Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007851.1 Hibiscus syriacus cultivar Beakdansim tig00110210_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1608033
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 9
Found at i:290139 original size:17 final size:17
Alignment explanation
Indices: 290117--290181 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
290107 ACAGATTACA
290117 TCCTTCGGGATGATAGG
1 TCCTTCGGGATGATAGG
**
290134 TCCTTCGGGACACAT-ATAACA
1 TCCTTCGGG----ATGAT-AGG
290155 TCCTTCGGGATGATAGG
1 TCCTTCGGGATGATAGG
290172 TCCTTCGGGA
1 TCCTTCGGGA
290182 CATAGTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
17 22 0.58
18 2 0.05
20 2 0.05
21 12 0.32
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.28
Consensus pattern (17 bp):
TCCTTCGGGATGATAGG
Found at i:290139 original size:38 final size:38
Alignment explanation
Indices: 290088--290183 Score: 174
Period size: 38 Copynumber: 2.5 Consensus size: 38
290078 TACGAGACAT
*
290088 ATGATAGGTCCTTCGGGACACAGATTACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATAACATCCTTCGGG
*
290126 ATGATAGGTCCTTCGGGACACATATAACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATAACATCCTTCGGG
290164 ATGATAGGTCCTTCGGGACA
1 ATGATAGGTCCTTCGGGACA
290184 TAGTTTATAC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (38 bp):
ATGATAGGTCCTTCGGGACACAGATAACATCCTTCGGG
Found at i:291534 original size:4 final size:4
Alignment explanation
Indices: 291525--291650 Score: 95
Period size: 4 Copynumber: 32.8 Consensus size: 4
291515 AATTTTAATC
* * *
291525 CGCA CGCA CGCA CGCA CGCA CGCA CGCC CGCA CGCC CGCA CGCC CGCA
1 CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA
* * * * *
291573 CGCA CACA CCCA CATGCA CGCA --CA CACA CGCA C-AA CGCA TGCA CGCA
1 CGCA CGCA CGCA C--GCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA
* *
291620 CACA CG-- CGCA CGCA CG-- CGCG CGCA CGCA CGC
1 CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGC
291651 GCGCGCACAC
Statistics
Matches: 96, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
2 6 0.06
3 2 0.02
4 85 0.89
6 3 0.03
ACGTcount: A:0.25, C:0.52, G:0.22, T:0.02
Consensus pattern (4 bp):
CGCA
Found at i:291602 original size:10 final size:10
Alignment explanation
Indices: 291571--291674 Score: 50
Period size: 10 Copynumber: 10.3 Consensus size: 10
291561 CGCACGCCCG
291571 CACGCACACA
1 CACGCACACA
**
291581 C-C-CACATG
1 CACGCACACA
291589 CACGCACACA
1 CACGCACACA
*
291599 CACGCACAACG
1 CACGCAC-ACA
*
291610 CATGCACGCACA
1 CACGCA--CACA
* *
291622 CACGCGCACG
1 CACGCACACA
* * *
291632 CACGCGCGCG
1 CACGCACACA
* *
291642 CACGCACGCG
1 CACGCACACA
*
291652 CGCGCACACA
1 CACGCACACA
*
291662 CACACACACA
1 CACGCACACA
291672 CAC
1 CAC
291675 ATACATATAT
Statistics
Matches: 72, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
8 5 0.07
9 2 0.03
10 51 0.71
11 7 0.10
12 6 0.08
13 1 0.01
ACGTcount: A:0.31, C:0.49, G:0.18, T:0.02
Consensus pattern (10 bp):
CACGCACACA
Found at i:291641 original size:14 final size:14
Alignment explanation
Indices: 291613--291658 Score: 74
Period size: 14 Copynumber: 3.3 Consensus size: 14
291603 CACAACGCAT
* *
291613 GCACGCACACACGC
1 GCACGCACGCGCGC
291627 GCACGCACGCGCGC
1 GCACGCACGCGCGC
291641 GCACGCACGCGCGC
1 GCACGCACGCGCGC
291655 GCAC
1 GCAC
291659 ACACACACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.20, C:0.50, G:0.30, T:0.00
Consensus pattern (14 bp):
GCACGCACGCGCGC
Found at i:294390 original size:31 final size:31
Alignment explanation
Indices: 294352--294476 Score: 137
Period size: 31 Copynumber: 4.0 Consensus size: 31
294342 GAGTCGAGGG
*
294352 TTACCTATGTTCTTCGGGACATATTGACAGT
1 TTACCTATGTTCTTCGGGACATATGGACAGT
* *
294383 TTACCTATG-TCTTTCGAGACATATAGACAGT
1 TTACCTATGTTC-TTCGGGACATATGGACAGT
* * * *
294414 TTATCTATGTT-TTAAGGAACATGTGGACAGT
1 TTACCTATGTTCTT-CGGGACATATGGACAGT
* *
294445 TTACCTAGGTTCTTCGGGACCTATGGACAGT
1 TTACCTATGTTCTTCGGGACATATGGACAGT
294476 T
1 T
294477 GTCGAGGTTC
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
30 4 0.05
31 69 0.91
32 3 0.04
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACAGT
Found at i:295556 original size:26 final size:26
Alignment explanation
Indices: 295522--295590 Score: 86
Period size: 26 Copynumber: 2.6 Consensus size: 26
295512 TATATATATG
*
295522 TTAACTTAAAAATATTTTTTATTTTAAC
1 TTAA-TTAAAAATATTTTTT-TATTAAC
*
295550 TT-ATTAAATATATTTTTTTATTAAC
1 TTAATTAAAAATATTTTTTTATTAAC
*
295575 TTAATTTAAAATATTT
1 TTAATTAAAAATATTT
295591 CATTTTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 8 0.22
26 25 0.69
27 1 0.03
28 2 0.06
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (26 bp):
TTAATTAAAAATATTTTTTTATTAAC
Found at i:295621 original size:26 final size:26
Alignment explanation
Indices: 295553--295622 Score: 65
Period size: 26 Copynumber: 2.6 Consensus size: 26
295543 TTTTAACTTA
295553 TTAAATATATT-TTTTTATTAACTTAAT
1 TTAAATATATTATTTTTATT-A-TTAAT
*
295580 TTAAA-ATATTTCATTTTTATT-TTCAT
1 TTAAATATA-TT-ATTTTTATTATTAAT
295606 TTAAATATATATATTTT
1 TTAAATATAT-TATTTT
295623 ATGTTAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
26 18 0.49
27 11 0.30
29 8 0.22
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
TTAAATATATTATTTTTATTATTAAT
Found at i:301460 original size:21 final size:21
Alignment explanation
Indices: 301435--301488 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
301425 AAAAAATATT
301435 CATTTTAGGTAGAAAAATTAA
1 CATTTTAGGTAGAAAAATTAA
* * *
301456 TATTTCT-GTTGGAAAAATTAA
1 CATTT-TAGGTAGAAAAATTAA
*
301477 CATTTTATGTAG
1 CATTTTAGGTAG
301489 CGTTCTACTG
Statistics
Matches: 24, Mismatches: 7, Indels: 4
0.69 0.20 0.11
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.41
Consensus pattern (21 bp):
CATTTTAGGTAGAAAAATTAA
Found at i:301968 original size:2 final size:2
Alignment explanation
Indices: 301961--302007 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
301951 AGCTAAATGA
301961 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
302003 AT AT A
1 AT AT A
302008 ATTTAAGAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:305555 original size:59 final size:60
Alignment explanation
Indices: 305449--305577 Score: 215
Period size: 59 Copynumber: 2.2 Consensus size: 60
305439 ACTACACTAA
* * *
305449 TGGTGACTAATGTTTGATTAACTTTTCGTTTTCTCCATTAAAGTTCCAAAAGTAACACAT
1 TGGTCACTAATGTTTGAGTAACTTTTCGTTTTCTCCATTAAAGTTCCAAAAGTAACAAAT
*
305509 TGGTCACTAATGTTTGAGTAACTTTT-GTTTTCTCGATTAAAGTTCCAAAAGTAACAAAT
1 TGGTCACTAATGTTTGAGTAACTTTTCGTTTTCTCCATTAAAGTTCCAAAAGTAACAAAT
305568 TGGTCACTAA
1 TGGTCACTAA
305578 CGTTATTGAT
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
59 41 0.63
60 24 0.37
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (60 bp):
TGGTCACTAATGTTTGAGTAACTTTTCGTTTTCTCCATTAAAGTTCCAAAAGTAACAAAT
Found at i:305595 original size:31 final size:31
Alignment explanation
Indices: 305559--305629 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
305549 AGTTCCAAAA
* * *
305559 GTAACAAATTGGTCACTAACGTTATTGATTT
1 GTAACAAAATGATCACTAACGTTATCGATTT
**
305590 GTAACAAAATGATTGCTAACGTTATCGATTT
1 GTAACAAAATGATCACTAACGTTATCGATTT
*
305621 GTAATAAAA
1 GTAACAAAA
305630 AGGTCACTCC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (31 bp):
GTAACAAAATGATCACTAACGTTATCGATTT
Found at i:306236 original size:31 final size:31
Alignment explanation
Indices: 306201--306276 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
306191 AAAACGGTGA
* **
306201 AGTGACCATTTTGTTACAGATCGATAACGTT
1 AGTGACCATTTTGTTACAAATAAATAACGTT
* *
306232 AGTGACCATTTTTTTACAAATAAATAATGTT
1 AGTGACCATTTTGTTACAAATAAATAACGTT
* *
306263 AGTGATCAATTTGT
1 AGTGACCATTTTGT
306277 AGCTTTTAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (31 bp):
AGTGACCATTTTGTTACAAATAAATAACGTT
Found at i:306453 original size:2 final size:2
Alignment explanation
Indices: 306448--306483 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
306438 ATTATTATTA
306448 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
306484 TAAATAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:308887 original size:18 final size:19
Alignment explanation
Indices: 308856--308891 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
308846 TCTTTTTGAA
*
308856 ATTTTTATATATATTTATT
1 ATTTTCATATATATTTATT
308875 ATTTTCATA-ATATTTAT
1 ATTTTCATATATATTTAT
308892 ATATATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTCATATATATTTATT
Found at i:313476 original size:72 final size:72
Alignment explanation
Indices: 313385--313519 Score: 234
Period size: 72 Copynumber: 1.9 Consensus size: 72
313375 ATACAATAAA
313385 GCTTGAGTTACCCCCCTAAAGCAATTGGTTAATAGCCCCAACTTTATGGATAATAATCAGCTAGT
1 GCTTGAGTTACCCCCCTAAAGCAATTGGTTAATAGCCCCAACTTTATGGATAATAATCAGCTAGT
313450 CTGTTAT
66 CTGTTAT
* * * *
313457 GCTTGAGTTGCCCCTCTAAAGCAATTGGTTAATAGCCCCGACTTTATGGATAATATTCAGCTA
1 GCTTGAGTTACCCCCCTAAAGCAATTGGTTAATAGCCCCAACTTTATGGATAATAATCAGCTA
313520 ACCCATTATA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (72 bp):
GCTTGAGTTACCCCCCTAAAGCAATTGGTTAATAGCCCCAACTTTATGGATAATAATCAGCTAGT
CTGTTAT
Found at i:314321 original size:43 final size:43
Alignment explanation
Indices: 314272--314354 Score: 166
Period size: 43 Copynumber: 1.9 Consensus size: 43
314262 TTTTTAAGGT
314272 AAGTGGTCCAAGAAGCCAGAAAGCTTGGAGAATTGAACTTTGC
1 AAGTGGTCCAAGAAGCCAGAAAGCTTGGAGAATTGAACTTTGC
314315 AAGTGGTCCAAGAAGCCAGAAAGCTTGGAGAATTGAACTT
1 AAGTGGTCCAAGAAGCCAGAAAGCTTGGAGAATTGAACTT
314355 GTGGCACTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (43 bp):
AAGTGGTCCAAGAAGCCAGAAAGCTTGGAGAATTGAACTTTGC
Found at i:316078 original size:36 final size:36
Alignment explanation
Indices: 316031--316141 Score: 165
Period size: 36 Copynumber: 3.1 Consensus size: 36
316021 AGGGCCCATT
316031 TCAACCAGAAATAGAATATTGGGGCATTTTGAAGGC
1 TCAACCAGAAATAGAATATTGGGGCATTTTGAAGGC
316067 TCAACCAGAAATAGAATATTGGGGCATTTTGAAGGC
1 TCAACCAGAAATAGAATATTGGGGCATTTTGAAGGC
*
316103 TC-A-CA-ACAATATGAATATTTGGGCATTCTTGAAGGC
1 TCAACCAGA-AATA-GAATATTGGGGCATT-TTGAAGGC
316139 TCA
1 TCA
316142 TCTCAACAAG
Statistics
Matches: 70, Mismatches: 1, Indels: 7
0.90 0.01 0.09
Matches are distributed among these distances:
33 1 0.01
34 6 0.09
35 15 0.21
36 48 0.69
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (36 bp):
TCAACCAGAAATAGAATATTGGGGCATTTTGAAGGC
Found at i:318523 original size:76 final size:76
Alignment explanation
Indices: 318304--318716 Score: 650
Period size: 76 Copynumber: 5.4 Consensus size: 76
318294 CTATTTCCCA
* * *
318304 CATCTGTAAATCCTATAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
318369 AGCCTTAGGGT
66 AGCCTTAGGGT
*
318380 CA--TGTAAGTCATAAGTCCTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 CATCTGTAAGTCCT-A---C-AGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
318443 TTCAAAGCCTTAGGGT
61 TTCAAAGCCTTAGGGT
*
318459 CATCTGTAAGTCCTACAATGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
318524 AGCCTTAGGGT
66 AGCCTTAGGGT
*
318535 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
318600 AACCTTAGGGT
66 AGCCTTAGGGT
* * *
318611 CATTTGTAAGTCATACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
318676 AACCTTAGGGT
66 AGCCTTAGGGT
* *
318687 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
318717 TTAAAATTTC
Statistics
Matches: 313, Mismatches: 17, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
74 8 0.03
75 1 0.00
76 232 0.74
77 1 0.00
79 61 0.19
80 1 0.00
81 9 0.03
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:318855 original size:3 final size:3
Alignment explanation
Indices: 318847--318888 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
318837 CACTTTCATA
*
318847 TAT TAT TAT TAT TAT TAT TAA TAT ATAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TA
318889 AATAAATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:319385 original size:20 final size:20
Alignment explanation
Indices: 319352--319392 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
319342 AGGGATACGA
* *
319352 ACAACAACGGAGAAGAACAG
1 ACAACAACGAAGAAAAACAG
*
319372 ACAACTACGAAGAAAAACAG
1 ACAACAACGAAGAAAAACAG
319392 A
1 A
319393 GAGCAGAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.20, G:0.20, T:0.02
Consensus pattern (20 bp):
ACAACAACGAAGAAAAACAG
Found at i:321457 original size:28 final size:28
Alignment explanation
Indices: 321414--321478 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
321404 GTCTTTCTTC
*
321414 TTTGATATCCGTATCATAATGAATTTTA
1 TTTGATATCCGAATCATAATGAATTTTA
321442 TTTGATATCCGAATCATAATGAATTTTA
1 TTTGATATCCGAATCATAATGAATTTTA
321470 TTTGATATC
1 TTTGATATC
321479 ATACAACCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (28 bp):
TTTGATATCCGAATCATAATGAATTTTA
Found at i:321774 original size:30 final size:30
Alignment explanation
Indices: 321733--321805 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
321723 AGACGTCATG
*
321733 TCATCCAAACGTCTTTTTAAAGATACCATA
1 TCATCCTAACGTCTTTTTAAAGATACCATA
321763 TCATCCTAACGTCTTTTTAAAGATACCATA
1 TCATCCTAACGTCTTTTTAAAGATACCATA
321793 TCATCCTAACGTC
1 TCATCCTAACGTC
321806 CTCTAGTATG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.34
Consensus pattern (30 bp):
TCATCCTAACGTCTTTTTAAAGATACCATA
Found at i:322820 original size:20 final size:20
Alignment explanation
Indices: 322790--322827 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
322780 TGTCTTCTAG
322790 TTTCTATATAGTTATGAATGT
1 TTTCTATATAGTT-TGAATGT
322811 TTTCTA-ATAGTTTGAAT
1 TTTCTATATAGTTTGAAT
322828 AAGATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (20 bp):
TTTCTATATAGTTTGAATGT
Found at i:326870 original size:36 final size:35
Alignment explanation
Indices: 326824--326961 Score: 143
Period size: 36 Copynumber: 3.9 Consensus size: 35
326814 TGAATAAGAA
*
326824 GAACGAAAGGAAGAATCAACACTTTTGATTCAAAGT
1 GAACGGAAGGAAGAATCAACACTTTTGATTC-AAGT
* * * *
326860 GAATGGAAGGAAGCATCAACAGTTTTGATTCAAGAA
1 GAACGGAAGGAAGAATCAACACTTTTGATTCAAG-T
* ** **
326896 GAACGAAAGGAAGCAA-CGTCACTTTCAATTCAAGT
1 GAACGGAAGGAAG-AATCAACACTTTTGATTCAAGT
*
326931 GAACGGAAGGAAGCATCAACACTTTTGATTC
1 GAACGGAAGGAAGAATCAACACTTTTGATTC
326962 GATTGTTCAT
Statistics
Matches: 79, Mismatches: 20, Indels: 7
0.75 0.19 0.07
Matches are distributed among these distances:
34 1 0.01
35 26 0.33
36 51 0.65
37 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.22
Consensus pattern (35 bp):
GAACGGAAGGAAGAATCAACACTTTTGATTCAAGT
Found at i:326958 original size:71 final size:72
Alignment explanation
Indices: 326819--326961 Score: 209
Period size: 71 Copynumber: 2.0 Consensus size: 72
326809 GAAGGTGAAT
** * *
326819 AAGAAGAACGAAAGGAAGAATCAACACTTTTGATTCAAAGTGAATGGAAGGAAGCATCAACAGTT
1 AAGAAGAACGAAAGGAAGAATCAACACTTTCAATTCAAAGTGAACGGAAGGAAGCATCAACACTT
326884 TTGATTC
66 TTGATTC
**
326891 AAGAAGAACGAAAGGAAGCAA-CGTCACTTTCAATTC-AAGTGAACGGAAGGAAGCATCAACACT
1 AAGAAGAACGAAAGGAAG-AATCAACACTTTCAATTCAAAGTGAACGGAAGGAAGCATCAACACT
326954 TTTGATTC
65 TTTGATTC
326962 GATTGTTCAT
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 33 0.52
72 29 0.45
73 2 0.03
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (72 bp):
AAGAAGAACGAAAGGAAGAATCAACACTTTCAATTCAAAGTGAACGGAAGGAAGCATCAACACTT
TTGATTC
Found at i:328710 original size:28 final size:28
Alignment explanation
Indices: 328670--328743 Score: 130
Period size: 28 Copynumber: 2.6 Consensus size: 28
328660 CAAGCTTCTT
*
328670 CTCCCTCGTGCCATAGCTGCTCCCGCTA
1 CTCCCTCGTGCCATAGCTGCTCCAGCTA
*
328698 CTCCCTCGTGCCATAGCTGCTCTAGCTA
1 CTCCCTCGTGCCATAGCTGCTCCAGCTA
328726 CTCCCTCGTGCCATAGCT
1 CTCCCTCGTGCCATAGCT
328744 TCAAGATTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.12, C:0.43, G:0.18, T:0.27
Consensus pattern (28 bp):
CTCCCTCGTGCCATAGCTGCTCCAGCTA
Found at i:329170 original size:21 final size:21
Alignment explanation
Indices: 329117--329170 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
329107 GTAAAACAAA
329117 AATTT-AGTTAATTAGTTTGTT
1 AATTTAAGTT-ATTAGTTTGTT
* * *
329138 AGTATAAATTATTAGTTTGTT
1 AATTTAAGTTATTAGTTTGTT
329159 AATTTAAGTTAT
1 AATTTAAGTTAT
329171 ATTATATTAG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (21 bp):
AATTTAAGTTATTAGTTTGTT
Found at i:329178 original size:28 final size:28
Alignment explanation
Indices: 329147--329200 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
329137 TAGTATAAAT
*
329147 TATTAGTTTGTTAATTTAAGTTATATTA
1 TATTAGATTGTTAATTTAAGTTATATTA
*
329175 TATTAGATTGTTAGTTTAAGTTATAT
1 TATTAGATTGTTAATTTAAGTTATAT
329201 ATTAGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (28 bp):
TATTAGATTGTTAATTTAAGTTATATTA
Found at i:329621 original size:14 final size:14
Alignment explanation
Indices: 329602--329628 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
329592 GTAATTTATT
329602 ATTTTTTGTTGTTC
1 ATTTTTTGTTGTTC
329616 ATTTTTTGTTGTT
1 ATTTTTTGTTGTT
329629 GTGTATTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.04, G:0.15, T:0.74
Consensus pattern (14 bp):
ATTTTTTGTTGTTC
Found at i:329898 original size:16 final size:16
Alignment explanation
Indices: 329877--329907 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
329867 ATTATCAAAC
*
329877 TAATCATTATTATTAG
1 TAATCATTAATATTAG
329893 TAATCATTAATATTA
1 TAATCATTAATATTA
329908 AATCTAAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (16 bp):
TAATCATTAATATTAG
Found at i:330003 original size:81 final size:80
Alignment explanation
Indices: 329878--330035 Score: 191
Period size: 81 Copynumber: 2.0 Consensus size: 80
329868 TTATCAAACT
* *
329878 AATCATTATTATTAGTAATCATTAATATTAAATCTAAATCATT-A-AATATTTATAATAAATAAT
1 AATCATTATTATTAGTAATCATTAATATCAAATCTAAATCATTAATAATAATTAT--TAAATAAT
329941 TATTAGTAATCATTACTG
64 TATTAGTAAT-ATTACTG
* *
329959 AATCA-TATTATTATTATATCATTAAATATCAAAT-TATTAT-ATTAATAATAATTATTAAATAA
1 AATCATTATTATTAGTA-ATCATT-AATATCAAATCTA-AATCATTAATAATAATTATTAAATAA
330021 TTATTAGTAATATTA
63 TTATTAGTAATATTA
330036 ATAATCAATC
Statistics
Matches: 68, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
80 14 0.21
81 34 0.50
82 12 0.18
83 8 0.12
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.45
Consensus pattern (80 bp):
AATCATTATTATTAGTAATCATTAATATCAAATCTAAATCATTAATAATAATTATTAAATAATTA
TTAGTAATATTACTG
Found at i:332858 original size:11 final size:11
Alignment explanation
Indices: 332842--333022 Score: 59
Period size: 11 Copynumber: 16.4 Consensus size: 11
332832 TGATATGATT
*
332842 TGATTTAGTAA
1 TGATTTAATAA
332853 TGATTTAATAATCA
1 TGATTTAAT-A--A
332867 TGATTTAATAA
1 TGATTTAATAA
332878 TGATTT--T-A
1 TGATTTAATAA
332886 T-ATTTAA-AA
1 TGATTTAATAA
*
332895 TCA--TAATAA
1 TGATTTAATAA
332904 TGATTT-ATAA
1 TGATTTAATAA
*
332914 TTAATATT--TAA
1 -TGAT-TTAATAA
332925 TGATTTGATATTAA
1 TGATTT-A-A-TAA
* *
332939 TAATTTAGTAA
1 TGATTTAATAA
332950 TGATTAGTAATAA
1 TGATT--TAATAA
332963 TGATTTATTATTAA
1 TGATTTA--A-TAA
332977 T-ATTTAATAA
1 TGATTTAATAA
332987 TTTGATATTAAT-A
1 --TGAT-TTAATAA
*
333000 --ATTTAGTAA
1 TGATTTAATAA
333009 TGA-TTAATAA
1 TGATTTAATAA
333019 TGAT
1 TGAT
333023 GAAATTATTA
Statistics
Matches: 130, Mismatches: 10, Indels: 60
0.65 0.05 0.30
Matches are distributed among these distances:
7 4 0.03
8 9 0.07
9 12 0.09
10 20 0.15
11 33 0.25
12 4 0.03
13 21 0.16
14 27 0.21
ACGTcount: A:0.43, C:0.01, G:0.09, T:0.48
Consensus pattern (11 bp):
TGATTTAATAA
Found at i:332871 original size:14 final size:14
Alignment explanation
Indices: 332852--332878 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
332842 TGATTTAGTA
332852 ATGATTTAATAATC
1 ATGATTTAATAATC
332866 ATGATTTAATAAT
1 ATGATTTAATAAT
332879 GATTTTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (14 bp):
ATGATTTAATAATC
Found at i:332926 original size:21 final size:22
Alignment explanation
Indices: 332901--332945 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
332891 AAAATCATAA
332901 TAATGATTT-ATAATTAAT-ATT
1 TAATGATTTGAT-ATTAATAATT
332922 TAATGATTTGATATTAATAATT
1 TAATGATTTGATATTAATAATT
332944 TA
1 TA
332946 GTAATGATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (22 bp):
TAATGATTTGATATTAATAATT
Found at i:332950 original size:25 final size:24
Alignment explanation
Indices: 332844--332954 Score: 79
Period size: 25 Copynumber: 4.6 Consensus size: 24
332834 ATATGATTTG
* * * *
332844 ATTTAGTAATGATTTAATAATCATG
1 ATTTAATAATGATTT-ATATTAATA
332869 ATTTAATAATGATTTTATATTTAA-A
1 ATTTAATAATGA-TTTATA-TTAATA
*
332894 ATCATAATAATGATTTATAATTAAT-
1 AT-TTAATAATGATTTAT-ATTAATA
332919 A-TT--TAATGATTTGATATTAATA
1 ATTTAATAATGATTT-ATATTAATA
*
332941 ATTTAGTAATGATT
1 ATTTAATAATGATT
332955 AGTAATAATG
Statistics
Matches: 70, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
21 15 0.21
22 3 0.04
23 3 0.04
25 34 0.49
26 15 0.21
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (24 bp):
ATTTAATAATGATTTATATTAATA
Found at i:332976 original size:59 final size:59
Alignment explanation
Indices: 332898--333533 Score: 394
Period size: 59 Copynumber: 10.9 Consensus size: 59
332888 TTTAAAATCA
* *
332898 TAATAATGATTTATAATTAATATTTAATGATTTGATATTAATAATTTAGTAATGATTAG
1 TAATAATGATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTAG
* * *
332957 TAATAATGATTTATTATTAATATTTAATAATTTGATATTAATAATTTAGTAATGATTAA
1 TAATAATGATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTAG
* * * *
333016 TAATGATGAAATTATTATTAATATTTAATTATTTGATATTAATGATTTAGTAATAATTAG
1 TAATAATG-ATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTAG
* * * * *
333076 TAATAATGAAATTATTATTAATATTT-A--A--T-A-ATT-ATGATTTAATAATTAATAC
1 TAATAATG-ATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTAG
* ** * * *
333128 TAATAATTATGGAATAATAATATTTAATGATTTGATAAATTAATAGATCTTCG-AATTGA--AG
1 TAATAATGATTTATTATTAATATTTAATGATTTGAT--ATTAAT-GAT-TTAGTAA-TGATTAG
* * ** * **** * ** * * * *
333189 TTGAATTTATGTAATTT-TTGTCGATA---AATTATTTGAGCGGACTTTTTTTGTCGATAATTAT
1 -T-AA-TAATG--ATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGT-AATGATTAG
* ** * *
333250 TACTAATG-TTTGGT-TTACA-A--TAATGATATG--ATT--TGATTTAGTAATGATTTG
1 TAATAATGATTTATTATTA-ATATTTAATGATTTGATATTAATGATTTAGTAATGATTAG
* * *
333301 ATAATCATGATTTA--A-TAATGATTTTAT-ATTTAAAATAATAATAATGATTTAGTAATGATTA
1 -TAATAATGATTTATTATTAAT-ATTTAATGATTT--GAT-AT--TAATGATTTAGTAATGATTA
333362 G
59 G
*
333363 TAATAATGATTTATTATTAATATTTAATGATTTAATATTAATGATTTAGTAATGATTAG
1 TAATAATGATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTAG
* * * *
333422 TAATAGTGATTTATTATTAATACTTAATGATTTAATATTAATGATTTAGTTATGATTAG
1 TAATAATGATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTAG
* * * *
333481 TAATGATGAAATTATTATTAATATTTAATCATTTTATATTAATGA-TTAGTAAT
1 TAATAATG-ATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAAT
333534 AATAAAATTA
Statistics
Matches: 449, Mismatches: 81, Indels: 94
0.72 0.13 0.15
Matches are distributed among these distances:
50 1 0.00
51 19 0.04
52 36 0.08
53 9 0.02
54 5 0.01
55 6 0.01
56 10 0.02
57 2 0.00
58 9 0.02
59 158 0.35
60 111 0.25
61 18 0.04
62 35 0.08
63 13 0.03
64 11 0.02
65 4 0.01
66 2 0.00
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (59 bp):
TAATAATGATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTAG
Found at i:332984 original size:24 final size:24
Alignment explanation
Indices: 332957--333013 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
332947 TAATGATTAG
*
332957 TAATAATGATTTATTATTAAT-ATT
1 TAATAATGATTGA-TATTAATAATT
332981 TAATAAT--TTGATATTAATAATT
1 TAATAATGATTGATATTAATAATT
*
333003 TAGTAATGATT
1 TAATAATGATT
333014 AATAATGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 7 0.25
22 12 0.43
24 9 0.32
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (24 bp):
TAATAATGATTGATATTAATAATT
Found at i:332989 original size:21 final size:20
Alignment explanation
Indices: 332967--333126 Score: 91
Period size: 21 Copynumber: 8.0 Consensus size: 20
332957 TAATAATGAT
332967 TTATTATTAATATTTAATAA
1 TTATTATTAATATTTAATAA
*
332987 TT-TGATATTAATAATTTAGTAA
1 TTAT--TATTAAT-ATTTAATAA
* * *
333009 TGATTAATAATGA--TGA-AA
1 TTATTATTAAT-ATTTAATAA
*
333027 TTATTATTAATATTTAATTA
1 TTATTATTAATATTTAATAA
*
333047 TT-TGATATTAATGATTTAGTAA
1 TTAT--TATTAAT-ATTTAATAA
* * * *
333069 TAATTAGTAATA-ATGA-AA
1 TTATTATTAATATTTAATAA
333087 TTATTATTAATATTTAATAA
1 TTATTATTAATATTTAATAA
* *
333107 TTATGATTTAATAATTAATA
1 TTATTA-TTAATATTTAATA
333127 CTAATAATTA
Statistics
Matches: 103, Mismatches: 23, Indels: 27
0.67 0.15 0.18
Matches are distributed among these distances:
17 1 0.01
18 23 0.22
19 8 0.08
20 13 0.13
21 39 0.38
22 17 0.17
23 2 0.02
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (20 bp):
TTATTATTAATATTTAATAA
Found at i:333056 original size:60 final size:60
Alignment explanation
Indices: 332898--333122 Score: 339
Period size: 60 Copynumber: 3.8 Consensus size: 60
332888 TTTAAAATCA
* * *
332898 TAATAATG-ATTTATAATTAATATTTAATGATTTGATATTAATAATTTAGTAATGATTAG
1 TAATAATGAAATTATTATTAATATTTAATAATTTGATATTAATAATTTAGTAATGATTAG
* *
332957 TAATAATG-ATTTATTATTAATATTTAATAATTTGATATTAATAATTTAGTAATGATTAA
1 TAATAATGAAATTATTATTAATATTTAATAATTTGATATTAATAATTTAGTAATGATTAG
* * * *
333016 TAATGATGAAATTATTATTAATATTTAATTATTTGATATTAATGATTTAGTAATAATTAG
1 TAATAATGAAATTATTATTAATATTTAATAATTTGATATTAATAATTTAGTAATGATTAG
333076 TAATAATGAAATTATTATTAATATTTAATAATTATGAT-TTAATAATT
1 TAATAATGAAATTATTATTAATATTTAATAATT-TGATATTAATAATT
333123 AATACTAATA
Statistics
Matches: 152, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
59 63 0.41
60 85 0.56
61 4 0.03
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (60 bp):
TAATAATGAAATTATTATTAATATTTAATAATTTGATATTAATAATTTAGTAATGATTAG
Found at i:333145 original size:27 final size:28
Alignment explanation
Indices: 333092--333148 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
333082 TGAAATTATT
* *
333092 ATTAATATTTAATAATTATGATTTAATA
1 ATTAATATCTAATAATTATGATATAATA
333120 ATTAATA-CTAATAATTATGGA-ATAATA
1 ATTAATATCTAATAATTAT-GATATAATA
333147 AT
1 AT
333149 ATTTAATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (28 bp):
ATTAATATCTAATAATTATGATATAATA
Found at i:333155 original size:24 final size:24
Alignment explanation
Indices: 333094--333172 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 24
333084 AAATTATTAT
*
333094 TAATATTTAATAATTATGATTTAA
1 TAATATTTAATAATTATGATATAA
*
333118 TAATTAATACTAATAATTATGGA-ATAA
1 TAA-T-AT-TTAATAATTAT-GATATAA
*
333145 TAATATTTAATGATT-TGATA-AA
1 TAATATTTAATAATTATGATATAA
333167 TTAATA
1 -TAATA
333173 GATCTTCGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
22 4 0.09
23 7 0.16
24 10 0.22
25 3 0.07
26 3 0.07
27 16 0.36
28 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.44
Consensus pattern (24 bp):
TAATATTTAATAATTATGATATAA
Found at i:333371 original size:13 final size:11
Alignment explanation
Indices: 333283--333434 Score: 61
Period size: 11 Copynumber: 13.6 Consensus size: 11
333273 TGATATGATT
*
333283 TGATTTAGTAA
1 TGATTTAATAA
*
333294 TGATTTGATAATCA
1 TGA-TT--TAATAA
333308 TGATTTAATAA
1 TGATTTAATAA
333319 TGATTT--T-A
1 TGATTTAATAA
333327 T-ATTTAA-AA
1 TGATTTAATAA
*
333336 T-A-ATAATAA
1 TGATTTAATAA
*
333345 TGATTTAGTAA
1 TGATTTAATAA
333356 TGATTAGTAATAA
1 TGATT--TAATAA
* *
333369 TGATTTATTAT
1 TGATTTAATAA
*
333380 TAATATT--TAA
1 TGAT-TTAATAA
333390 TGATTTAATATTAA
1 TGATTT-A-A-TAA
*
333404 TGATTTAGTAA
1 TGATTTAATAA
*
333415 TGATTAGTAATAG
1 TGATT--TAATAA
333428 TGATTTA
1 TGATTTA
333435 TTATTAATAC
Statistics
Matches: 107, Mismatches: 15, Indels: 38
0.67 0.09 0.24
Matches are distributed among these distances:
7 4 0.04
8 5 0.05
9 9 0.08
10 6 0.06
11 41 0.38
12 4 0.04
13 22 0.21
14 16 0.15
ACGTcount: A:0.41, C:0.01, G:0.12, T:0.47
Consensus pattern (11 bp):
TGATTTAATAA
Found at i:333392 original size:21 final size:22
Alignment explanation
Indices: 333366--333457 Score: 75
Period size: 21 Copynumber: 4.2 Consensus size: 22
333356 TGATTAGTAA
*
333366 TAATGATTTATTATTAAT-ATT
1 TAATGATTTAATATTAATGATT
333387 TAATGATTTAATATTAATGATTT
1 TAATGATTTAATATTAATGA-TT
* * *
333410 AGTAATGA-TTAGTAATAGTGATT
1 --TAATGATTTAATATTAATGATT
*
333433 T-ATTA-TTAATACTTAATGATT
1 TAATGATTTAATA-TTAATGATT
333454 TAAT
1 TAAT
333458 ATTAATGATT
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
20 8 0.14
21 26 0.46
22 3 0.05
23 4 0.07
24 10 0.18
25 6 0.11
ACGTcount: A:0.39, C:0.01, G:0.10, T:0.50
Consensus pattern (22 bp):
TAATGATTTAATATTAATGATT
Found at i:333399 original size:15 final size:14
Alignment explanation
Indices: 333379--333469 Score: 62
Period size: 14 Copynumber: 6.2 Consensus size: 14
333369 TGATTTATTA
333379 TTAATATTTAATGAT
1 TTAATA-TTAATGAT
333394 TTAATATTAATGA-
1 TTAATATTAATGAT
*
333407 TT--TAGTAATGAT
1 TTAATATTAATGAT
* * *
333419 TAGTAATAGTGATTTATT
1 T--TAATA-TTAATGA-T
333437 ATTAATACTTAATGAT
1 -TTAATA-TTAATGAT
333453 TTAATATTAATGAT
1 TTAATATTAATGAT
333467 TTA
1 TTA
333470 GTTATGATTA
Statistics
Matches: 59, Mismatches: 9, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
11 8 0.14
12 1 0.02
13 2 0.03
14 19 0.32
15 12 0.20
16 3 0.05
17 12 0.20
18 1 0.02
19 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.10, T:0.49
Consensus pattern (14 bp):
TTAATATTAATGAT
Found at i:333572 original size:49 final size:48
Alignment explanation
Indices: 333473--333587 Score: 142
Period size: 49 Copynumber: 2.4 Consensus size: 48
333463 TGATTTAGTT
* * *
333473 ATGATTAGTAATGATGAAATTATTATTAATATTTAATCATT-TTATATTA
1 ATGATTAGTAATAATAAAATTATTATTAATATTTAAT-ATTATGAT-TTA
333522 ATGATTAGTAATAATAAAATTATTATTAATATTTAATAATTATGATTTA
1 ATGATTAGTAATAATAAAATTATTATTAATATTTAAT-ATTATGATTTA
* * *
333571 ATAATTAATACTAATAA
1 ATGATTAGTAATAATAA
333588 TTATGGAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
49 55 0.95
50 3 0.05
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (48 bp):
ATGATTAGTAATAATAAAATTATTATTAATATTTAATATTATGATTTA
Found at i:333599 original size:27 final size:28
Alignment explanation
Indices: 333546--333602 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
333536 TAAAATTATT
* *
333546 ATTAATATTTAATAATTATGATTTAATA
1 ATTAATATCTAATAATTATGATATAATA
333574 ATTAATA-CTAATAATTATGGA-ATAATA
1 ATTAATATCTAATAATTAT-GATATAATA
333601 AT
1 AT
333603 ATTTAATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (28 bp):
ATTAATATCTAATAATTATGATATAATA
Found at i:333609 original size:24 final size:24
Alignment explanation
Indices: 333548--333626 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 24
333538 AAATTATTAT
*
333548 TAATATTTAATAATTATGATTTAA
1 TAATATTTAATAATTATGATATAA
*
333572 TAATTAATACTAATAATTATGGA-ATAA
1 TAA-T-AT-TTAATAATTAT-GATATAA
*
333599 TAATATTTAATGATT-TGATA-AA
1 TAATATTTAATAATTATGATATAA
333621 TTAATA
1 -TAATA
333627 GATCTTTGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
22 4 0.09
23 7 0.16
24 10 0.22
25 3 0.07
26 3 0.07
27 16 0.36
28 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.44
Consensus pattern (24 bp):
TAATATTTAATAATTATGATATAA
Found at i:336901 original size:43 final size:43
Alignment explanation
Indices: 336854--336975 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 43
336844 TTTTACCTTA
* *
336854 ATTTTTAATTTTACTTTTTATTTTTATAATTAAAAATTTTAAT
1 ATTTTTAATTTTACTTTTTATCTTTATAATTAGAAATTTTAAT
* * * * **
336897 ATTTTTAATATCACTTTTTATCTTAATAGTT-GAAGCTTTAAT
1 ATTTTTAATTTTACTTTTTATCTTTATAATTAGAAATTTTAAT
**
336939 ATTTTTTAATTTT--TTTTTAAGTTTATAATTAGAAATT
1 A-TTTTTAATTTTACTTTTTATCTTTATAATTAGAAATT
336976 CTATTTTTTC
Statistics
Matches: 61, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
41 13 0.21
42 13 0.21
43 35 0.57
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (43 bp):
ATTTTTAATTTTACTTTTTATCTTTATAATTAGAAATTTTAAT
Found at i:337697 original size:38 final size:37
Alignment explanation
Indices: 337501--337775 Score: 263
Period size: 38 Copynumber: 7.3 Consensus size: 37
337491 ATATATATAC
*
337501 ATATAATATATAGTTTTGAAGACATTTTTGAAAATAAAT
1 ATATAATATATAGTTTTGAAAACATTTTTGAAAAT--AT
* * *
337540 ATATATTATATAATTTTGAAAACATTTTCGAAAATAT
1 ATATAATATATAGTTTTGAAAACATTTTTGAAAATAT
* * *
337577 ATATAATATATAATTTTGAAAAC-GTTTT-CAAATAT
1 ATATAATATATAGTTTTGAAAACATTTTTGAAAATAT
** *
337612 ATAT-ATATATA-TTTTGAAAATGTTTTTGAAAAATGTTTT
1 ATATAATATATAGTTTTGAAAACATTTTTG-AAAA---TAT
* * * *
337651 AAAAAATATATGGTTTTAAAAAACATTTTTGAAAATAT
1 ATATAATATATAGTTTT-GAAAACATTTTTGAAAATAT
* * *
337689 ATATAATATATAGTTTTGAAATCATATTTCGAAAAAAT
1 ATATAATATATAGTTTTGAAAACAT-TTTTGAAAATAT
*
337727 ATATAATATATAGTTTT-AAAACGTTTTTTGGAAAATAT
1 ATATAATATATAGTTTTGAAAAC-ATTTTT-GAAAATAT
337765 ATATAATATAT
1 ATATAATATAT
337776 TTTAGAAAAC
Statistics
Matches: 194, Mismatches: 30, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
33 9 0.05
34 11 0.06
35 10 0.05
36 6 0.03
37 37 0.19
38 62 0.32
39 35 0.18
40 6 0.03
41 8 0.04
42 10 0.05
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (37 bp):
ATATAATATATAGTTTTGAAAACATTTTTGAAAATAT
Found at i:337867 original size:18 final size:17
Alignment explanation
Indices: 337833--337888 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
337823 ATGTATATAC
337833 ATTTTTTA-TTA-TTTT
1 ATTTTTTATTTATTTTT
337848 ATTTATTTATTTATTTTT
1 ATTT-TTTATTTATTTTT
* *
337866 ATTTTTATTTTTATTTTC
1 ATTTTT-TATTTATTTTT
337884 ATTTT
1 ATTTT
337889 CATTTTTGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 4 0.11
16 4 0.11
17 5 0.14
18 22 0.63
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.79
Consensus pattern (17 bp):
ATTTTTTATTTATTTTT
Found at i:337868 original size:6 final size:6
Alignment explanation
Indices: 337844--337895 Score: 61
Period size: 6 Copynumber: 8.7 Consensus size: 6
337834 TTTTTTATTA
* * *
337844 TTTTAT TTATT-T ATTTAT TTTTAT TTTTAT TTTTAT TTTCAT TTTCAT
1 TTTTAT TT-TTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
337892 TTTT
1 TTTT
337896 GGTCCAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
5 2 0.05
6 36 0.90
7 2 0.05
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:341262 original size:112 final size:112
Alignment explanation
Indices: 341046--341282 Score: 291
Period size: 112 Copynumber: 2.1 Consensus size: 112
341036 TGTCGGTTTA
* * **
341046 TGTCGATACTTTATAAAAATGTATCGATCCATATCAATATAACAGGTAAAAATATGGTAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCAAATCAATATAACAAGTAAAAATATGACAAAACCG
* *
341111 GTCTCGAAAAGACAAAACCAGTAAAGTGCTACCGAATATATTGAAAG
66 GTCTCGAAAAGACAAAACCAGTAAAGAGCGACCGAATATATTGAAAG
* * *
341158 TGTCGATACTTTATAACAATGTATCGATCCACAAT-GATATAACAAGTAAAAATATGACAAAACT
1 TGTCGATACTTTATAAAAATGTATCGATCCA-AATCAATATAACAAGTAAAAATATGACAAAACC
* ** **
341222 GGTCTC-TAAAGAACAAAACTGGTATGGAGCGACC-ATATATATTGAAAG
65 GGTCTCGAAAAG-ACAAAACCAGTAAAGAGCGACCGA-ATATATTGAAAG
*
341270 TGTTGATACTTTA
1 TGTCGATACTTTA
341283 ATATAAGTAT
Statistics
Matches: 107, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
111 5 0.05
112 100 0.93
113 2 0.02
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (112 bp):
TGTCGATACTTTATAAAAATGTATCGATCCAAATCAATATAACAAGTAAAAATATGACAAAACCG
GTCTCGAAAAGACAAAACCAGTAAAGAGCGACCGAATATATTGAAAG
Found at i:341624 original size:32 final size:32
Alignment explanation
Indices: 341579--341657 Score: 122
Period size: 32 Copynumber: 2.4 Consensus size: 32
341569 TCGATTAAAT
* **
341579 ATAAATAACATATCCGGTGAAAATATAAAGGGC
1 ATAATTAA-ATATCCGACGAAAATATAAAGGGC
341612 ATAATTAAATATCCGACGAAAATATAAAGGGC
1 ATAATTAAATATCCGACGAAAATATAAAGGGC
341644 ATAATTAAATATCC
1 ATAATTAAATATCC
341658 TCTGAAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 36 0.84
33 7 0.16
ACGTcount: A:0.49, C:0.13, G:0.14, T:0.24
Consensus pattern (32 bp):
ATAATTAAATATCCGACGAAAATATAAAGGGC
Found at i:343994 original size:33 final size:33
Alignment explanation
Indices: 343960--344089 Score: 242
Period size: 33 Copynumber: 3.9 Consensus size: 33
343950 TAGATGGAGT
*
343960 GGTGAAAGAAGTTGAGGTGTTGAGGGGTGAAGT
1 GGTGAAAGAAGTTGAGGTGTTGAGGGGTGAAGC
*
343993 GGTGAAAAAAGTTGAGGTGTTGAGGGGTGAAGC
1 GGTGAAAGAAGTTGAGGTGTTGAGGGGTGAAGC
344026 GGTGAAAGAAGTTGAGGTGTTGAGGGGTGAAGC
1 GGTGAAAGAAGTTGAGGTGTTGAGGGGTGAAGC
344059 GGTGAAAGAAGTTGAGGTGTTGAGGGGTGAA
1 GGTGAAAGAAGTTGAGGTGTTGAGGGGTGAA
344090 CTTAAGATGG
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 94 1.00
ACGTcount: A:0.28, C:0.02, G:0.48, T:0.22
Consensus pattern (33 bp):
GGTGAAAGAAGTTGAGGTGTTGAGGGGTGAAGC
Found at i:345821 original size:19 final size:19
Alignment explanation
Indices: 345797--345845 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
345787 AATGTAGGGT
345797 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
345816 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
345835 TAATTTTGTAT
1 TAATTTTGTAT
345846 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:346811 original size:199 final size:200
Alignment explanation
Indices: 346211--347302 Score: 1247
Period size: 200 Copynumber: 5.5 Consensus size: 200
346201 GTAAGCAGAT
* ** * * * *
346211 GTGTCGATACATTTATAAAAAGAATCTATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTTTAAAAAGTGTCGATCCTAGAAACATCGAAACCCATAATTATAATGTAATA
* * *
346276 GGTAATTTTGTAATATAACCGGTATAAGTATA-TCGGTTTTATGTGAGAATAGGTCTACATAATG
66 GGTAATTTTGTAATGTAACCGGTATAAATAAACT-GGTTTTATGTGAGAATAGGTCTACATAATG
* * * * * *
346340 TATTGACACTTTTGAAATTGATGTCGATACATTTTGTCTAGAATGAATGCCCAAAATGATGAACG
130 TATCGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACG
346405 CAA-AAA
195 -AATAAA
* *
346411 GTGTCGATACATTTATAAAAAGTATCGATACC-AGAAACATCGAAACCCATAATTATAATGTAAT
1 GTGTCGATACATTTTTAAAAAGTGTCGAT-CCTAGAAACATCGAAACCCATAATTATAATGTAAT
* * * * * ** * * *
346475 AGGTAAATTTATAGTGTAATCGATATATCTACACCGGTTTTATGAGAGAATAGGTCTACATAATG
65 AGGTAATTTTGTAATGTAACCGGTATAAATAAACTGGTTTTATGTGAGAATAGGTCTACATAATG
* * * * * * * * * *
346540 TATCGATACTTCTGGAATTTGTGTCGACACTGTTTGTCCATAAGGAATGCCCAAAAGGGTGCACC
130 TATCGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACG
*
346605 TATAAA
195 AATAAA
* * * *
346611 GTTTCAATACATTTTTTAAAAGTGTCGATCCTAGAGACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTTTAAAAAGTGTCGATCCTAGAAACATCGAAACCCATAATTATAATGTAATA
346676 GGTAATTTTGTAATGTAACCGGTATAAATAAACTGG-TTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTGTAATGTAACCGGTATAAATAAACTGGTTTTATGTGAGAATAGGTCTACATAATGT
* ** * *
346740 ATTGACACAATTGAAATTGGTGTCAATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGA
131 ATCGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACGA
346805 ATAAA
196 ATAAA
* *
346810 GTGTCGATACATTTTTAAAAAGTGTCGATCCTAGAGACATCGAAACCCACAATTATAATGTAATA
1 GTGTCGATACATTTTTAAAAAGTGTCGATCCTAGAAACATCGAAACCCATAATTATAATGTAATA
* * **
346875 GGTAATTTTGAAATGTAACCGGTATAAATATACCAGTTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTGTAATGTAACCGGTATAAATAAACTGGTTTTATGTGAGAATAGGTCTACATAATGT
* * * *
346940 ATCGACACTTTTTAATTTTGTGTCGATACATTTTT-TCCAGAATGTATGCCCCAAAAAATGGTGC
131 ATCGACACTTTTGAAATTGGTGTCGATAC-TTTTTGTCCAGAATGAATG-CCC--AAAATGGTGC
*
347004 ACGCATAAA
192 ACGAATAAA
* * * * *
347013 GTGTAGATACATTTATAAAAAGTATCGAT-CTCATAAACATCGAAACCCATGATTATAATGTAAT
1 GTGTCGATACATTTTTAAAAAGTGTCGATCCT-AGAAACATCGAAACCCATAATTATAATGTAAT
* * * * * *
347077 AGGTAATTTT-TCAATGTAACTGGTATAAATATACTGGTTTTATGCGAGAATTGGTCTAGAAAAT
65 AGGTAATTTTGT-AATGTAACCGGTATAAATAAACTGGTTTTATGTGAGAATAGGTCTACATAAT
* * *
347141 GTATCGACACTTATGGAAATT-GTGTCGATACTTTTTGTCCAGAA-GGATG-CCAAAAGGGTGCA
129 GTATCGACACTT-TTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCA
** *
347203 CCCATTAA
193 CGAATAAA
* * *
347211 GTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAATATCGAAA-CCATTAA-TATAATGTAAT
1 GTGTCGATACATTTTTAAAAAGTGTCGATCCTAGAAACATCGAAACCCA-TAATTATAATGTAAT
** **
347274 AGGTAAAATTCCAATGTAACCGGTA-AAAT
65 AGGTAATTTTGTAATGTAACCGGTATAAAT
347303 TCCAATGTAA
Statistics
Matches: 761, Mismatches: 115, Indels: 36
0.83 0.13 0.04
Matches are distributed among these distances:
196 4 0.01
197 34 0.04
198 55 0.07
199 178 0.23
200 309 0.41
201 10 0.01
202 11 0.01
203 155 0.20
204 5 0.01
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (200 bp):
GTGTCGATACATTTTTAAAAAGTGTCGATCCTAGAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTGTAATGTAACCGGTATAAATAAACTGGTTTTATGTGAGAATAGGTCTACATAATGT
ATCGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACGA
ATAAA
Found at i:346962 original size:399 final size:400
Alignment explanation
Indices: 346211--347302 Score: 1356
Period size: 399 Copynumber: 2.7 Consensus size: 400
346201 GTAAGCAGAT
* * * * * *
346211 GTGTCGATACATTTATAAAAAGAATCTATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
1 GTGTAGATACATTTATAAAAAGTATCGATCTCATAAACATCGAAACCCATAATTATAATGTAATA
* *
346276 GGTAATTTTGTAATATAACCGGTATAAGTATA-TCGGTTTTATGTGAGAATAGGTCTACATAATG
66 GGTAATTTTGTAATGTAACCGGTATAAATATACT-GGTTTTATGTGAGAATAGGTCTACATAATG
* * * * *
346340 TATTGACACTTTTGAAATTGATGTCGATACATTTTGTCTAGAATGAATGCCCAAAATGATGAACG
130 TATTGACACTATTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACG
* *
346405 CAA-AAAGTGTCGATACATTTATAAAAAGTATCGATACCAGAAACATCGAAACCCATAATTATAA
195 -AATAAAGTGTCGATACATTTTTAAAAAGTGTCGAT-CCAGAAACATCGAAACCCATAATTATAA
* * * ** *
346469 TGTAATAGGTAAATTTATAGTGTAATCGATATATCTACACCGGTTTTATGAGAGAATAGGTCTAC
258 TGTAATAGGTAAATTTA-AATGTAACCGGTATAAATACACCAGTTTTATGAGAGAATAGGTCTAC
* *
346534 ATAATGTATCGATACTTCTGGAATTTGTGTCGACAC-TGTTTGTCCATAAGGAATG-CCC-AAAA
322 ATAATGTATCGACACTTCTGGAATTTGTGTCGACACAT-TTTGTCCAGAAGGAATGCCCCAAAAA
346596 GGGTGCAC-CTATAAA
386 GGGTGCACGC-ATAAA
* * * *
346611 GTTTCA-ATACATTTTTTAAAAGTGTCGATC-C-TAGAGACATCGAAACCCATAATTATAATGTA
1 GTGT-AGATACATTTATAAAAAGTATCGATCTCATA-A-ACATCGAAACCCATAATTATAATGTA
*
346673 ATAGGTAATTTTGTAATGTAACCGGTATAAATAAACTGG-TTTATGTGAGAATAGGTCTACATAA
63 ATAGGTAATTTTGTAATGTAACCGGTATAAATATACTGGTTTTATGTGAGAATAGGTCTACATAA
* *
346737 TGTATTGACACAATTGAAATTGGTGTCAATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAA
128 TGTATTGACACTATTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAA
* *
346802 CGAATAAAGTGTCGATACATTTTTAAAAAGTGTCGATCCTAGAGACATCGAAACCCACAATTATA
193 CGAATAAAGTGTCGATACATTTTTAAAAAGTGTCGATCC-AGAAACATCGAAACCCATAATTATA
* * *
346867 ATGTAATAGGTAATTTTGAAATGTAACCGGTATAAATATACCAGTTTTATGTGAGAATAGGTCTA
257 ATGTAATAGGTAAATTT-AAATGTAACCGGTATAAATACACCAGTTTTATGAGAGAATAGGTCTA
** * * * *
346932 CATAATGTATCGACACTT-TTTAATTTTGTGTCGATACATTTTTTCCAGAATGTATGCCCCAAAA
321 CATAATGTATCGACACTTCTGGAA-TTTGTGTCGACACATTTTGTCCAGAAGGAATGCCCC-AAA
*
346996 AATGGTGCACGCATAAA
384 AAGGGTGCACGCATAAA
*
347013 GTGTAGATACATTTATAAAAAGTATCGATCTCATAAACATCGAAACCCATGATTATAATGTAATA
1 GTGTAGATACATTTATAAAAAGTATCGATCTCATAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
347078 GGTAATTTT-TCAATGTAACTGGTATAAATATACTGGTTTTATGCGAGAATTGGTCTAGAAAATG
66 GGTAATTTTGT-AATGTAACCGGTATAAATATACTGGTTTTATGTGAGAATAGGTCTACATAATG
* * * * *
347142 TATCGACACTTATGGAAATT-GTGTCGATACTTTTTGTCCAGAA-GGATG-CCAAAAGGGTGCAC
130 TATTGACAC-TATTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAAC
** * * *
347204 CCATTAAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAATATCGAAA-CCATTAA-TATA
194 GAATAAAGTGTCGATACATTTTTAAAAAGTGTCGAT-CCAGAAACATCGAAACCCA-TAATTATA
**
347267 ATGTAATAGGTAAAATTCCAATGTAACCGGTA-AAAT
257 ATGTAATAGGT-AAATTTAAATGTAACCGGTATAAAT
347303 TCCAATGTAA
Statistics
Matches: 601, Mismatches: 69, Indels: 45
0.84 0.10 0.06
Matches are distributed among these distances:
398 8 0.01
399 240 0.40
400 117 0.19
401 64 0.11
402 106 0.18
403 56 0.09
404 10 0.02
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (400 bp):
GTGTAGATACATTTATAAAAAGTATCGATCTCATAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTGTAATGTAACCGGTATAAATATACTGGTTTTATGTGAGAATAGGTCTACATAATGT
ATTGACACTATTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGA
ATAAAGTGTCGATACATTTTTAAAAAGTGTCGATCCAGAAACATCGAAACCCATAATTATAATGT
AATAGGTAAATTTAAATGTAACCGGTATAAATACACCAGTTTTATGAGAGAATAGGTCTACATAA
TGTATCGACACTTCTGGAATTTGTGTCGACACATTTTGTCCAGAAGGAATGCCCCAAAAAGGGTG
CACGCATAAA
Found at i:347291 original size:20 final size:20
Alignment explanation
Indices: 347266--347323 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
347256 CCATTAATAT
*
347266 AATGTAATAGGTAAAATTCC
1 AATGTAACAGGTAAAATTCC
*
347286 AATGTAACCGGTAAAATTCC
1 AATGTAACAGGTAAAATTCC
*
347306 AATGTAACCGGTATAAAT
1 AATGTAACAGGTA-AAAT
347324 ATACCGATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 31 0.89
21 4 0.11
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.28
Consensus pattern (20 bp):
AATGTAACAGGTAAAATTCC
Found at i:348763 original size:3 final size:3
Alignment explanation
Indices: 348743--348813 Score: 88
Period size: 3 Copynumber: 23.7 Consensus size: 3
348733 CAAGAGGTCA
* * * * *
348743 ATG AAG ATG AAG AAG ATG ATG AAG ATG ATG ATG ATG ATG ATG ATG AAG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
*
348791 ATG AAG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG AT
348814 CTAAACAAGT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.25
Consensus pattern (3 bp):
ATG
Found at i:350134 original size:24 final size:25
Alignment explanation
Indices: 350107--350161 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
350097 TTTCAAGTTG
*
350107 ATTTCATATGT-AATTGGAGTTTGA
1 ATTTCAAATGTCAATTGGAGTTTGA
* *
350131 ATTT-AAATTTCAATTTGAGTTTGA
1 ATTTCAAATGTCAATTGGAGTTTGA
*
350155 GTTTCAA
1 ATTTCAA
350162 TATAAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 4 0.16
24 19 0.76
25 2 0.08
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.47
Consensus pattern (25 bp):
ATTTCAAATGTCAATTGGAGTTTGA
Found at i:350169 original size:24 final size:24
Alignment explanation
Indices: 350118--350170 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
350108 TTTCATATGT
* * *
350118 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
* *
350142 AATTTGAGTTTGAGTTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
350166 AATTT
1 AATTT
350171 TGGCTCCACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:352109 original size:399 final size:399
Alignment explanation
Indices: 351508--352475 Score: 1202
Period size: 399 Copynumber: 2.4 Consensus size: 399
351498 TAAAGTTTCC
* * * * *
351508 CATAAAGTGTCTATACATGTTTAAAAACTATCGATCCCAAAAACATCAAAACCGAAAATTATATT
1 CATAAAGTGTCGATACAT-TTTAAAAACTATCGATCCTAAAAACATCGAAACCGATAATTATAAT
* * * *
351573 GTTATAGGTAAATTTACAATGTAACCGGTATAAATATATCGGGCTTTT-TGAGAAAATAGATATA
65 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATA-CCGG-TTTTATGAGAGAATAGATCTA
* * *
351637 CATAATGTATCGACACTTGTGGAATTTGTATCGATACGTTTTGTCCAAAATGAATGCCAAACGTG
128 CATAATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGTG
*
351702 GTGCACGCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAA-ATCAAAACCCATAA
193 GTGCACGCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCAAAACCAATAA
* ** * * * *
351766 TTATAATATAATAAGTAATTTTGTAATATAACTGGTATAAATATACCGGTTTTATGTGATAATAG
258 TTATAATATAATAAGTAAATTTACAATATAACCGATATAAATATACCGGTTTTATGAGAAAATAG
* * * *
351831 GTCTACATAATGTGTCAACAC-TTTCGA-ATTTTGTGTCGATACGTTTTTGTCTAGAAT-GATTG
323 GTCAACATAATGTATCAACACGTTT-GAGA-TTTGTGTCGATAC-ATTTTGTCCAGAATGGA-TG
* *
351893 CCCAAAATGGTG-A-ACG
384 --CAAAACGGGGTACACG
* *
351909 CATAAAGTGTCGATACATTTATAAAAACTATCGATCCTAGAAACATCGAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATTT-TAAAAACTATCGATCCTAAAAACATCGAAACCGATAATTATAAT
* * * * * *
351974 GTAATAGGTAAA-TTATAATTTAACTGGTATAACTATACCAGTTTTATGAGAGAATAGGTCTACA
65 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGATCTACA
*
352038 TAATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCTAAAATGAATGCCAAAAG-GGT
130 TAATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGTGG-
**
352102 TGCACGCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATTGAAACCAATAAT
194 TGCACGCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCAAAACCAATAAT
* * * *
352167 TATAATGTAATAGGTAAATTTACAATGTAACCGATATAAATTTACCGGTTTTATGAGAAAATAGG
259 TATAATATAATAAGTAAATTTACAATATAACCGATATAAATATACCGGTTTTATGAGAAAATAGG
* ** * *
352232 TGAACATAATGTATTGACACGTTTTAGATTTGTGTCGATACATTTTGTCCAGAATGGATGCTAAA
324 TCAACATAATGTATCAACACGTTTGAGATTTGTGTCGATACATTTTGTCCAGAATGGATGCAAAA
*
352297 CGGGGTACAGG
389 CGGGGTACACG
* * * *** * *
352308 CACACAGTGTCGATACATTTGAAATTGTATCGATCCTAAAAACATCGAAACTGATAATTATAACG
1 CATAAAGTGTCGATACATTTTAAAAACTATCGATCCTAAAAACATCGAAACCGATAATTATAATG
* * *
352373 TAATATGTAAATTTACAATGTAACCGGCATAAATATATCGGTTTTATGAGAGAATAGATC-ATCA
66 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGATCTA-CA
* * *
352437 TAATATATCAACACTT-TGAAATTTGTGTCGATACTTTTT
130 TAATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTT
352476 AAATAACGCG
Statistics
Matches: 487, Mismatches: 69, Indels: 25
0.84 0.12 0.04
Matches are distributed among these distances:
397 7 0.01
398 77 0.16
399 213 0.44
400 120 0.25
401 70 0.14
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (399 bp):
CATAAAGTGTCGATACATTTTAAAAACTATCGATCCTAAAAACATCGAAACCGATAATTATAATG
TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGATCTACAT
AATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGTGGTG
CACGCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCAAAACCAATAATTA
TAATATAATAAGTAAATTTACAATATAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTC
AACATAATGTATCAACACGTTTGAGATTTGTGTCGATACATTTTGTCCAGAATGGATGCAAAACG
GGGTACACG
Found at i:352170 original size:199 final size:198
Alignment explanation
Indices: 351508--352475 Score: 1095
Period size: 200 Copynumber: 4.9 Consensus size: 198
351498 TAAAGTTTCC
* * * * *
351508 CATAAAGTGTCTATACATGTTTAAAAACTATCGATCCCAAAAACATCAAAACCGAA-AATTATAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACC-AATAATTATAA
* * * *
351572 TGTTATAGGTAAATTTACAATGTAACCGGTATAAATATATCGGGCTTTT-TGAGAAAATAGATAT
65 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATA-CCGG-TTTTATGAGAAAATAGGTCT
* * *
351636 ACATAATGTATCGACACTTGTGGAATTTGTATCGATACGTTTTGTCCAAAATGAATGCCAAACGT
128 ACATAATGTATCGACACTT-TGGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAG-
351701 GGTGCACG
191 GGTGCACG
* *
351709 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAA-ATCAAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
* * * ** * * * *
351773 ATAATAAGTAATTTTGTAATATAACTGGTATAAATATACCGGTTTTATGTGATAATAGGTCTACA
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACA
* * * * * * *
351838 TAATGTGTCAACACTTTCGAATTTTGTGTCGATACGTTTTTGTCTAGAATGATTGCCCAAAATGG
131 TAATGTATCGACACTTTGGAA-TTTGTGTCGATAC-TTTTTGTCCAAAATGAATG-CCAAAAGGG
*
351903 TGAACG
193 TGCACG
* * * * *
351909 CATAAAGTGTCGATACATTTATAAAAACTATCGATCCTAGAAACATCGAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
* * * * * *
351974 GTAATAGGTAAA-TTATAATTTAACTGGTATAACTATACCAGTTTTATGAGAGAATAGGTCTACA
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACA
*
352038 TAATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCTAAAATGAATGCCAAAAGGGTT
131 TAATGTATCGACACTT-TGGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGG-T
352103 GCACG
194 GCACG
*
352108 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATTGAAACCAATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
* * **
352173 GTAATAGGTAAATTTACAATGTAACCGATATAAATTTACCGGTTTTATGAGAAAATAGGTGAACA
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACA
* * * * * * *
352238 TAATGTATTGACACGTTT-TAGATTTGTGTCGATACATTTTGTCCAGAATGGATGCTAAACGGGG
131 TAATGTATCGACAC-TTTGGA-ATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAA-AGGG
* *
352302 TACAGG
193 TGCACG
* * * ** * ** *
352308 CACACAGTGTCGATACA-TTTGAAATTGTATCGATCCTAAAAACATCGAAACTGATAATTATAAC
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
* * * * *
352372 GTAATATGTAAATTTACAATGTAACCGGCATAAATATATCGGTTTTATGAGAGAATAGATC-ATC
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTA-C
* * *
352436 ATAATATATCAACACTTTGAAATTTGTGTCGATACTTTTT
130 ATAATGTATCGACACTTTGGAATTTGTGTCGATACTTTTT
352476 AAATAACGCG
Statistics
Matches: 654, Mismatches: 99, Indels: 31
0.83 0.13 0.04
Matches are distributed among these distances:
198 38 0.06
199 244 0.37
200 289 0.44
201 83 0.13
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (198 bp):
CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACA
TAATGTATCGACACTTTGGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGGTGC
ACG
Found at i:356723 original size:199 final size:198
Alignment explanation
Indices: 356296--357013 Score: 878
Period size: 199 Copynumber: 3.6 Consensus size: 198
356286 ACCTAAATAC
* **
356296 GTGTCGATACATTT-TCTAAAAGTATCGA-CCCAAAAAACATCAAAACTAATAATTATAATGTAA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCCAAAAAACATCGAAACCGATAATTATAATGTAA
* * * * * *
356359 TAGGTAAATTAACAATGTAACCGGTATAAATATATCGGTTAATTAGAAAACATGTCAACATAATG
65 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTATGAGAAAATAGGTC-ACATAATG
** *
356424 TATCGACACTTGTGCAATTTGTGTCGATACTTATTGTCCATAATGAATGCCCAAACGAGGTGCAC
129 TATCGACACTTGTTAAATTTGTGTCGATACTT-TTGTTCATAATGAATG-CCAAACGAGGTGCAC
356489 GCATAAA
192 GCATAAA
*
356496 GTGTCGATACATTTATTAAAAGTATCGATCCCAATAAA-ATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAAACATCGAAACCGATAATTATAATGTAAT
* * *
356560 ATGTAAATTTACAGTGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAGCATAAAG
66 AGGTAAATTTACAATGTAACCGGTATAAATATACCGG-TTTATGAGAAAATAGGTCA-CATAATG
*
356625 TATCGACACTTGTTAAATTTGTGTTGATACATTTTGTTCATAATGAATGCCAAAC-AGGTGCACG
129 TATCGACACTTGTTAAATTTGTGTCGATAC-TTTTGTTCATAATGAATGCCAAACGAGGTGCACG
356689 CATAAA
193 CATAAA
* * * * *
356695 GTGTCAATACATTTATTAAAAGTATCGATCCC-AAAAACATCGAAACCGATAATTACAATATGAC
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAAACATCGAAACCGATAATTATAATGTAAT
* * * * * * *
356759 AGGTAAATTTACAATGTACCCGATAGAAATATATCAGTTTTATGAGAAAATAAGTCTAAATAATG
66 AGGTAAATTTACAATGTAACCGGTATAAATATA-CCGGTTTATGAGAAAATAGGTC-ACATAATG
* * * * * *
356824 TATCGACGCTTTTTAAGTTTGTGTCGATACTTTT-TTCCAGAATGAATTCCCAACGAGGTGCACG
129 TATCGACACTTGTTAAATTTGTGTCGATACTTTTGTT-CATAATGAATGCCAAACGAGGTGCACG
356888 CATAAA
193 CATAAA
* **
356894 GTGTTGATACATTTCA--AATTGTATCGAT-CCAAAAAACATCGAAACCGATAATTATAATGTAA
1 GTGTCGATACATTT-ATTAAAAGTATCGATCCCAAAAAACATCGAAACCGATAATTATAATGTAA
* * * * *
356956 TAGGTAAATTTGCAATGTTACTGGTATAAATATACCGGTTTACTTATAAAATAGGTCA
65 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTA-TGAGAAAATAGGTCA
357014 ATATAAACAC
Statistics
Matches: 446, Mismatches: 59, Indels: 29
0.84 0.11 0.05
Matches are distributed among these distances:
197 11 0.02
198 98 0.22
199 171 0.38
200 93 0.21
201 71 0.16
202 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (198 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAAACATCGAAACCGATAATTATAATGTAAT
AGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTATGAGAAAATAGGTCACATAATGTA
TCGACACTTGTTAAATTTGTGTCGATACTTTTGTTCATAATGAATGCCAAACGAGGTGCACGCAT
AAA
Found at i:357102 original size:64 final size:64
Alignment explanation
Indices: 357034--357153 Score: 206
Period size: 64 Copynumber: 1.9 Consensus size: 64
357024 TACCTATTAC
* *
357034 ATTATATAAGCGTTACCTAATATGTTATTGTACTTG-ATAATATTTCCGGTTGAATGCCTATTTT
1 ATTATATAAGCGCTACCTAATATGTTATTGTAC-TGAATAATATTTCCGGTTAAATGCCTATTTT
357098 ATTATATAAGCGCTACCTAATATGTTATTGTACTGAATAATATTTCCGGTTAAATG
1 ATTATATAAGCGCTACCTAATATGTTATTGTACTGAATAATATTTCCGGTTAAATG
357154 ATATAACATA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
63 2 0.04
64 51 0.96
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.42
Consensus pattern (64 bp):
ATTATATAAGCGCTACCTAATATGTTATTGTACTGAATAATATTTCCGGTTAAATGCCTATTTT
Found at i:360440 original size:15 final size:15
Alignment explanation
Indices: 360422--360455 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
360412 GATATTTTAA
360422 TATTTTAAATTTATT
1 TATTTTAAATTTATT
*
360437 TATTTTATATTTATT
1 TATTTTAAATTTATT
360452 TATT
1 TATT
360456 AATGATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTTTAAATTTATT
Found at i:360613 original size:31 final size:31
Alignment explanation
Indices: 360550--360613 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
360540 AGATAAATTT
* *
360550 ATAACTTGAATCTTAAATATTTTTTCTTATG
1 ATAACTTGAATATTAAATATTTTTTCTAATG
* *
360581 ATAATTTGAATATTAATTTATTTTTT-TAATG
1 ATAACTTGAATATTAA-ATATTTTTTCTAATG
360612 AT
1 AT
360614 TTCATATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.55
Consensus pattern (31 bp):
ATAACTTGAATATTAAATATTTTTTCTAATG
Found at i:361839 original size:13 final size:13
Alignment explanation
Indices: 361821--361872 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
361811 ATCATAAATC
*
361821 TATGACACGCATT
1 TATGACGCGCATT
*
361834 TATGACGCTCATT
1 TATGACGCGCATT
361847 TATGACGCGCATT
1 TATGACGCGCATT
*
361860 TATGACGCTCATT
1 TATGACGCGCATT
361873 GCGCGTCATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:361857 original size:26 final size:26
Alignment explanation
Indices: 361821--361872 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
361811 ATCATAAATC
361821 TATGACACGCATTTATGACGCTCATT
1 TATGACACGCATTTATGACGCTCATT
*
361847 TATGACGCGCATTTATGACGCTCATT
1 TATGACACGCATTTATGACGCTCATT
361873 GCGCGTCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (26 bp):
TATGACACGCATTTATGACGCTCATT
Found at i:361987 original size:85 final size:85
Alignment explanation
Indices: 361844--362009 Score: 253
Period size: 85 Copynumber: 2.0 Consensus size: 85
361834 TATGACGCTC
* *
361844 ATTTATGACGCGCATTTATGACGCTCATTGCGCGTCATTGAAGCCTCCGTCATAAATGAAGATGA
1 ATTTATGACACGCATTTATGACGCTCATTGCGCGTCATTGAAGCCCCCGTCATAAATGAAGATGA
* *
361909 CATATATTTGTGTGTCATAA
66 CACATATTCGTGTGTCATAA
* *
361929 ATTTATGACACGCATTTATGAC-TTACATTGCGTGTCATTGAAGCCCCCGTCATAAATGAAGATG
1 ATTTATGACACGCATTTATGACGCT-CATTGCGCGTCATTGAAGCCCCCGTCATAAATGAAGATG
*
361993 GCACATATTCGTGTGTC
65 ACACATATTCGTGTGTC
362010 GTGATTGTAT
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
84 1 0.01
85 72 0.99
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (85 bp):
ATTTATGACACGCATTTATGACGCTCATTGCGCGTCATTGAAGCCCCCGTCATAAATGAAGATGA
CACATATTCGTGTGTCATAA
Found at i:365442 original size:3 final size:3
Alignment explanation
Indices: 365436--365463 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
365426 AAACAACAAC
365436 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
365464 GGGTCGGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:369709 original size:9 final size:8
Alignment explanation
Indices: 369693--369736 Score: 56
Period size: 9 Copynumber: 5.5 Consensus size: 8
369683 TTTGAAGTAA
369693 TTGTGATG
1 TTGTGATG
369701 TTAGTGATG
1 TT-GTGATG
369710 TT-TGATG
1 TTGTGATG
369717 TTGGTGATG
1 TT-GTGATG
369726 TT-TGATG
1 TTGTGATG
369733 TTGT
1 TTGT
369737 AACAGGGGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 14 0.44
8 3 0.09
9 15 0.47
ACGTcount: A:0.14, C:0.00, G:0.34, T:0.52
Consensus pattern (8 bp):
TTGTGATG
Found at i:369735 original size:16 final size:16
Alignment explanation
Indices: 369696--369735 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
369686 GAAGTAATTG
*
369696 TGATGTTAGTGATGTT
1 TGATGTTGGTGATGTT
369712 TGATGTTGGTGATGTT
1 TGATGTTGGTGATGTT
369728 TGATGTTG
1 TGATGTTG
369736 TAACAGGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (16 bp):
TGATGTTGGTGATGTT
Found at i:376460 original size:42 final size:42
Alignment explanation
Indices: 376401--376484 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
376391 CGACTACAGA
*
376401 GAAACATGAATACTGGTTGGAGCTTCTTCTTCAAAATAAGTC
1 GAAACATGAATACTGGTTGGAGCTCCTTCTTCAAAATAAGTC
376443 GAAACATGAATACTGGTTGGAGCTCCTTCTTCAAAATAAGTC
1 GAAACATGAATACTGGTTGGAGCTCCTTCTTCAAAATAAGTC
376485 CAATAAGCCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (42 bp):
GAAACATGAATACTGGTTGGAGCTCCTTCTTCAAAATAAGTC
Found at i:376597 original size:22 final size:22
Alignment explanation
Indices: 376566--376663 Score: 160
Period size: 22 Copynumber: 4.5 Consensus size: 22
376556 CCTAGTCCCG
*
376566 GACTGATTGTCACATACAGCTA
1 GACTGTTTGTCACATACAGCTA
376588 GACTGTTTGTCACATACAGCTA
1 GACTGTTTGTCACATACAGCTA
*
376610 GACTGTTTGTCACATACAACTA
1 GACTGTTTGTCACATACAGCTA
*
376632 GATTGTTTGTCACATACAGCTA
1 GACTGTTTGTCACATACAGCTA
*
376654 GACTATTTGT
1 GACTGTTTGT
376664 GGACATTCAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 70 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (22 bp):
GACTGTTTGTCACATACAGCTA
Found at i:380584 original size:20 final size:22
Alignment explanation
Indices: 380544--380598 Score: 80
Period size: 20 Copynumber: 2.6 Consensus size: 22
380534 TTTTTTAGGA
380544 GAGTATCGATACTCCATCAAG-
1 GAGTATCGATACTCCATCAAGT
*
380565 GAGTATCGATACT-TATCAAGT
1 GAGTATCGATACTCCATCAAGT
380586 G-GTATCGATACTC
1 GAGTATCGATACTC
380599 AGGGACTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (22 bp):
GAGTATCGATACTCCATCAAGT
Found at i:380772 original size:23 final size:21
Alignment explanation
Indices: 380746--380798 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
380736 TACCGATACC
380746 AGGGTAAGTATTGATACCACAAG
1 AGGG-AAGTATTGATACC-CAAG
*
380769 AGGGGAGTATTGATACCCAAG
1 AGGGAAGTATTGATACCCAAG
*
380790 AAGG-AGTAT
1 AGGGAAGTAT
380799 CAGTACCATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 12 0.43
23 4 0.14
ACGTcount: A:0.38, C:0.11, G:0.30, T:0.21
Consensus pattern (21 bp):
AGGGAAGTATTGATACCCAAG
Found at i:380797 original size:20 final size:22
Alignment explanation
Indices: 380752--380798 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
380742 TACCAGGGTA
*
380752 AGTATTGATACCACAAGAGGGG
1 AGTATTGATACCACAAGAGAGG
380774 AGTATTGATACC-CAAGA-AGG
1 AGTATTGATACCACAAGAGAGG
380794 AGTAT
1 AGTAT
380799 CAGTACCATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 7 0.29
21 5 0.21
22 12 0.50
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.21
Consensus pattern (22 bp):
AGTATTGATACCACAAGAGAGG
Found at i:381727 original size:19 final size:19
Alignment explanation
Indices: 381703--381743 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
381693 TTGTATGTTT
381703 AAGAGTAGTATATGAAGAC
1 AAGAGTAGTATATGAAGAC
381722 AAGAGTAGTATATGAAGAC
1 AAGAGTAGTATATGAAGAC
381741 AAG
1 AAG
381744 TTGATTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.49, C:0.05, G:0.27, T:0.20
Consensus pattern (19 bp):
AAGAGTAGTATATGAAGAC
Found at i:382621 original size:23 final size:23
Alignment explanation
Indices: 382594--382642 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
382584 TCGAAACAAT
382594 TATGTGGCACTTCAGTGCAAACC
1 TATGTGGCACTTCAGTGCAAACC
* *
382617 TATGTTGCACTTCGGTGCAAACC
1 TATGTGGCACTTCAGTGCAAACC
382640 TAT
1 TAT
382643 ATGTTCGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (23 bp):
TATGTGGCACTTCAGTGCAAACC
Found at i:384814 original size:23 final size:23
Alignment explanation
Indices: 384784--384829 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
384774 TCTCTGAGCT
384784 GACCCACCAAGAAAAGACGATGG
1 GACCCACCAAGAAAAGACGATGG
384807 GACCCACCAAGAAAAGACGATGG
1 GACCCACCAAGAAAAGACGATGG
384830 AGCATGTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.26, G:0.26, T:0.04
Consensus pattern (23 bp):
GACCCACCAAGAAAAGACGATGG
Found at i:390073 original size:41 final size:41
Alignment explanation
Indices: 390037--390128 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 41
390027 ATTTGTGATC
390037 AAACGACGTAATATCCATG-TACTTTAGCGGCGTTTGTAGAA
1 AAACGACGTAATATCCATGAT-CTTTAGCGGCGTTTGTAGAA
* * *
390078 AAACGCCGTAATATCCATGATCTTTAGCGGCGTTTATAAAA
1 AAACGACGTAATATCCATGATCTTTAGCGGCGTTTGTAGAA
*
390119 AAATGACGTA
1 AAACGACGTA
390129 GTAGTTTTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
41 44 0.98
42 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (41 bp):
AAACGACGTAATATCCATGATCTTTAGCGGCGTTTGTAGAA
Found at i:393256 original size:2 final size:2
Alignment explanation
Indices: 393251--393321 Score: 128
Period size: 2 Copynumber: 36.5 Consensus size: 2
393241 TTATTTTTTA
393251 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
393293 AT AT AT AT AT AT AT -T AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
393322 CATTTATATT
Statistics
Matches: 67, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 65 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:399708 original size:87 final size:85
Alignment explanation
Indices: 399600--399795 Score: 223
Period size: 87 Copynumber: 2.3 Consensus size: 85
399590 GCCGCAAAAC
* * * * * *
399600 ATCAACACCTACTGCGACGTTTTAGAGAAAAACGCCGCTAAACATCATA-ACCTATTGCGGTGTT
1 ATCAACACCTATTGCGGCGTTTT-CAGAAAAACGCCACTAAACATCA-ACACCTATTACGGCGTT
399664 TATCAAAAAAAACGACGCTAAAT
64 TATC-AAAAAAACGACGCTAAAT
* * *
399687 ATCAACACCTATTGCGGCGTTTGTCATAAAAATGCCACTAAATATCAACACCTATTACGGCGTTT
1 ATCAACACCTATTGCGGCGTTT-TCAGAAAAACGCCACTAAACATCAACACCTATTACGGCGTTT
* ** *
399752 TTCTGAAAAACGTCGCTAAAT
65 ATCAAAAAAACGACGCTAAAT
*
399773 TTCAACACCTATTGCGGCGTTTT
1 ATCAACACCTATTGCGGCGTTTT
399796 TTGTTTAGAA
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
85 1 0.01
86 37 0.40
87 54 0.58
88 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (85 bp):
ATCAACACCTATTGCGGCGTTTTCAGAAAAACGCCACTAAACATCAACACCTATTACGGCGTTTA
TCAAAAAAACGACGCTAAAT
Found at i:399795 original size:43 final size:44
Alignment explanation
Indices: 399571--399796 Score: 214
Period size: 43 Copynumber: 5.2 Consensus size: 44
399561 AGACCTTTAC
* * * *
399571 CGGCGTTTTT--AGCAAAAATGCCGCAAAACATCAACACCTACTG
1 CGGCGTTTTTCAAG-AAAAACGCCGCTAAATATCAACACCTATTG
* *
399614 CGACG-TTTT-AGAGAAAAACGCCGCTAAACATCATA-ACCTATTG
1 CGGCGTTTTTCA-AGAAAAACGCCGCTAAATATCA-ACACCTATTG
* * * *
399657 CGGTGTTTATCAAAAAAAACGACGCTAAATATCAACACCTATTG
1 CGGCGTTTTTCAAGAAAAACGCCGCTAAATATCAACACCTATTG
* * * * *
399701 CGGCGTTTGTC-ATAAAAATGCCACTAAATATCAACACCTATTA
1 CGGCGTTTTTCAAGAAAAACGCCGCTAAATATCAACACCTATTG
* * *
399744 CGGCGTTTTTC-TGAAAAACGTCGCTAAATTTCAACACCTATTG
1 CGGCGTTTTTCAAGAAAAACGCCGCTAAATATCAACACCTATTG
399787 CGGCGTTTTT
1 CGGCGTTTTT
399797 TGTTTAGAAA
Statistics
Matches: 152, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
42 4 0.03
43 105 0.69
44 42 0.28
45 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.27
Consensus pattern (44 bp):
CGGCGTTTTTCAAGAAAAACGCCGCTAAATATCAACACCTATTG
Found at i:405651 original size:13 final size:13
Alignment explanation
Indices: 405630--405664 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
405620 ACTTCTCTTT
405630 TTCTTTTCTTTTC
1 TTCTTTTCTTTTC
405643 TT-TTCTTCTTTTC
1 TTCTT-TTCTTTTC
405656 TTCTTTTCT
1 TTCTTTTCT
405665 GATTTTTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.10
13 16 0.80
14 2 0.10
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTCTTTTCTTTTC
Found at i:410853 original size:15 final size:16
Alignment explanation
Indices: 410833--410865 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
410823 GATGACCTAA
410833 TTTTTGCAGG-ATTTT
1 TTTTTGCAGGAATTTT
410848 TTTTTGCAGGAATTTT
1 TTTTTGCAGGAATTTT
410864 TT
1 TT
410866 ACTCAAACAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.15, C:0.06, G:0.18, T:0.61
Consensus pattern (16 bp):
TTTTTGCAGGAATTTT
Found at i:414242 original size:54 final size:53
Alignment explanation
Indices: 414184--414630 Score: 158
Period size: 54 Copynumber: 8.3 Consensus size: 53
414174 TTCGTTGAGA
* * ** * **
414184 TGCACACGTAGTACCAATACGGTCATTCATAAACATATTATGAATTCTGTGGGT
1 TGCACACATAGTGCCAA-ACGGTCATTCATAAACATACGAAGAATTCCATGGGT
** *
414238 TGCACACATAGTGCCTAAACGGTTGTTCATCAACATACGAAGAATTCCATGGGT
1 TGCACACATAGTGCC-AAACGGTCATTCATAAACATACGAAGAATTCCATGGGT
* * ** * * * * *
414292 TGCACACATAGTGCCAAAATGATTGTTCATCAACTTATGATA-AATTCCGTAGGT
1 TGCACACATAGTGCC-AAACGGTCATTCATAAACATACGA-AGAATTCCATGGGT
* * * * ** * * * * *
414346 CGCACATATAGTGCCAAAATGATTGTTCATCAACATATGATGAATTCCGTTGGT
1 TGCACACATAGTGCC-AAACGGTCATTCATAAACATACGAAGAATTCCATGGGT
* * ** * * * * **
414400 TGCACATATAGTGCCAAAATGGTTGTTCATCAACTTATGATGAATTCCAAAGGT
1 TGCACACATAGTGCC-AAACGGTCATTCATAAACATACGAAGAATTCCATGGGT
* * * ** * * * * *
414454 TGCACATATAGTGCCAAAATGATTGTTCATCAACTTATGATGAATTCCGTGGGT
1 TGCACACATAGTGCC-AAACGGTCATTCATAAACATACGAAGAATTCCATGGGT
* * ** * * * * * *
414508 TGCACATATAGTGCCAAAAAGGTTGTTCATCAACTTATGATGAATTTCGTGGGT
1 TGCACACATAGTGCC-AAACGGTCATTCATAAACATACGAAGAATTCCATGGGT
* * * ** * * * * **
414562 TGCACATATATTGTCAAAACGGTTGTTCATCAACTTATGATGAATTCTGTGGGT
1 TGCACACATAGTG-CCAAACGGTCATTCATAAACATACGAAGAATTCCATGGGT
*
414616 TGCACATATAGTGCC
1 TGCACACATAGTGCC
414631 TAAAGTACAC
Statistics
Matches: 347, Mismatches: 42, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.00
54 342 0.99
55 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (53 bp):
TGCACACATAGTGCCAAACGGTCATTCATAAACATACGAAGAATTCCATGGGT
Found at i:414373 original size:108 final size:108
Alignment explanation
Indices: 414209--414630 Score: 583
Period size: 108 Copynumber: 3.9 Consensus size: 108
414199 AATACGGTCA
* * * * * * * *
414209 TTCATAAACATATTATGAATTCTGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACAT
1 TTCATCAACTTATGATGAATTCCGTAGGTTGCACATATAGTGCCAAAACGATTGTTCATCAACAT
* * * * *
414274 ACGAAGAATTCCATGGGTTGCACACATAGTGCCAAAATGATTG
66 ATGATGAATTCCGTGGGTTGCACATATAGTGCCAAAATGGTTG
* * *
414317 TTCATCAACTTATGATAAATTCCGTAGGTCGCACATATAGTGCCAAAATGATTGTTCATCAACAT
1 TTCATCAACTTATGATGAATTCCGTAGGTTGCACATATAGTGCCAAAACGATTGTTCATCAACAT
*
414382 ATGATGAATTCCGTTGGTTGCACATATAGTGCCAAAATGGTTG
66 ATGATGAATTCCGTGGGTTGCACATATAGTGCCAAAATGGTTG
** * *
414425 TTCATCAACTTATGATGAATTCCAAAGGTTGCACATATAGTGCCAAAATGATTGTTCATCAACTT
1 TTCATCAACTTATGATGAATTCCGTAGGTTGCACATATAGTGCCAAAACGATTGTTCATCAACAT
*
414490 ATGATGAATTCCGTGGGTTGCACATATAGTGCCAAAAAGGTTG
66 ATGATGAATTCCGTGGGTTGCACATATAGTGCCAAAATGGTTG
* * * * * *
414533 TTCATCAACTTATGATGAATTTCGTGGGTTGCACATATATTGTCAAAACGGTTGTTCATCAACTT
1 TTCATCAACTTATGATGAATTCCGTAGGTTGCACATATAGTGCCAAAACGATTGTTCATCAACAT
*
414598 ATGATGAATTCTGTGGGTTGCACATATAGTGCC
66 ATGATGAATTCCGTGGGTTGCACATATAGTGCC
414631 TAAAGTACAC
Statistics
Matches: 281, Mismatches: 33, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
108 281 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (108 bp):
TTCATCAACTTATGATGAATTCCGTAGGTTGCACATATAGTGCCAAAACGATTGTTCATCAACAT
ATGATGAATTCCGTGGGTTGCACATATAGTGCCAAAATGGTTG
Found at i:414482 original size:162 final size:162
Alignment explanation
Indices: 414209--414630 Score: 628
Period size: 162 Copynumber: 2.6 Consensus size: 162
414199 AATACGGTCA
* * * * * *
414209 TTCATAAACATATTATGAATTCTGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACAT
1 TTCATCAACATATGATGAATTCCGTGGGTTGCACATATAGTGCCAAAACGGTTGTTCATCAACTT
* * *
414274 ACGAAGAATTCCATGGGTTGCACACATAGTGCCAAAATGATTGTTCATCAACTTATGATAAATTC
66 ATGATGAATTCCATGGGTTGCACATATAGTGCCAAAATGATTGTTCATCAACTTATGATAAATTC
*
414339 CGTAGGTCGCACATATAGTGCCAAAATGATTG
131 CGTAGGTCGCACATATAGTGCCAAAAAGATTG
* *
414371 TTCATCAACATATGATGAATTCCGTTGGTTGCACATATAGTGCCAAAATGGTTGTTCATCAACTT
1 TTCATCAACATATGATGAATTCCGTGGGTTGCACATATAGTGCCAAAACGGTTGTTCATCAACTT
** *
414436 ATGATGAATTCCAAAGGTTGCACATATAGTGCCAAAATGATTGTTCATCAACTTATGATGAATTC
66 ATGATGAATTCCATGGGTTGCACATATAGTGCCAAAATGATTGTTCATCAACTTATGATAAATTC
* * *
414501 CGTGGGTTGCACATATAGTGCCAAAAAGGTTG
131 CGTAGGTCGCACATATAGTGCCAAAAAGATTG
* * * *
414533 TTCATCAACTTATGATGAATTTCGTGGGTTGCACATATATTGTCAAAACGGTTGTTCATCAACTT
1 TTCATCAACATATGATGAATTCCGTGGGTTGCACATATAGTGCCAAAACGGTTGTTCATCAACTT
**
414598 ATGATGAATTCTGTGGGTTGCACATATAGTGCC
66 ATGATGAATTCCATGGGTTGCACATATAGTGCC
414631 TAAAGTACAC
Statistics
Matches: 232, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
162 232 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (162 bp):
TTCATCAACATATGATGAATTCCGTGGGTTGCACATATAGTGCCAAAACGGTTGTTCATCAACTT
ATGATGAATTCCATGGGTTGCACATATAGTGCCAAAATGATTGTTCATCAACTTATGATAAATTC
CGTAGGTCGCACATATAGTGCCAAAAAGATTG
Found at i:415113 original size:19 final size:21
Alignment explanation
Indices: 415071--415121 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
415061 CTGTCTCTTA
415071 GTACCGATACTTCTATACTATG
1 GTACCGATACTTCTATA-TATG
415093 GTACCGATAC-TCTAT-TATG
1 GTACCGATACTTCTATATATG
*
415112 GTATCGATAC
1 GTACCGATAC
415122 CATTTCTGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.46
21 5 0.18
22 10 0.36
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (21 bp):
GTACCGATACTTCTATATATG
Found at i:419133 original size:14 final size:14
Alignment explanation
Indices: 419116--419154 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
419106 TATCGAAATT
*
419116 GGAATACATGCTTC
1 GGAATACATACTTC
*
419130 GGAATATATACTTC
1 GGAATACATACTTC
*
419144 GGAATAAATAC
1 GGAATACATAC
419155 ATGCTTCAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (14 bp):
GGAATACATACTTC
Found at i:419611 original size:24 final size:24
Alignment explanation
Indices: 419584--419632 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
419574 CGTTCGTGAA
419584 CGTTCGGTTATGTTCATTTATGTT
1 CGTTCGGTTATGTTCATTTATGTT
*
419608 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTTATGTTCATTTATGTT
419632 C
1 C
419633 ATTCATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.10, C:0.14, G:0.22, T:0.53
Consensus pattern (24 bp):
CGTTCGGTTATGTTCATTTATGTT
Found at i:419642 original size:24 final size:24
Alignment explanation
Indices: 419590--419645 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
419580 TGAACGTTCG
* *
419590 GTTATGTTCATTTATGTTCGTTCG
1 GTTATGTTCATTTATGTTCATTCA
*
419614 GTTATGTTCGTTTATGTTCATTCA
1 GTTATGTTCATTTATGTTCATTCA
*
419638 TTTATGTT
1 GTTATGTT
419646 TAACCCAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.14, C:0.11, G:0.18, T:0.57
Consensus pattern (24 bp):
GTTATGTTCATTTATGTTCATTCA
Found at i:420728 original size:10 final size:10
Alignment explanation
Indices: 420713--420771 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
420703 GGGTATCCAA
420713 CGTTTATGTT
1 CGTTTATGTT
420723 CGTTTATGTT
1 CGTTTATGTT
420733 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
420744 ATGTTCGTGTT
1 -CGTTTATGTT
420755 CGTTTATGTT
1 CGTTTATGTT
420765 CGTTTAT
1 CGTTTAT
420772 TTATTAAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
10 28 0.72
11 7 0.18
12 4 0.10
ACGTcount: A:0.10, C:0.12, G:0.20, T:0.58
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:420744 original size:16 final size:16
Alignment explanation
Indices: 420719--420775 Score: 82
Period size: 16 Copynumber: 3.7 Consensus size: 16
420709 CCAACGTTTA
*
420719 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
420735 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
*
420751 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
420767 T-TT-ATTTAT
1 TGTTCATTTAT
420776 TAAATGAACG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
14 5 0.13
15 2 0.05
16 31 0.82
ACGTcount: A:0.11, C:0.11, G:0.19, T:0.60
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:420857 original size:16 final size:16
Alignment explanation
Indices: 420836--420868 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
420826 AAAAAAAATT
*
420836 TGTTCGTTTATGTTTG
1 TGTTCGTTTAAGTTTG
420852 TGTTCGTTTAAGTTTG
1 TGTTCGTTTAAGTTTG
420868 T
1 T
420869 TTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.06, G:0.24, T:0.61
Consensus pattern (16 bp):
TGTTCGTTTAAGTTTG
Found at i:429559 original size:27 final size:28
Alignment explanation
Indices: 429514--429573 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
429504 ATTTTAACTT
429514 TAATTAAATTCAATAACTT-T-AATCATC
1 TAATTAAATTCAATAACTTGTCAATC-TC
*
429541 TAATTAAATTACAA-CACTTGTCAATCTC
1 TAATTAAATT-CAATAACTTGTCAATCTC
429569 TAATT
1 TAATT
429574 GGACGATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 14 0.48
28 11 0.38
29 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.40
Consensus pattern (28 bp):
TAATTAAATTCAATAACTTGTCAATCTC
Found at i:429883 original size:18 final size:18
Alignment explanation
Indices: 429833--429883 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
429823 TTATAATATT
429833 TTATATATTTAATTTAAA
1 TTATATATTTAATTTAAA
**
429851 TTCATAT-CCTAATTTAAA
1 TT-ATATATTTAATTTAAA
*
429869 TTATATATTTTATTT
1 TTATATATTTAATTT
429884 TTTACCCAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 4 0.15
18 18 0.69
19 4 0.15
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATATATTTAATTTAAA
Found at i:429998 original size:25 final size:25
Alignment explanation
Indices: 429955--430039 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
429945 TTTTATTAAA
*
429955 TTAATTTAATAATAA-AATATATTTT
1 TTAAGTTAATAA-AAGAATATATTTT
*
429980 TTAAGTTAATAAAAGAATA-A-TAT
1 TTAAGTTAATAAAAGAATATATTTT
* *
430003 AT-A--TAATAACAGAATATATTTT
1 TTAAGTTAATAAAAGAATATATTTT
430025 TTAAGTTAATAAAAG
1 TTAAGTTAATAAAAG
430040 GATAAAATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
20 12 0.26
21 1 0.02
22 4 0.09
23 4 0.09
24 3 0.06
25 23 0.49
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (25 bp):
TTAAGTTAATAAAAGAATATATTTT
Found at i:430024 original size:45 final size:45
Alignment explanation
Indices: 429961--430052 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
429951 TAAATTAATT
* *
429961 TAATAATAAAATATATTTTTTAAGTTAATAAAAGAATAATATATA
1 TAATAACAAAATATATTTTTTAAGTTAATAAAAGAATAAAATATA
* *
430006 TAATAACAGAATATATTTTTTAAGTTAATAAAAGGATAAAATATA
1 TAATAACAAAATATATTTTTTAAGTTAATAAAAGAATAAAATATA
430051 TA
1 TA
430053 TATATATTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.38
Consensus pattern (45 bp):
TAATAACAAAATATATTTTTTAAGTTAATAAAAGAATAAAATATA
Found at i:430285 original size:32 final size:32
Alignment explanation
Indices: 430217--430285 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
430207 ACCAGAGGGT
*
430217 AAATTTAATGAATTAAATAAAAATTTAAGATT
1 AAATTTAATGAATTAAATAAAAATTTAAGATC
* * *
430249 AAATTTATTGAATTTAAATTAAAA-TTAGGATC
1 AAATTTAATGAA-TTAAATAAAAATTTAAGATC
430281 AAATT
1 AAATT
430286 GATATATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 22 0.69
33 10 0.31
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.39
Consensus pattern (32 bp):
AAATTTAATGAATTAAATAAAAATTTAAGATC
Found at i:430721 original size:16 final size:16
Alignment explanation
Indices: 430691--430720 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
430681 ATATTTACAT
430691 TTTATTTTTATTTTTA
1 TTTATTTTTATTTTTA
430707 TTTA-TTTTATTTTT
1 TTTATTTTTATTTTT
430721 TGTGTCAGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTATTTTTATTTTTA
Found at i:432071 original size:2 final size:2
Alignment explanation
Indices: 432064--432117 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
432054 CTTAATATTT
432064 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
432106 TA TA TG TA TA TA
1 TA TA TA TA TA TA
432118 CTTATAATAG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:443712 original size:105 final size:105
Alignment explanation
Indices: 443526--444214 Score: 1087
Period size: 105 Copynumber: 6.7 Consensus size: 105
443516 AGGTTTTACC
443526 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
*
443591 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
*
443631 CAGGGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
443696 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
*
443736 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
443801 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
*
443841 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
443906 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
* *
443946 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
* * * *
444011 ACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCCAATCT
66 ACGAAGGGACCGCTGGTTGTCAACGAAC-ATTTCTCAATTT
* * *
444051 CAGAGCC-A----AACTTCACAACGAAGAATATTGGACTTCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
* * * *
444111 ACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCCAATCT
66 ACGAAGGGACCGCTGGTTGTCAACGAAC-ATTTCTCAATTT
* * * *
444151 CAGAGCC-A----AACTTCACAACGAAGAATATTGGACTCTAGACAACGCAAGTCCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
444211 ACGA
66 ACGA
444215 TGGATATCCA
Statistics
Matches: 568, Mismatches: 15, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
100 152 0.27
104 4 0.01
105 412 0.73
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
Found at i:444760 original size:16 final size:16
Alignment explanation
Indices: 444730--444759 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
444720 ATATTTACAT
444730 TTTATTTTTATTTTTA
1 TTTATTTTTATTTTTA
444746 TTTA-TTTTATTTTT
1 TTTATTTTTATTTTT
444760 TGTGTCAGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTATTTTTATTTTTA
Found at i:446116 original size:13 final size:14
Alignment explanation
Indices: 446100--446141 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
446090 TTATTTTTGC
446100 TTAATAT-TATATT
1 TTAATATATATATT
446113 TTAATATATATATAT
1 TTAATATATATAT-T
*
446128 ATATATATATATAT
1 TTA-ATATATATAT
446142 ATATATACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 7 0.28
14 5 0.20
15 3 0.12
16 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAATATATATATT
Found at i:446123 original size:2 final size:2
Alignment explanation
Indices: 446116--446148 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
446106 TTATATTTTA
446116 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
446149 CTTATAATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:448187 original size:18 final size:18
Alignment explanation
Indices: 448164--448199 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
448154 AACCAAGAGT
448164 GCTTCAAATACACCAACA
1 GCTTCAAATACACCAACA
448182 GCTTCAAATACACCAACA
1 GCTTCAAATACACCAACA
448200 TTATAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.33, G:0.06, T:0.17
Consensus pattern (18 bp):
GCTTCAAATACACCAACA
Found at i:457929 original size:21 final size:21
Alignment explanation
Indices: 457903--457949 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
457893 GTGGAGGTAT
457903 GGGCAACAACAACCGATGGCA
1 GGGCAACAACAACCGATGGCA
457924 GGGCAACAACAACCGATGGCA
1 GGGCAACAACAACCGATGGCA
457945 GGGCA
1 GGGCA
457950 TGGTGTGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.36, C:0.28, G:0.32, T:0.04
Consensus pattern (21 bp):
GGGCAACAACAACCGATGGCA
Found at i:458252 original size:3 final size:3
Alignment explanation
Indices: 458244--458269 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
458234 ATTATAAACT
458244 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
458270 TGCAAATAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:459317 original size:2 final size:2
Alignment explanation
Indices: 459310--459336 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
459300 ATCATCGATA
459310 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
459337 ATTTTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:475227 original size:262 final size:252
Alignment explanation
Indices: 474744--475325 Score: 743
Period size: 262 Copynumber: 2.2 Consensus size: 252
474734 ATTTTTATTC
* *
474744 AATATATGAATTAGAAATTCGACCCGACACGACACAAAATAATAATAATAAATTATTTTTATTCA
1 AATATATGAATTAGAAA-TCGACCCGAC-CGACCCGAAATAAT-A-AA-AAATTATTTTTATTCA
* *
474809 ATAAAAACATTGACTTAATTGGAAAAAAAATATATAGAGGAGTATTATTGTAATTATTCCTAAAT
61 ATAAAAACAGTGACTTAATTGGAAAAAAAATATAGAGAGGAGTATTATTGTAATTATTCCTAAAT
* *
474874 ATATAAGCTAAAATTATATTATTATTTTTTGGGTCGGTCCAGTTTTTTTCACCCTAAACCCTAAC
126 ATATAAGCTAAAATTATATTATTATTTTTCGGGTCGG--C-GTATTTTTCACCCTAAACCCTAAC
* * *
474939 CCGACCCGAATATCACCCTTAAAAAACCCGA-CCGACCCGAACAAAATAAAGTTTCACCCGACCC
188 CCGACCCGAATAGCACACTTAAAAAA-CCGACCCGACCCGAACAAAATAAAATTTCACCCGACCC
475003 G
252 G
475004 ACCCAAATATATGAATTAGAAATCCGACCCGACCTGACCCGAAATAATAAAAAATTATTTTTATT
1 -----AATATATGAATTAGAAAT-CGACCCGACC-GACCCGAAATAATAAAAAATTATTTTTATT
*
475069 CAATAAAAACAGTGACTTAATT-GAAAAAATATATATAGAGAGGGGTATTATTGTAATTATTCCT
59 CAATAAAAACAGTGACTTAATTGGAAAAAA-A-ATATAGAGAGGAGTATTATTGTAATTATTCCT
*
475133 AAATATATAAGGTAAAATTATA-TA-TA-TTTTCGGGTCGG-GTATTTTTCACCCTAAACCCGAA
122 AAATATATAAGCTAAAATTATATTATTATTTTTCGGGTCGGCGTATTTTTCACCCTAAA-CC---
* *
475194 CTCGACCCGACCCGAATAGCACACTTAAAAAAACCGACCCGACCCGACCAAAATAAAATTTCACC
183 CT-AACCCGACCCGAATAGCACACTT-AAAAAACCGACCCGACCCGAACAAAATAAAATTTCACC
475259 CGACCCG
246 CGACCCG
*
475266 AATATATGAATTAG-AA---ACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTCAATA
1 AATATATGAATTAGAAATCGACCCGA-CCGACCCGAAATAATAAAAAATTATTTTTATTCAATA
475326 TATAAATAAG
Statistics
Matches: 291, Mismatches: 14, Indels: 37
0.85 0.04 0.11
Matches are distributed among these distances:
252 40 0.14
253 2 0.01
256 18 0.06
257 16 0.05
260 13 0.04
261 33 0.11
262 76 0.26
263 53 0.18
264 3 0.01
265 37 0.13
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.28
Consensus pattern (252 bp):
AATATATGAATTAGAAATCGACCCGACCGACCCGAAATAATAAAAAATTATTTTTATTCAATAAA
AACAGTGACTTAATTGGAAAAAAAATATAGAGAGGAGTATTATTGTAATTATTCCTAAATATATA
AGCTAAAATTATATTATTATTTTTCGGGTCGGCGTATTTTTCACCCTAAACCCTAACCCGACCCG
AATAGCACACTTAAAAAACCGACCCGACCCGAACAAAATAAAATTTCACCCGACCCG
Found at i:479313 original size:2 final size:2
Alignment explanation
Indices: 479308--479338 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
479298 TTATTATTGT
479308 TA 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 TA T
479339 TTAATAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:479348 original size:3 final size:3
Alignment explanation
Indices: 479340--479445 Score: 126
Period size: 3 Copynumber: 36.0 Consensus size: 3
479330 TATATATATT
* * *
479340 TAA TAA TAA TAA TAA TAA TAT TTA T-A TAA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
479387 TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TTA TTA TTA TTA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
479434 TAA TAA TAA TAA
1 TAA TAA TAA TAA
479446 ATAAATCAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
2 4 0.04
3 88 0.96
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:479382 original size:38 final size:37
Alignment explanation
Indices: 479317--479413 Score: 131
Period size: 38 Copynumber: 2.5 Consensus size: 37
479307 TTATATATAT
*
479317 ATATATATATATATATATATATTTAATAATAATAATAATA
1 ATATTTATATA-ATA-ATA-ATTTAATAATAATAATAATA
479357 ATATTTATATAATAATAATTATAATAATAATAATAATA
1 ATATTTATATAATAATAATT-TAATAATAATAATAATA
* *
479395 ATAATAATATAATAATAAT
1 ATATTTATATAATAATAAT
479414 AATTATTATT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
37 3 0.06
38 37 0.70
39 3 0.06
40 10 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (37 bp):
ATATTTATATAATAATAATTTAATAATAATAATAATA
Found at i:479442 original size:41 final size:41
Alignment explanation
Indices: 479340--479449 Score: 152
Period size: 41 Copynumber: 2.7 Consensus size: 41
479330 TATATATATT
*
479340 TAATAATAATAATAATAAT-ATTTATATAATAATAATTATAA
1 TAATAATAATAATAATAATAATATA-ATAATAATAATTATAA
*
479381 TAATAATAATAATAATAATAATATAATAATAATAATTATTA
1 TAATAATAATAATAATAATAATATAATAATAATAATTATAA
* * *
479422 TTATTATAGTAATAATAATAATA-AATAA
1 TAATAATAATAATAATAATAATATAATAA
479450 ATCAAAATGG
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
40 5 0.08
41 54 0.86
42 4 0.06
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (41 bp):
TAATAATAATAATAATAATAATATAATAATAATAATTATAA
Found at i:479703 original size:124 final size:124
Alignment explanation
Indices: 479475--480011 Score: 585
Period size: 124 Copynumber: 4.5 Consensus size: 124
479465 AAAATTAGTA
* * * * *
479475 TCTTCTCT-TTCTTCAGATGAGTTTCTTCTCATTATGAACTTTCCGCTGG---GGATGATG-TGA
1 TCTTCTTTCTTCTTCAGATAAG-TTCTTCTCATTATGAACTTT-CTCTGGAAAGGTTGATGCTAA
* * * * * * * * * *
479535 CCTATTTCCTTCTGTGATAGAGTCATTCCAAAGGTTGAATAAGCTCTTCTTATTTTGAACT
64 TCTATCTGCTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACT
*
479596 TCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATC
1 TCTTCTTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATC
479661 TATCTGCTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACT
66 TATCTGCTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACT
* * * *
479720 TCTTC-TTCCTCTTAAGATAAGTTCTTCTTATTATGAACTTTCTCTGGAAATGTTGAT-C----C
1 TCTTCTTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATC
** * * *
479779 -A--T-C--AAGTGAT-GAATT-TGAACAAAAGGTTAAACAAGTTCTTCTCATTATGAACT
66 TATCTGCTTCTGTGATAGAATTATG--CAAAAGGTTGAACAAGCTCTTCTCATTGTGAACT
* * *
479832 TCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGGAAA-GCTAATGCTAAT
1 TCTTCTTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCT-GGAAAGGTTGATGCTAAT
* *
479896 CTATCTGCTTCTGTGATAGAATTATGAAAAAGGTTGAACAAGCTCTTCTTATTGTGAACT
65 CTATCTGCTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACT
* * *
479956 TCTTC-TTCCTCTTCAGATAAGTTCTTCTTATTATGAACTTTCTCTGGAAATGTTGA
1 TCTTCTTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGA
480012 CCCATCAAGT
Statistics
Matches: 351, Mismatches: 42, Indels: 44
0.80 0.10 0.10
Matches are distributed among these distances:
110 2 0.01
111 5 0.01
112 41 0.12
113 40 0.11
114 7 0.02
115 1 0.00
117 1 0.00
118 2 0.01
119 1 0.00
120 5 0.01
121 28 0.08
122 20 0.06
123 94 0.27
124 97 0.28
125 5 0.01
126 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (124 bp):
TCTTCTTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATC
TATCTGCTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACT
Found at i:479977 original size:236 final size:236
Alignment explanation
Indices: 479564--480101 Score: 913
Period size: 236 Copynumber: 2.3 Consensus size: 236
479554 GAGTCATTCC
* * * * * * *
479564 AAAGGTTGAATAAGCTCTTCTTATTTTGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATT
* * *
479629 ATGAACTTTCTCTGGAAAGGTTGATGCTAATCTATCTGCTTCTGTGATAGAATTATGCAAAAGGT
66 ATGAACTTTCTCTGGAAAGGCTAATGCTAATCTATCTGCTTCTGTGATAGAATTATGAAAAAGGT
479694 TGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCCTCTTAAGATAAGTTCTTCTTATTATGAACT
131 TGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCCTCTTAAGATAAGTTCTTCTTATTATGAACT
*
479759 TTCTCTGGAAATGTTGATCCATCAAGTGATGAATTTGAACA
196 TTCTCTGGAAATGTTGACCCATCAAGTGATGAATTTGAACA
479800 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATT
479865 ATGAACTTTCTCTGGGAAA-GCTAATGCTAATCTATCTGCTTCTGTGATAGAATTATGAAAAAGG
66 ATGAACTTTCTCT-GGAAAGGCTAATGCTAATCTATCTGCTTCTGTGATAGAATTATGAAAAAGG
* *
479929 TTGAACAAGCTCTTCTTATTGTGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTTATTATGAAC
130 TTGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCCTCTTAAGATAAGTTCTTCTTATTATGAAC
479994 TTTCTCTGGAAATGTTGACCCATCAAGTGATGAATTTGAACA
195 TTTCTCTGGAAATGTTGACCCATCAAGTGATGAATTTGAACA
*
480036 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG-GAA-TTCTTCTCA-T
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATT
480098 ATGA
66 ATGA
480102 CTCGAACTGG
Statistics
Matches: 287, Mismatches: 14, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
233 5 0.02
234 9 0.03
235 2 0.01
236 266 0.93
237 5 0.02
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.40
Consensus pattern (236 bp):
AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAGGCTAATGCTAATCTATCTGCTTCTGTGATAGAATTATGAAAAAGGT
TGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCCTCTTAAGATAAGTTCTTCTTATTATGAACT
TTCTCTGGAAATGTTGACCCATCAAGTGATGAATTTGAACA
Done.