585017 AAATATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTATATTATTTAAATAATTT
Found at i:588456 original size:27 final size:27
Alignment explanation
Indices: 588416--588473 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 27
588406 AAATTTTTTT
588416 AAAAATAAACAAAATATCTCAAAATTTA
1 AAAAATAAACAAAATAT-TCAAAATTTA
* *
588444 AAAAATAAA-AAAATATTCCAAATTTC
1 AAAAATAAACAAAATATTCAAAATTTA
588470 AAAA
1 AAAA
588474 GCTTATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 12 0.43
27 7 0.25
28 9 0.32
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.24
Consensus pattern (27 bp):
AAAAATAAACAAAATATTCAAAATTTA
Found at i:597480 original size:13 final size:13
Alignment explanation
Indices: 597462--597500 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
597452 TACTAATAAC
597462 ATTATAAAAGTAG
1 ATTATAAAAGTAG
597475 ATTATAAAAGTAG
1 ATTATAAAAGTAG
597488 ATTATAAAAGTAG
1 ATTATAAAAGTAG
597501 GTGACCAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
ATTATAAAAGTAG
Found at i:608474 original size:28 final size:28
Alignment explanation
Indices: 608434--608489 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
608424 CAAAAATTTT
* * * *
608434 TAAGGGGTTTAATGAATTTTTTTAAAAA
1 TAAGGGATCTAATCAATTTTTTAAAAAA
608462 TAAGGGATCTAATCAATTTTTTAAAAAA
1 TAAGGGATCTAATCAATTTTTTAAAAAA
608490 ATTTGACGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.14, T:0.39
Consensus pattern (28 bp):
TAAGGGATCTAATCAATTTTTTAAAAAA
Done.