Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 42 of 216
Found at i:11983508 original size:14 final size:13
Alignment explanation
Indices: 11983470--11983510 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 13
11983460 CCTTAATAAC
11983470 TATATTTGTTATA
1 TATATTTGTTATA
11983483 TA-ATTT-TT-TA
1 TATATTTGTTATA
11983493 TATATTTGTGTATA
1 TATATTTGT-TATA
11983507 TATA
1 TATA
11983511 CTTACTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
10 4 0.17
11 6 0.25
12 5 0.21
13 3 0.12
14 6 0.25
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (13 bp):
TATATTTGTTATA
Found at i:11983509 original size:12 final size:11
Alignment explanation
Indices: 11983470--11983509 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
11983460 CCTTAATAAC
11983470 TATATTTGTTA
1 TATATTTGTTA
*
11983481 TATAATTTTTTA
1 TAT-ATTTGTTA
11983493 TATATTTGTGTA
1 TATATTTGT-TA
11983505 TATAT
1 TATAT
11983510 ACTTACTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 8 0.32
12 17 0.68
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (11 bp):
TATATTTGTTA
Found at i:11983939 original size:4 final size:4
Alignment explanation
Indices: 11983932--11983956 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11983922 TATATATATA
11983932 TTGT TTGT TTGT TTGT TTGT TTGT T
1 TTGT TTGT TTGT TTGT TTGT TTGT T
11983957 ATTGATGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TTGT
Found at i:11984381 original size:23 final size:23
Alignment explanation
Indices: 11984351--11984398 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
11984341 GGGAACAAAA
*
11984351 GTGGAAATGGGCAGCAAATGTGG
1 GTGGAAATGGGCAGCAAACGTGG
11984374 GTGGAAATGGGCAGCAAACGTGG
1 GTGGAAATGGGCAGCAAACGTGG
11984397 GT
1 GT
11984399 TATACCCACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.10, G:0.44, T:0.17
Consensus pattern (23 bp):
GTGGAAATGGGCAGCAAACGTGG
Found at i:11988393 original size:18 final size:18
Alignment explanation
Indices: 11988333--11988457 Score: 83
Period size: 18 Copynumber: 6.9 Consensus size: 18
11988323 TGCATGTTTA
* *
11988333 ATGAGCTCGCAGCTTTCG
1 ATGAGCTCGCAACTTTGG
* * *
11988351 ATGAACTTGCAA-TTATGT
1 ATGAGCTCGCAACTT-TGG
* * *
11988369 TTGAGCTCACAACTTTGA
1 ATGAGCTCGCAACTTTGG
** *
11988387 ATGAGCTCGCAGTTTTCG
1 ATGAGCTCGCAACTTTGG
*
11988405 ATGAGCTCGCATA-TCTGG
1 ATGAGCTCGCA-ACTTTGG
*
11988423 ATGAGCTCGCAAATTTGG
1 ATGAGCTCGCAACTTTGG
* *
11988441 ATAAGCTCACAACTTTG
1 ATGAGCTCGCAACTTTG
11988458 CGACCTAAGT
Statistics
Matches: 80, Mismatches: 23, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
17 3 0.04
18 75 0.94
19 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (18 bp):
ATGAGCTCGCAACTTTGG
Found at i:11988410 original size:36 final size:36
Alignment explanation
Indices: 11988370--11988457 Score: 97
Period size: 36 Copynumber: 2.4 Consensus size: 36
11988360 CAATTATGTT
**
11988370 TGAGCTCACAACTTTGAATGAGCTCGCAGTTTTCGA
1 TGAGCTCACAACTTTGAATGAGCTCGCAAATTTCGA
* * * *
11988406 TGAGCTCGCATA-TCTGGATGAGCTCGCAAATTTGGA
1 TGAGCTCACA-ACTTTGAATGAGCTCGCAAATTTCGA
*
11988442 TAAGCTCACAACTTTG
1 TGAGCTCACAACTTTG
11988458 CGACCTAAGT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
35 1 0.02
36 39 0.95
37 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.30
Consensus pattern (36 bp):
TGAGCTCACAACTTTGAATGAGCTCGCAAATTTCGA
Found at i:11988428 original size:54 final size:54
Alignment explanation
Indices: 11988332--11988448 Score: 128
Period size: 54 Copynumber: 2.2 Consensus size: 54
11988322 TTGCATGTTT
* ** *
11988332 AATGAGCTCGCAGCTTTCGATGAACTTGCAATTATGTTTGAGCTCACAACTTTG
1 AATGAGCTCGCAGCTTTCGATGAACTCGCAATTATGGATGAGCTCACAAATTTG
* * * *
11988386 AATGAGCTCGCAGTTTTCGATGAGCTCGC-ATATCTGGATGAGCTCGCAAATTTG
1 AATGAGCTCGCAGCTTTCGATGAACTCGCAAT-TATGGATGAGCTCACAAATTTG
* *
11988440 GATAAGCTC
1 AATGAGCTC
11988449 ACAACTTTGC
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 2 0.04
54 50 0.96
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (54 bp):
AATGAGCTCGCAGCTTTCGATGAACTCGCAATTATGGATGAGCTCACAAATTTG
Found at i:11990707 original size:30 final size:29
Alignment explanation
Indices: 11990651--11990707 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
11990641 TATTTAATAA
**
11990651 ATTTTTTTAATTTTAAAATACTTTTTTTT
1 ATTTTTTTAATTTTAAAATAAATTTTTTT
*
11990680 ATTTTGTTTATTTTTAAAATAAATTTTT
1 ATTTT-TTTAATTTTAAAATAAATTTTT
11990708 GGTGTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (29 bp):
ATTTTTTTAATTTTAAAATAAATTTTTTT
Found at i:11991019 original size:13 final size:13
Alignment explanation
Indices: 11991001--11991027 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11990991 ACCCTACTTG
11991001 ATTTTCCATGTCA
1 ATTTTCCATGTCA
11991014 ATTTTCCATGTCA
1 ATTTTCCATGTCA
11991027 A
1 A
11991028 CAAATTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (13 bp):
ATTTTCCATGTCA
Found at i:11992351 original size:16 final size:16
Alignment explanation
Indices: 11992313--11992353 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
11992303 TTTTTTTTGC
*
11992313 TTAAAAATAATTGTTA
1 TTAAAATTAATTGTTA
11992329 TTAAAATTAATTGTTA
1 TTAAAATTAATTGTTA
11992345 TTAAAATTA
1 TTAAAATTA
11992354 TATCAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (16 bp):
TTAAAATTAATTGTTA
Found at i:11995836 original size:104 final size:105
Alignment explanation
Indices: 11995600--11995876 Score: 369
Period size: 104 Copynumber: 2.6 Consensus size: 105
11995590 GACACATGCC
*** **
11995600 CACGGCCTAGACACACATACATGTCCTTG-CTCGTGTGGCTCACACAGCCTGGGCACACACCCAT
1 CACGGCCTAGACACACGCCCATGTCCTTGCCT-GTGTGGCTCACACAGCCTGGGCACATGCCCAT
** * *
11995664 GTTGTCTACCCATGTGGCTCTAAATCATAAAGAGTGAGTTA
65 GTCCTCTACCCATGTGGCTCTAAAGCATAAACAGTGAGTTA
* *
11995705 CACGGCCTAGACACATGCCTATGTCCTTGCCTGTGTGGCTCACACAGCCTGGGCACATGCCCATG
1 CACGGCCTAGACACACGCCCATGTCCTTGCCTGTGTGGCTCACACAGCCTGGGCACATGCCCATG
* * * *
11995770 TCCT-TAGCCGTGTGGTTCTAAAGCGTAAACAGTGAGTTA
66 TCCTCTACCCATGTGGCTCTAAAGCATAAACAGTGAGTTA
* * *
11995809 CACGGCCTGGACACACGCCCATGTCCTTGCCCGTGTGGCTCACACAGCCTGGGCACATGCCTATG
1 CACGGCCTAGACACACGCCCATGTCCTTGCCTGTGTGGCTCACACAGCCTGGGCACATGCCCATG
11995874 TCC
66 TCC
11995877 CTTGCTATGT
Statistics
Matches: 151, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
104 92 0.61
105 57 0.38
106 2 0.01
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.23
Consensus pattern (105 bp):
CACGGCCTAGACACACGCCCATGTCCTTGCCTGTGTGGCTCACACAGCCTGGGCACATGCCCATG
TCCTCTACCCATGTGGCTCTAAAGCATAAACAGTGAGTTA
Found at i:12001290 original size:29 final size:29
Alignment explanation
Indices: 12001257--12001313 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
12001247 TACCAAGATT
12001257 GTCTTTTCCATTATTTAAAACAAAACACA
1 GTCTTTTCCATTATTTAAAACAAAACACA
*
12001286 GTCTTTTCCATTATTTAATACAAAACAC
1 GTCTTTTCCATTATTTAAAACAAAACAC
12001314 TTGCATCCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.37
Consensus pattern (29 bp):
GTCTTTTCCATTATTTAAAACAAAACACA
Found at i:12004019 original size:21 final size:21
Alignment explanation
Indices: 12003980--12004023 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
12003970 CATTTAATTC
12003980 ACTTGCAACCACGAGTATCGAT
1 ACTTGCAACCAC-AGTATCGAT
12004002 ACTTGCTAACCA-AGTATCGAT
1 ACTTGC-AACCACAGTATCGAT
12004023 A
1 A
12004024 TCTTTAGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.48
22 6 0.29
23 5 0.24
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (21 bp):
ACTTGCAACCACAGTATCGAT
Found at i:12011501 original size:42 final size:42
Alignment explanation
Indices: 12011436--12011591 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
12011426 AACTCGTACA
*
12011436 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACAG-GGTCTTACATGAAATCAATATCG
12011478 ATGCC-ACTGTCCCAGACAGGGTCTTACATGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGACAGGGTCTTACATGAAATC-AATATCG
* * *
12011520 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACAGGGTC-T-TACATGAAA--TCAATATCG
*
12011564 ATGCCAACGTCCCAGACATGGTCTTACA
1 ATGCCAACGTCCCAGACAGGGTCTTACA
12011592 CGATAACACT
Statistics
Matches: 100, Mismatches: 5, Indels: 18
0.81 0.04 0.15
Matches are distributed among these distances:
41 2 0.02
42 53 0.53
43 14 0.14
44 29 0.29
45 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACAGGGTCTTACATGAAATCAATATCG
Found at i:12013769 original size:26 final size:26
Alignment explanation
Indices: 12013740--12013792 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
12013730 GCATGTGGTT
12013740 TTGTCCTCCATGGAACTTGAGACTCA
1 TTGTCCTCCATGGAACTTGAGACTCA
12013766 TTGTCCTCCATGGAACTTGAGACTCA
1 TTGTCCTCCATGGAACTTGAGACTCA
12013792 T
1 T
12013793 CATTACCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (26 bp):
TTGTCCTCCATGGAACTTGAGACTCA
Found at i:12014109 original size:23 final size:24
Alignment explanation
Indices: 12014065--12014123 Score: 102
Period size: 23 Copynumber: 2.5 Consensus size: 24
12014055 AAAGCCTGCT
*
12014065 CCAAGGCCTGCCACATGTCCAGCA
1 CCAAGGCCTGCTACATGTCCAGCA
12014089 CCAAGGCCTGCTA-ATGTCCAGCA
1 CCAAGGCCTGCTACATGTCCAGCA
12014112 CCAAGGCCTGCT
1 CCAAGGCCTGCT
12014124 CCAACGCCTG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 22 0.65
24 12 0.35
ACGTcount: A:0.24, C:0.39, G:0.22, T:0.15
Consensus pattern (24 bp):
CCAAGGCCTGCTACATGTCCAGCA
Found at i:12031458 original size:23 final size:23
Alignment explanation
Indices: 12031428--12031475 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
12031418 GGGAACAAAA
*
12031428 GTGGAAATGGGCAGCAAATGTGG
1 GTGGAAATGGGCAGCAAACGTGG
12031451 GTGGAAATGGGCAGCAAACGTGG
1 GTGGAAATGGGCAGCAAACGTGG
12031474 GT
1 GT
12031476 TATACCCACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.10, G:0.44, T:0.17
Consensus pattern (23 bp):
GTGGAAATGGGCAGCAAACGTGG
Found at i:12035418 original size:18 final size:18
Alignment explanation
Indices: 12035395--12035482 Score: 70
Period size: 18 Copynumber: 4.9 Consensus size: 18
12035385 CAATTATGTT
*
12035395 TGAGCTCACAACTTTGAA
1 TGAGCTCACAACTTTGGA
* * *
12035413 TGAGCTCTCAATTTTCGA
1 TGAGCTCACAACTTTGGA
* * *
12035431 TGAGTTCGCATA-TCTGGA
1 TGAGCTCACA-ACTTTGGA
* *
12035449 TGAGCTCGCAAATTTGGA
1 TGAGCTCACAACTTTGGA
*
12035467 TAAGCTCACAACTTTG
1 TGAGCTCACAACTTTG
12035483 CGACCTAAGT
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
17 1 0.02
18 53 0.96
19 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (18 bp):
TGAGCTCACAACTTTGGA
Found at i:12035660 original size:51 final size:51
Alignment explanation
Indices: 12035584--12035689 Score: 212
Period size: 51 Copynumber: 2.1 Consensus size: 51
12035574 CTTTAATCAT
12035584 TTGATGAAGCTAGAAATTTAGTTTAAAAGGGACCGAGATAAGATTATAAAA
1 TTGATGAAGCTAGAAATTTAGTTTAAAAGGGACCGAGATAAGATTATAAAA
12035635 TTGATGAAGCTAGAAATTTAGTTTAAAAGGGACCGAGATAAGATTATAAAA
1 TTGATGAAGCTAGAAATTTAGTTTAAAAGGGACCGAGATAAGATTATAAAA
12035686 TTGA
1 TTGA
12035690 GGGGGTCAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.28
Consensus pattern (51 bp):
TTGATGAAGCTAGAAATTTAGTTTAAAAGGGACCGAGATAAGATTATAAAA
Found at i:12038137 original size:22 final size:21
Alignment explanation
Indices: 12038109--12038166 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
12038099 ATGCAATCTT
*
12038109 AGATATGATATGTAATCTTAG
1 AGATATGATTTGTAATCTTAG
12038130 AAGATATGATTTTGTAATCTTAG
1 -AGATATGA-TTTGTAATCTTAG
*
12038153 AGATTTGATTTGTA
1 AGATATGATTTGTA
12038167 GATACCCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 6 0.18
22 15 0.45
23 12 0.36
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.43
Consensus pattern (21 bp):
AGATATGATTTGTAATCTTAG
Found at i:12039757 original size:24 final size:24
Alignment explanation
Indices: 12039721--12039778 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
12039711 ATTTTGGATT
12039721 TTTTAAAT-T-ATAA-ATATTTTAA
1 TTTTAAATATAATAATATATTTT-A
*
12039743 TTTTAAATATAATAATTTATTTTA
1 TTTTAAATATAATAATATATTTTA
*
12039767 TTTTGAATATAA
1 TTTTAAATATAA
12039779 ATTATACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 8 0.26
23 1 0.03
24 16 0.52
25 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTTAAATATAATAATATATTTTA
Found at i:12040156 original size:23 final size:22
Alignment explanation
Indices: 12040116--12040159 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
12040106 TAACACAAAA
* *
12040116 TATTATTATTGATTATATTTTC
1 TATTAATATTGAATATATTTTC
12040138 TATTAATATGTGAATATATTTT
1 TATTAATAT-TGAATATATTTT
12040160 ATAAAATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (22 bp):
TATTAATATTGAATATATTTTC
Found at i:12040190 original size:22 final size:22
Alignment explanation
Indices: 12040152--12040202 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
12040142 AATATGTGAA
*
12040152 TATATTTTATAAAATGTTAT-T
1 TATATTTAATAAAATGTTATAT
*
12040173 TATATTTAAATAATATGTTATAAT
1 TATATTT-AATAAAATGTTAT-AT
12040197 TATATT
1 TATATT
12040203 AATTATGACG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.28
22 11 0.44
24 7 0.28
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (22 bp):
TATATTTAATAAAATGTTATAT
Found at i:12040314 original size:14 final size:16
Alignment explanation
Indices: 12040283--12040316 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
12040273 TAATTTTGTG
12040283 TATTATTTTTATATTA
1 TATTATTTTTATATTA
12040299 TATTA-TTTTA-ATTA
1 TATTATTTTTATATTA
12040313 TATT
1 TATT
12040317 GTAATGACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 5 0.28
16 5 0.28
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTATTTTTATATTA
Found at i:12043778 original size:16 final size:16
Alignment explanation
Indices: 12043739--12043780 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
12043729 TTTTTTTTTG
*
12043739 CTTAAAACTAATTGTT
1 CTTAAAATTAATTGTT
*
12043755 ATTAAAATTAATTGTT
1 CTTAAAATTAATTGTT
12043771 CTTAAAATTA
1 CTTAAAATTA
12043781 TATCAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (16 bp):
CTTAAAATTAATTGTT
Found at i:12044118 original size:9 final size:9
Alignment explanation
Indices: 12044104--12044179 Score: 93
Period size: 9 Copynumber: 8.4 Consensus size: 9
12044094 TTGGGTTAAA
12044104 AATTACCCG
1 AATTACCCG
12044113 AATTACCCG
1 AATTACCCG
12044122 AATTACCCG
1 AATTACCCG
*
12044131 -ATTAACCG
1 AATTACCCG
*
12044139 AATTAACCG
1 AATTACCCG
12044148 AATTA-CCG
1 AATTACCCG
*
12044156 AAAAATACCCG
1 --AATTACCCG
12044167 AATTACCCG
1 AATTACCCG
12044176 AATT
1 AATT
12044180 TTTTTATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
8 10 0.17
9 43 0.72
10 4 0.07
11 3 0.05
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:12044139 original size:17 final size:18
Alignment explanation
Indices: 12044104--12044179 Score: 84
Period size: 17 Copynumber: 4.2 Consensus size: 18
12044094 TTGGGTTAAA
*
12044104 AATTACCCGAATTACCCG
1 AATTACCCGAATTAACCG
12044122 AATTACCCG-ATTAACCG
1 AATTACCCGAATTAACCG
*
12044139 AATTAACCGAATT-ACCG
1 AATTACCCGAATTAACCG
* *
12044156 AAAAATACCCGAATTACCCG
1 --AATTACCCGAATTAACCG
12044176 AATT
1 AATT
12044180 TTTTTATTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
17 19 0.40
18 15 0.31
19 11 0.23
20 3 0.06
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:12044141 original size:26 final size:26
Alignment explanation
Indices: 12044105--12044154 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
12044095 TGGGTTAAAA
* *
12044105 ATTACCCGAATTACCCGAATTACCCG
1 ATTAACCGAATTAACCGAATTACCCG
12044131 ATTAACCGAATTAACCGAATTACC
1 ATTAACCGAATTAACCGAATTACC
12044155 GAAAAATACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.36, C:0.30, G:0.10, T:0.24
Consensus pattern (26 bp):
ATTAACCGAATTAACCGAATTACCCG
Found at i:12044265 original size:13 final size:13
Alignment explanation
Indices: 12044247--12044273 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12044237 GTTTTAGACT
12044247 TTAGTAAATTGGG
1 TTAGTAAATTGGG
12044260 TTAGTAAATTGGG
1 TTAGTAAATTGGG
12044273 T
1 T
12044274 AGTCTTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.41
Consensus pattern (13 bp):
TTAGTAAATTGGG
Found at i:12044298 original size:40 final size:39
Alignment explanation
Indices: 12044254--12044352 Score: 119
Period size: 39 Copynumber: 2.5 Consensus size: 39
12044244 ACTTTAGTAA
** *
12044254 ATTGGGTT-AGTAAATTGGGTAGTCTTTTAGTTTTAGTTTT
1 ATTGGGTTGAGT-AATTGGGTAAAC-TTTAGTTTTAATTTT
* *
12044294 ATTGGATTGGGTAATTGGGTAAACTTTAGTTTTAATTTT
1 ATTGGGTTGAGTAATTGGGTAAACTTTAGTTTTAATTTT
*
12044333 ATTGGGTTGGGTAATTGGGT
1 ATTGGGTTGAGTAATTGGGT
12044353 TTGGGCTGGG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
39 33 0.63
40 17 0.33
41 2 0.04
ACGTcount: A:0.21, C:0.02, G:0.28, T:0.48
Consensus pattern (39 bp):
ATTGGGTTGAGTAATTGGGTAAACTTTAGTTTTAATTTT
Found at i:12046206 original size:3 final size:3
Alignment explanation
Indices: 12046193--12046246 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
12046183 TATAAAGCTT
12046193 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12046240 ATA ATA A
1 ATA ATA A
12046247 GAGAAGACAA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12047134 original size:41 final size:41
Alignment explanation
Indices: 12047072--12047186 Score: 160
Period size: 41 Copynumber: 2.8 Consensus size: 41
12047062 TTTTGTAAGT
*
12047072 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAAATATA
* * *
12047113 TCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGTA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAAATATA
* * *
12047154 TCGGGCTTTGTGCCTAGCAGGCTTT-AGCCGGTG
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTG
12047187 TTTTATACAA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 7 0.11
41 58 0.89
ACGTcount: A:0.17, C:0.20, G:0.30, T:0.33
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAAATATA
Found at i:12048050 original size:23 final size:22
Alignment explanation
Indices: 12047996--12048051 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 22
12047986 ATGTATTGTA
12047996 TATATGCTGTTAAATTTTGGTG
1 TATATGCTGTTAAATTTTGGTG
*
12048018 TAAAAGTGCTGTTAAA-TTTGGTATG
1 T-ATA-TGCTGTTAAATTTTGG--TG
12048043 TATATGCTG
1 TATATGCTG
12048052 CCTATTTGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
22 1 0.04
23 12 0.43
24 12 0.43
25 3 0.11
ACGTcount: A:0.27, C:0.05, G:0.23, T:0.45
Consensus pattern (22 bp):
TATATGCTGTTAAATTTTGGTG
Found at i:12048112 original size:23 final size:24
Alignment explanation
Indices: 12048061--12048127 Score: 84
Period size: 23 Copynumber: 2.8 Consensus size: 24
12048051 GCCTATTTGC
*
12048061 TGTATATAAGCTGTCCAAATTTCGG
1 TGTATA-AAGCTGTCCAAATTTCGA
12048086 TGTATAAATGCTGTCCAAA-TT-GA
1 TGTATAAA-GCTGTCCAAATTTCGA
12048109 TGTATAAGAGCTGTCCAAA
1 TGTATAA-AGCTGTCCAAA
12048128 CAAGGTAGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
23 18 0.46
24 5 0.13
25 16 0.41
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (24 bp):
TGTATAAAGCTGTCCAAATTTCGA
Found at i:12049184 original size:7 final size:7
Alignment explanation
Indices: 12049172--12049213 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
12049162 CACGGGGTTG
12049172 GGGAAAT
1 GGGAAAT
12049179 GGGAAAT
1 GGGAAAT
12049186 GGGAAAT
1 GGGAAAT
* *
12049193 GGG-GAG
1 GGGAAAT
12049199 GGGAAAT
1 GGGAAAT
12049206 GGGAAAT
1 GGGAAAT
12049213 G
1 G
12049214 TAATAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 4 0.13
7 26 0.87
ACGTcount: A:0.38, C:0.00, G:0.50, T:0.12
Consensus pattern (7 bp):
GGGAAAT
Found at i:12054737 original size:15 final size:15
Alignment explanation
Indices: 12054717--12054745 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12054707 AAATGTAAAC
12054717 TACACTAAAAAAGAT
1 TACACTAAAAAAGAT
12054732 TACACTAAAAAAGA
1 TACACTAAAAAAGA
12054746 GTCATCAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.14, G:0.07, T:0.17
Consensus pattern (15 bp):
TACACTAAAAAAGAT
Found at i:12055267 original size:20 final size:20
Alignment explanation
Indices: 12055242--12055282 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
12055232 CACATTGTAG
*
12055242 TGTGTTTGAAAATCATAACT
1 TGTGTTGGAAAATCATAACT
* *
12055262 TGTGTTGGGAAATCGTAACT
1 TGTGTTGGAAAATCATAACT
12055282 T
1 T
12055283 TGCTTAAAAC
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:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (20 bp):
TGTGTTGGAAAATCATAACT
Found at i:12058356 original size:12 final size:11
Alignment explanation
Indices: 12058328--12058355 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
12058318 ATTTTTTCTC
12058328 TTTTTTCAAAT
1 TTTTTTCAAAT
12058339 TTTTTTCAAAT
1 TTTTTTCAAAT
12058350 TTTTTT
1 TTTTTT
12058356 TACTTTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTTTCAAAT
Found at i:12058378 original size:11 final size:11
Alignment explanation
Indices: 12058295--12058398 Score: 53
Period size: 11 Copynumber: 9.5 Consensus size: 11
12058285 GTGGACACTT
*
12058295 TTTTTCTTTGAA
1 TTTTT-TTTCAA
12058307 TTTTTTTTCCAA
1 TTTTTTTT-CAA
12058319 --TTTTTTC--
1 TTTTTTTTCAA
*
12058326 TCTTTTTTCAA
1 TTTTTTTTCAA
*
12058337 ATTTTTTTCAAA
1 TTTTTTTTC-AA
*
12058349 TTTTTTTTACTTTAC
1 TTTTTTTT-C---AA
12058364 TTTTTTTTCAA
1 TTTTTTTTCAA
12058375 TTTTTTTT--A
1 TTTTTTTTCAA
12058384 --TTTTTTCAA
1 TTTTTTTTCAA
12058393 TTTTTT
1 TTTTTT
12058399 AAAATAACAT
Statistics
Matches: 72, Mismatches: 7, Indels: 27
0.68 0.07 0.25
Matches are distributed among these distances:
7 6 0.08
9 10 0.14
10 6 0.08
11 23 0.32
12 16 0.22
13 1 0.01
14 1 0.01
15 9 0.12
ACGTcount: A:0.16, C:0.11, G:0.01, T:0.72
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:12060202 original size:43 final size:43
Alignment explanation
Indices: 12060146--12060256 Score: 186
Period size: 43 Copynumber: 2.6 Consensus size: 43
12060136 TATACGACAT
12060146 CAATGTCCCAGACATGGTCTTACACGTTTTCTCACTTCGATGC
1 CAATGTCCCAGACATGGTCTTACACGTTTTCTCACTTCGATGC
** * *
12060189 CAATGTCTTAGACATGGTCTTACATGTTTTCTCACTTTGATGC
1 CAATGTCCCAGACATGGTCTTACACGTTTTCTCACTTCGATGC
12060232 CAATGTCCCAGACATGGTCTTACAC
1 CAATGTCCCAGACATGGTCTTACAC
12060257 AAAATCACAC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (43 bp):
CAATGTCCCAGACATGGTCTTACACGTTTTCTCACTTCGATGC
Found at i:12060423 original size:34 final size:32
Alignment explanation
Indices: 12060380--12060506 Score: 138
Period size: 30 Copynumber: 4.1 Consensus size: 32
12060370 ATCCAATGCT
*
12060380 CAAATCAATTCAGCAATATATATGTATACATATA
1 CAAATCAATTCGGCAA-ATATAT-TATACATATA
*
12060414 CAAATCAATTC-GAAAATATA-TATACATATA
1 CAAATCAATTCGGCAAATATATTATACATATA
* *
12060444 CAAATCAATTCGGC-AATGTA-TATCCATATA
1 CAAATCAATTCGGCAAATATATTATACATATA
* * *
12060474 CAAATTAATTCGGC-AATATATAAAACATATA
1 CAAATCAATTCGGCAAATATATTATACATATA
12060505 CA
1 CA
12060507 TTTAAATTCA
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
30 53 0.65
31 10 0.12
32 5 0.06
33 3 0.04
34 11 0.13
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.30
Consensus pattern (32 bp):
CAAATCAATTCGGCAAATATATTATACATATA
Found at i:12067733 original size:2 final size:2
Alignment explanation
Indices: 12067726--12067756 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
12067716 AATCAAAAGC
*
12067726 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12067757 CCCAATGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:12067983 original size:41 final size:41
Alignment explanation
Indices: 12067824--12067975 Score: 268
Period size: 41 Copynumber: 3.7 Consensus size: 41
12067814 TTAAAGTCTA
*
12067824 ATTCAGTTCACTGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
12067865 ATTCAGTTCACCAGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
12067906 ATTCAATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
12067947 ATTCGGTTCACCGGCACTTAGCCTGCTAG
1 ATTCAGTTCACCGGCACTTAGCCTGCTAG
12067976 ACATATAGTC
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 105 1.00
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.30
Consensus pattern (41 bp):
ATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:12067998 original size:41 final size:41
Alignment explanation
Indices: 12067828--12068003 Score: 237
Period size: 41 Copynumber: 4.3 Consensus size: 41
12067818 AGTCTAATTC
* *
12067828 AGTTCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTC
1 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTA
*
12067869 AGTTCACCAGCACTTAGCCTGCTAGGCTTATAGCCTGATTCA
1 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT-A
*
12067911 A-TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTC
1 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTA
* * * * *
12067951 GGTTCACCGGCACTTAGCCTGCTAGACATATAGTCTGAATA
1 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTA
* *
12067992 ATTTCACTGGCA
1 AGTTCACCGGCA
12068004 ATAAATCCGA
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
41 118 0.99
42 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (41 bp):
AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTA
Found at i:12067998 original size:82 final size:82
Alignment explanation
Indices: 12067830--12068003 Score: 269
Period size: 82 Copynumber: 2.1 Consensus size: 82
12067820 TCTAATTCAG
*
12067830 TTCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCAGCACTTAGCCTGCTAGG
1 TTCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCAGCACTTAGCCTGCTAGA
* *
12067895 CTTATAGCCTGATTCAA
66 CATATAGCCTGAATCAA
* * *
12067912 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCGGTTCACCGGCACTTAGCCTGCTAGA
1 TTCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCAGCACTTAGCCTGCTAGA
*
12067977 CATATAGTCTGAAT-AA
66 CATATAGCCTGAATCAA
12067993 TTTCACTGGCA
1 -TTCACTGGCA
12068004 ATAAATCCGA
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 2 0.02
82 81 0.98
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (82 bp):
TTCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCAGCACTTAGCCTGCTAGA
CATATAGCCTGAATCAA
Found at i:12069643 original size:21 final size:22
Alignment explanation
Indices: 12069617--12069663 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
12069607 CTCTGCTCAA
*
12069617 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
12069638 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
12069660 ACTC
1 ACTC
12069664 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:12073428 original size:13 final size:13
Alignment explanation
Indices: 12073410--12073434 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12073400 ACCAACGATA
12073410 AAATTTTCACACG
1 AAATTTTCACACG
12073423 AAATTTTCACAC
1 AAATTTTCACAC
12073435 ATATAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:12074213 original size:47 final size:45
Alignment explanation
Indices: 12074141--12074352 Score: 248
Period size: 45 Copynumber: 4.7 Consensus size: 45
12074131 AGGTATAGGG
*
12074141 TATATATAATAATTGTTGGTTTCACCGACCAATGCTGGGCACATACA
1 TATATATAATAATTGTTGGTTTCACCGACCAGTGCTGGGCACA-A-A
* * * * *
12074188 TAAATATAATATTTGTTAGTTTCACCGACTAGTGTTGGGCAC--A
1 TATATATAATAATTGTTGGTTTCACCGACCAGTGCTGGGCACAAA
* * * * *
12074231 TATATATAATAATTGTCGGTTTTACAGACCAGTGCTAGGTACAAA
1 TATATATAATAATTGTTGGTTTCACCGACCAGTGCTGGGCACAAA
* **
12074276 TATATATAATAATTGTCGGTTTCACCGACCAGTGCTGGGCACACG
1 TATATATAATAATTGTTGGTTTCACCGACCAGTGCTGGGCACAAA
* *
12074321 TATATATAATATTTATTGGTTTCACCGACCAG
1 TATATATAATAATTGTTGGTTTCACCGACCAG
12074353 CGCTAGGCGC
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
43 33 0.24
45 69 0.50
47 36 0.26
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (45 bp):
TATATATAATAATTGTTGGTTTCACCGACCAGTGCTGGGCACAAA
Found at i:12074327 original size:90 final size:91
Alignment explanation
Indices: 12074140--12074360 Score: 277
Period size: 90 Copynumber: 2.5 Consensus size: 91
12074130 GAGGTATAGG
* * * *
12074140 GTATATATAATAATTGTTGGTTTCACCGACCAATGCTGGGCACATACATAAATATAATATTTGTT
1 GTATATATAATAATTGTTGGTTTCACCGACCAGTGCTAGGCACATACATAAATATAATAATTGTC
* *
12074205 AGTTTCACCGACTAGTGTTGGGCACA
66 AGTTTCACCGACCAGTGCTGGGCACA
* * * * *
12074231 -TATATATAATAATTGTCGGTTTTACAGACCAGTGCTAGGTACA-A-ATATATATAATAATTGTC
1 GTATATATAATAATTGTTGGTTTCACCGACCAGTGCTAGGCACATACATAAATATAATAATTGTC
*
12074293 GGTTTCACCGACCAGTGCTGGGCACA
66 AGTTTCACCGACCAGTGCTGGGCACA
* * *
12074319 CGTATATATAATATTTATTGGTTTCACCGACCAGCGCTAGGC
1 -GTATATATAATAATTGTTGGTTTCACCGACCAGTGCTAGGC
12074361 GCAAAACTTT
Statistics
Matches: 109, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
88 38 0.35
89 1 0.01
90 70 0.64
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (91 bp):
GTATATATAATAATTGTTGGTTTCACCGACCAGTGCTAGGCACATACATAAATATAATAATTGTC
AGTTTCACCGACCAGTGCTGGGCACA
Found at i:12080993 original size:8 final size:8
Alignment explanation
Indices: 12080980--12081004 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
12080970 TAATTGATTA
12080980 CTTAATGT
1 CTTAATGT
12080988 CTTAATGT
1 CTTAATGT
12080996 CTTAATGT
1 CTTAATGT
12081004 C
1 C
12081005 GAAAATTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (8 bp):
CTTAATGT
Found at i:12081750 original size:18 final size:19
Alignment explanation
Indices: 12081727--12081775 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
12081717 GCAAATATAT
12081727 AATAAAAAG-AAATCA-ACA
1 AATAAAAAGTAAAT-AGACA
12081745 AAT-AAAAGTAAATAGACA
1 AATAAAAAGTAAATAGACA
*
12081763 AATAAAAATTAAA
1 AATAAAAAGTAAA
12081776 GCACTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 6 0.22
18 13 0.48
19 8 0.30
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.16
Consensus pattern (19 bp):
AATAAAAAGTAAATAGACA
Found at i:12084766 original size:2 final size:2
Alignment explanation
Indices: 12084761--12084792 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12084751 TATATATAGT
12084761 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
12084793 AATAATGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:12092761 original size:14 final size:13
Alignment explanation
Indices: 12092742--12092781 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
12092732 TTGTTTGCCA
12092742 GTAAAATATTTTT
1 GTAAAATATTTTT
12092755 CGTAAAATGATTTTT
1 -GTAAAAT-ATTTTT
*
12092770 GAAAAATATTTT
1 GTAAAATATTTT
12092782 ACTTTTCTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 5 0.21
14 13 0.54
15 6 0.25
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (13 bp):
GTAAAATATTTTT
Found at i:12092794 original size:34 final size:34
Alignment explanation
Indices: 12092751--12092816 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
12092741 AGTAAAATAT
*
12092751 TTTTCGTAAAATGATTT-TTGAAAAATATTTTAC
1 TTTTCGTAAAATGATTTACTGAAAAATATTTTAC
*
12092784 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTC-GTAAAATGATTTACTGAAAAATATTTT
12092817 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.41
35 12 0.41
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.48
Consensus pattern (34 bp):
TTTTCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:12095667 original size:18 final size:18
Alignment explanation
Indices: 12095644--12095692 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
12095634 TATGAAAAAG
12095644 TTTATTTATATTAATATT
1 TTTATTTATATTAATATT
*
12095662 TTTATTT-TTTATAATATT
1 TTTATTTATAT-TAATATT
*
12095680 TTTA-ATATATTAA
1 TTTATTTATATTAA
12095693 ATCGTTTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATTTATATTAATATT
Found at i:12102754 original size:25 final size:24
Alignment explanation
Indices: 12102726--12102773 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
12102716 AATTTAATCA
*
12102726 TAAATATTAATATAAAATAATTTTT
1 TAAATAATAA-ATAAAATAATTTTT
* *
12102751 TAAATAATAAATTATATAATTTT
1 TAAATAATAAATAAAATAATTTT
12102774 AATGGTTCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TAAATAATAAATAAAATAATTTTT
Found at i:12106764 original size:23 final size:24
Alignment explanation
Indices: 12106737--12106795 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 24
12106727 AGTTATATAC
*
12106737 AAAGGGAGCATTATATATC-ATTT
1 AAAGGGAGCATTATATATCAATTA
12106760 AAA-GGAGC-TGT-TATATCAATTA
1 AAAGGGAGCAT-TATATATCAATTA
12106782 AAAGGAGAGCATTA
1 AAAGG-GAGCATTA
12106796 CACCTCCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
21 7 0.24
22 12 0.41
23 4 0.14
24 5 0.17
25 1 0.03
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.29
Consensus pattern (24 bp):
AAAGGGAGCATTATATATCAATTA
Found at i:12108733 original size:18 final size:17
Alignment explanation
Indices: 12108699--12108740 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
12108689 AAATAGAGAG
12108699 AAGAAAAATGAAAGAAA
1 AAGAAAAATGAAAGAAA
12108716 AAGAAAAAT-AAATCGAAA
1 AAGAAAAATGAAA--GAAA
12108734 AAGAAAA
1 AAGAAAA
12108741 TGAGAGCGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.13
17 9 0.39
18 11 0.48
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.07
Consensus pattern (17 bp):
AAGAAAAATGAAAGAAA
Found at i:12114472 original size:41 final size:41
Alignment explanation
Indices: 12114411--12114491 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
12114401 TAAACATTAA
* * *
12114411 AAAATTATTTTAAAAATAAAAAACATAAAAAAATTTATTTT
1 AAAAGTATTTTAAAAATAAAAAACAAAAAAAAATATATTTT
* *
12114452 AAAAGTATTTTAAAATTAAAAAATAAAAAAAAATATATTT
1 AAAAGTATTTTAAAAATAAAAAACAAAAAAAAATATATTT
12114492 ATTATATTCG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (41 bp):
AAAAGTATTTTAAAAATAAAAAACAAAAAAAAATATATTTT
Found at i:12119459 original size:18 final size:18
Alignment explanation
Indices: 12119432--12119467 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
12119422 ATGTTAAATT
12119432 TAAAAAATAAAAC-AAAA
1 TAAAAAATAAAACTAAAA
12119449 TAAATAAATAAAACTAAAA
1 TAAA-AAATAAAACTAAAA
12119468 GTAACTAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 9 0.53
19 4 0.24
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (18 bp):
TAAAAAATAAAACTAAAA
Found at i:12119806 original size:15 final size:16
Alignment explanation
Indices: 12119783--12119815 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
12119773 TATTAATAAA
12119783 AATTCTAAAA-TTTAT
1 AATTCTAAAATTTTAT
*
12119798 AATTTTAAAATTTTAT
1 AATTCTAAAATTTTAT
12119814 AA
1 AA
12119816 AAAATTACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTCTAAAATTTTAT
Found at i:12120250 original size:35 final size:34
Alignment explanation
Indices: 12120201--12120442 Score: 267
Period size: 35 Copynumber: 7.1 Consensus size: 34
12120191 TTCACTTGTC
* * *
12120201 TTTTCTTGCAGGGAATATTTCCTGTTCACGTATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAC-TATTA
* * * **
12120236 TTCTGTTGCGGGGAATCTTTCCTGTTCAC-ACCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACTATTA
* *
12120269 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAC-TATTA
*
12120303 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAC-TATTA
* * *
12120338 TTTTGTTGCAGGGAATATTTCCTGTTCAC-ATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACTATTA
*
12120371 -TTTCTTGCAGGGAATCTCTCCTGTTCACTGATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACT-ATTA
*
12120405 TTTTGTTGCAGGGAATCTCTCCTGTTCATGTATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA-CTATTA
12120440 TTT
1 TTT
12120443 CTTTTTGGAC
Statistics
Matches: 177, Mismatches: 23, Indels: 14
0.83 0.11 0.07
Matches are distributed among these distances:
32 49 0.28
33 5 0.03
34 5 0.03
35 117 0.66
36 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.42
Consensus pattern (34 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACTATTA
Found at i:12120310 original size:67 final size:68
Alignment explanation
Indices: 12120201--12120442 Score: 276
Period size: 67 Copynumber: 3.6 Consensus size: 68
12120191 TTCACTTGTC
* * * * *
12120201 TTTTCTTGCAGGGAATATTTCCTGTTCACGTATTATTCTGTTGCGGGGAATCTTTCCTGTTCACA
1 TTTTCTTGCAGGGAATATCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
*
12120266 CCA
66 CTA
*
12120269 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATATCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
12120333 CATTA
66 C--TA
* * * *
12120338 TTTTGTTGCAGGGAATATTTCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACT
1 TTTTCTTGCAGGGAATATCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCAC-
*
12120400 GATTA
65 -ACTA
* * * *
12120405 TTTTGTTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTTCTTGCAGGGAATATCTCCTGTTCACGCATTATTT
12120443 CTTTTTGGAC
Statistics
Matches: 149, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
67 114 0.77
68 4 0.03
69 5 0.03
70 26 0.17
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.42
Consensus pattern (68 bp):
TTTTCTTGCAGGGAATATCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
CTA
Found at i:12120440 original size:102 final size:102
Alignment explanation
Indices: 12120201--12120442 Score: 378
Period size: 102 Copynumber: 2.4 Consensus size: 102
12120191 TTCACTTGTC
* * * * * *
12120201 TTTTCTTGCAGGGAATATTTCCTGTTCACGTATTATTCTGTTGCGGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGTATTATTTTGTTGCAGGGAATATTTCCTGTTCACA
12120266 CCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
66 CCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
**
12120303 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATATTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGTATTATTTTGTTGCAGGGAATATTTCCTGTTCACA
*
12120368 TCATTTCTTGCAGGGAATCTCTCCTGTTCACTG-ATTA
66 CCATTTCTTGCAGGGAATCTCTCCTGTTCAC-GCATTA
*
12120405 TTTTGTTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGTATTATTT
12120443 CTTTTTGGAC
Statistics
Matches: 127, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
102 126 0.99
103 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.42
Consensus pattern (102 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACGTATTATTTTGTTGCAGGGAATATTTCCTGTTCACA
CCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:12123255 original size:21 final size:22
Alignment explanation
Indices: 12123225--12123269 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
12123215 GAGCAAATTG
12123225 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
12123247 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
12123268 TT
1 TT
12123270 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:12127936 original size:35 final size:35
Alignment explanation
Indices: 12127887--12128128 Score: 271
Period size: 35 Copynumber: 7.1 Consensus size: 35
12127877 TTCACTTGTC
* * *
12127887 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * * **
12127922 TTCTGTTGCGGGGAATCTTTCCTGTTCA--CACCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
*
12127955 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
12127989 TTTTGTTGCAGGGAATCTCTCATGTTCACACATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * *
12128024 TTTTGTTGCAGGGAATATTTCCTGTTCA--CATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
12128057 -TTTCTTGCAGGGAATCTCTCCTGTTCACGGATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * *
12128091 TTTTGTTGCAAGGAATCTCTCCTGTTCATGTATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
12128126 TTT
1 TTT
12128129 CTTTTTGGAC
Statistics
Matches: 173, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
32 47 0.27
33 7 0.04
34 6 0.03
35 113 0.65
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.41
Consensus pattern (35 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:12127996 original size:67 final size:68
Alignment explanation
Indices: 12127887--12128128 Score: 267
Period size: 67 Copynumber: 3.6 Consensus size: 68
12127877 TTCACTTGTC
* * * *
12127887 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCGGGGAATCTTTCCTGTTCACA
1 TTTTCTTGCAGGGAATATCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
*
12127952 CCA
66 CTA
* *
12127955 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCATGTTCACA
1 TTTTCTTGCAGGGAATATCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
12128019 CATTA
66 C--TA
* * * *
12128024 TTTTGTTGCAGGGAATATTTCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACG
1 TTTTCTTGCAGGGAATATCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCAC-
*
12128086 GATTA
65 -ACTA
* * * * *
12128091 TTTTGTTGCAAGGAATCTCTCCTGTTCATGTATTATTT
1 TTTTCTTGCAGGGAATATCTCCTGTTCACGCATTATTT
12128129 CTTTTTGGAC
Statistics
Matches: 147, Mismatches: 19, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
67 112 0.76
68 4 0.03
69 5 0.03
70 26 0.18
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.41
Consensus pattern (68 bp):
TTTTCTTGCAGGGAATATCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
CTA
Found at i:12128126 original size:102 final size:102
Alignment explanation
Indices: 12127887--12128128 Score: 367
Period size: 102 Copynumber: 2.4 Consensus size: 102
12127877 TTCACTTGTC
* * * * * *
12127887 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCGGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATATTTCCTGTTCACA
12127952 CCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
66 CCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
12127989 TTTTGTTGCAGGGAATCTCTCATGTTCACACATTATTTTGTTGCAGGGAATATTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATATTTCCTGTTCACA
* *
12128054 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGGATTA
66 CCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * *
12128091 TTTTGTTGCAAGGAATCTCTCCTGTTCATGTATTATTT
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
12128129 CTTTTTGGAC
Statistics
Matches: 125, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
102 125 1.00
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.41
Consensus pattern (102 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATATTTCCTGTTCACA
CCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:12133495 original size:11 final size:10
Alignment explanation
Indices: 12133481--12133555 Score: 57
Period size: 10 Copynumber: 7.4 Consensus size: 10
12133471 AAAAATTAAA
12133481 AAAAATATTTT
1 AAAAA-ATTTT
12133492 AAAAATATTTT
1 AAAAA-ATTTT
*
12133503 --AAAA-TTA
1 AAAAAATTTT
**
12133510 AAAAAATTAA
1 AAAAAATTTT
12133520 AAAAAGTATTTT
1 AAAAA--ATTTT
12133532 AAAAAATTTT
1 AAAAAATTTT
*
12133542 AAAAAAATTT
1 AAAAAATTTT
12133552 AAAA
1 AAAA
12133556 TTAAAAAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
7 2 0.04
8 1 0.02
9 7 0.13
10 25 0.46
11 11 0.20
12 8 0.15
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:12133530 original size:40 final size:40
Alignment explanation
Indices: 12133453--12133603 Score: 164
Period size: 40 Copynumber: 3.6 Consensus size: 40
12133443 ACCAAAAATT
12133453 TATTTTAAAAATTAAAATAAAAATTAAAAAAAATATTTTAAAAA
1 TATTTT-AAAATT--AA-AAAAATTAAAAAAAATATTTTAAAAA
*
12133497 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAAATATTTTAAAAA
* **
12133537 -ATTTTAAAA--AAATTTAAAATTAAAAAAAAAATTAAAAAAA
1 TATTTTAAAATTAAA---AAAATTAAAAAAAATATTTTAAAAA
*
12133577 GTATTTTAAAATTAAAAAAAATAAAAA
1 -TATTTTAAAATTAAAAAAATTAAAAA
12133604 TTATTATTAT
Statistics
Matches: 94, Mismatches: 6, Indels: 17
0.80 0.05 0.15
Matches are distributed among these distances:
37 3 0.03
39 9 0.10
40 46 0.49
41 12 0.13
42 9 0.10
43 6 0.06
44 9 0.10
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATTAAAAAAAATATTTTAAAAA
Found at i:12133565 original size:52 final size:51
Alignment explanation
Indices: 12133481--12133587 Score: 164
Period size: 52 Copynumber: 2.1 Consensus size: 51
12133471 AAAAATTAAA
*
12133481 AAAAATATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAAGTATTTT
1 AAAAATATTTTAAAAATAATTTAAAATTAAAAAAATTAAAAAAAGTATTTT
12133532 AAAAA-ATTTTAAAAA-AATTTAAAATTAAAAAAAAAATTAAAAAAAGTATTTT
1 AAAAATATTTTAAAAATAATTTAAAATT---AAAAAAATTAAAAAAAGTATTTT
12133584 AAAA
1 AAAA
12133588 TTAAAAAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 5
0.90 0.02 0.09
Matches are distributed among these distances:
49 10 0.19
50 10 0.19
51 5 0.10
52 27 0.52
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (51 bp):
AAAAATATTTTAAAAATAATTTAAAATTAAAAAAATTAAAAAAAGTATTTT
Found at i:12133567 original size:12 final size:12
Alignment explanation
Indices: 12133552--12133576 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12133542 AAAAAAATTT
12133552 AAAATTAAAAAA
1 AAAATTAAAAAA
12133564 AAAATTAAAAAA
1 AAAATTAAAAAA
12133576 A
1 A
12133577 GTATTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATTAAAAAA
Found at i:12142117 original size:44 final size:44
Alignment explanation
Indices: 12142046--12142129 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
12142036 ATTACATGAT
* * * *
12142046 TTTGTATAAGACCATAGCTGGGCTATGGCATTGATATATGAGAC
1 TTTGCATAAGACCATAGCTAGGATATGGCATCGATATATGAGAC
*
12142090 TTTGCATAAGACCATATCTAGGATATGGCATCGATATATG
1 TTTGCATAAGACCATAGCTAGGATATGGCATCGATATATG
12142130 TGATTACGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (44 bp):
TTTGCATAAGACCATAGCTAGGATATGGCATCGATATATGAGAC
Found at i:12142144 original size:44 final size:44
Alignment explanation
Indices: 12142096--12142307 Score: 197
Period size: 43 Copynumber: 5.0 Consensus size: 44
12142086 AGACTTTGCA
*
12142096 TAAGACCATATCTAGGATA-TGGCATCGATATATGTGATTACGTG
1 TAAGACCATATCTGGGATATTGGCATCG-TATATGTGATTACGTG
* * *
12142140 TAAGACCATGTCTGGGACATTGGCATCGT-TATGTGATTTCGTG
1 TAAGACCATATCTGGGATATTGGCATCGTATATGTGATTACGTG
* * * * * *
12142183 GAAGACCATGTCCGGGACATTGGCATCG-ATATATGATT-CATG
1 TAAGACCATATCTGGGATATTGGCATCGTATATGTGATTACGTG
* * * * * *
12142225 TAGGACCATAGCTGGGCTATTGGTATCG-ATATGTGATAACATG
1 TAAGACCATATCTGGGATATTGGCATCGTATATGTGATTACGTG
*
12142268 CAAGACCATATCTGGGATA-TGGCAT--TATATGTGATATACG
1 TAAGACCATATCTGGGATATTGGCATCGTATATGTGAT-TACG
12142308 AGACTTCCGA
Statistics
Matches: 138, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
41 9 0.07
42 38 0.28
43 66 0.48
44 17 0.12
45 8 0.06
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (44 bp):
TAAGACCATATCTGGGATATTGGCATCGTATATGTGATTACGTG
Found at i:12142273 original size:85 final size:87
Alignment explanation
Indices: 12142115--12142276 Score: 197
Period size: 85 Copynumber: 1.9 Consensus size: 87
12142105 ATCTAGGATA
* * **
12142115 TGGCATCGATATATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTATGTGATTTC
1 TGGCATCGATATA-GTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATAAC
* *
12142180 GTGGAAGACCATGTCCGGGACAT
65 ATGCAAGACCATGTCCGGGACAT
* *
12142203 TGGCATCGATATA-TGATT-CATGTAGGACCATAG-CTGGG-CTATTGGTATCGATATGTGATAA
1 TGGCATCGATATAGTGATTACATGTAAGACCAT-GTCTGGGAC-ATTGGCATCGATATGTGATAA
12142264 CATGCAAGACCAT
64 CATGCAAGACCAT
12142277 ATCTGGGATA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
84 1 0.02
85 44 0.69
86 6 0.09
88 13 0.20
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (87 bp):
TGGCATCGATATAGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATAACA
TGCAAGACCATGTCCGGGACAT
Found at i:12159770 original size:81 final size:84
Alignment explanation
Indices: 12159664--12159815 Score: 186
Period size: 81 Copynumber: 1.8 Consensus size: 84
12159654 CACCTATCAT
* * ** **
12159664 CCATCAATTCCTTTGAATCAGAATCATTCATAATTTCACCCTCA-T-CTTT-CAAACAAACCACA
1 CCATCAATTCCTTTCAACCAGAATCACCCATAAGGTCACCCTCATTACTTTCCAAACAAACCACA
*
12159726 GTATCATCATTCGCATTGC
66 CTATCATCATTCGCATTGC
* *
12159745 CCATCAATTCC-TTCAAGCCAGAATCACCCATAAGGTCACCCTGATTATTTTCCAAACAAACCAC
1 CCATCAATTCCTTTCAA-CCAGAATCACCCATAAGGTCACCCTCATTACTTTCCAAACAAACCAC
12159809 ACTATCA
65 ACTATCA
12159816 CCGCACATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
80 4 0.07
81 32 0.55
82 1 0.02
83 3 0.05
84 18 0.31
ACGTcount: A:0.34, C:0.32, G:0.07, T:0.28
Consensus pattern (84 bp):
CCATCAATTCCTTTCAACCAGAATCACCCATAAGGTCACCCTCATTACTTTCCAAACAAACCACA
CTATCATCATTCGCATTGC
Found at i:12161883 original size:28 final size:28
Alignment explanation
Indices: 12161843--12161910 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
12161833 TATCTAAATA
*
12161843 GTCTCGAGACAAAGTGGTCTTTGTCTTT
1 GTCTCGAGACAAAGTGGTCTTTATCTTT
*
12161871 GTCTCAAGACAAAGTGGTCTTTATCTTT
1 GTCTCGAGACAAAGTGGTCTTTATCTTT
12161899 GTCTCGAGACAA
1 GTCTCGAGACAA
12161911 GAAAATATCG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (28 bp):
GTCTCGAGACAAAGTGGTCTTTATCTTT
Found at i:12174035 original size:18 final size:18
Alignment explanation
Indices: 12174012--12174049 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
12174002 GATAGTGAGT
12174012 CATGTCATGACGTCAAAC
1 CATGTCATGACGTCAAAC
12174030 CATGTCATGACGTCAAAC
1 CATGTCATGACGTCAAAC
12174048 CA
1 CA
12174050 CTTGACATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (18 bp):
CATGTCATGACGTCAAAC
Found at i:12179700 original size:3 final size:3
Alignment explanation
Indices: 12179692--12179718 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
12179682 AAAATGCAAG
12179692 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
12179719 AACCATCGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:12180397 original size:15 final size:16
Alignment explanation
Indices: 12180377--12180406 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
12180367 ATTGTATTAT
12180377 TTAATTGTT-TAATAG
1 TTAATTGTTGTAATAG
12180392 TTAATTGTTGTAATA
1 TTAATTGTTGTAATA
12180407 CAATAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (16 bp):
TTAATTGTTGTAATAG
Found at i:12180587 original size:37 final size:37
Alignment explanation
Indices: 12180517--12180587 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 37
12180507 TTTAAATTAA
* * *
12180517 AAGTATATGGTTATTTGATACATGAATGGAAATGAGT
1 AAGTATATGGTTACTTGATACATGAACGAAAATGAGT
* * *
12180554 AAGTGTATGGTTACTTGATATATGTACGAAAATG
1 AAGTATATGGTTACTTGATACATGAACGAAAATG
12180588 TTCAAGAGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 28 1.00
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (37 bp):
AAGTATATGGTTACTTGATACATGAACGAAAATGAGT
Found at i:12187450 original size:11 final size:9
Alignment explanation
Indices: 12187412--12187452 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
12187402 ATATAAAGTA
12187412 AAATAAAAG
1 AAATAAAAG
*
12187421 AAACAAAAG
1 AAATAAAAG
12187430 AAATAAAAG
1 AAATAAAAG
12187439 AACATAAAAAG
1 AA-AT-AAAAG
12187450 AAA
1 AAA
12187453 AAGAGAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 18 0.64
10 3 0.11
11 7 0.25
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (9 bp):
AAATAAAAG
Found at i:12188123 original size:39 final size:39
Alignment explanation
Indices: 12188041--12188168 Score: 125
Period size: 45 Copynumber: 3.2 Consensus size: 39
12188031 ATTTGCCGGC
* *
12188041 TTACTGA-TCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATTC-GGCACTTTATGTGTCGAATACTGTTACTG
* *
12188079 CTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATTCGGCACTTTATGTGTCGAATACTGTTACTG
* *
12188118 TTACTGTTACCGACTCGGCACTTTATGTGTCGAATACTGTTACCG
1 TTAC---T---GATTCGGCACTTTATGTGTCGAATACTGTTACTG
12188163 TTACTG
1 TTACTG
12188169 TTACAGGTTC
Statistics
Matches: 74, Mismatches: 8, Indels: 15
0.76 0.08 0.15
Matches are distributed among these distances:
38 11 0.15
39 26 0.35
42 2 0.03
45 35 0.47
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (39 bp):
TTACTGATTCGGCACTTTATGTGTCGAATACTGTTACTG
Found at i:12188136 original size:45 final size:45
Alignment explanation
Indices: 12188068--12188217 Score: 201
Period size: 45 Copynumber: 3.3 Consensus size: 45
12188058 ATGTGCCGAC
* *
12188068 TACTGTTACTGCTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* * *
12188113 TACTGTTACTGTTACCGACTCGGCACTTTATGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* * * * *
12188158 TACCGTTACTGTTACAGGTTCAGCACTTTGTATGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
*
12188203 TACTGTTACCGTTAC
1 TACTGTTACTGTTAC
12188218 TGCTACCGTT
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 91 1.00
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:12188208 original size:6 final size:6
Alignment explanation
Indices: 12188197--12188245 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
12188187 GTATGTTGAA
* * *
12188197 TACTGT TACTGT TACCGT TACTGC TACCGT TACTGAT TACTGT TCACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T-ACTG
12188246 GTGTGTTTGG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
6 25 0.71
7 10 0.29
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.41
Consensus pattern (6 bp):
TACTGT
Found at i:12189793 original size:42 final size:41
Alignment explanation
Indices: 12189689--12189851 Score: 168
Period size: 43 Copynumber: 3.8 Consensus size: 41
12189679 CGAAAATATC
* *
12189689 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACAATGCCAACGTCCCAGAC-CGGTCTTACACGTAATCAA
* *
12189731 ATAACGATGCC-ACTGTCCCAGACCGAGTCTTACACGTAATCAT
1 AT-ACAATGCCAAC-GTCCCAGACCG-GTCTTACACGTAATCAA
* * *
12189774 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCGCAA
1 ATACAATGCCAACGTCCCAGAC-CGGTCTTACACGT-AAT--CAA
*
12189819 AT-CAATGCCAACGTCCCAGACAGGTCTTACACG
1 ATACAATGCCAACGTCCCAGACCGGTCTTACACG
12189852 ATATCACATA
Statistics
Matches: 103, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
42 33 0.32
43 49 0.48
44 17 0.17
45 4 0.04
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (41 bp):
ATACAATGCCAACGTCCCAGACCGGTCTTACACGTAATCAA
Found at i:12189846 original size:85 final size:84
Alignment explanation
Indices: 12189689--12189851 Score: 206
Period size: 85 Copynumber: 1.9 Consensus size: 84
12189679 CGAAAATATC
* * *
12189689 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAACGATGCCACTGTCCCAGAC
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAAT-ACAATGCCACTGTCCCAGAC
*
12189754 CGAGTCTTACACGTAATCAT
65 AGAGTCTTACACGTAATCAT
* *
12189774 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCGCAAAT-CAATGCCAAC-GTCCCA
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACGT-AAT--CAAATACAATGCC-ACTGTCCCA
12189837 GACAG-GTCTTACACG
62 GACAGAGTCTTACACG
12189852 ATATCACATA
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
85 42 0.62
86 19 0.28
87 2 0.03
88 5 0.07
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (84 bp):
ATACAATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATACAATGCCACTGTCCCAGACA
GAGTCTTACACGTAATCAT
Found at i:12196363 original size:2 final size:2
Alignment explanation
Indices: 12196356--12196388 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
12196346 CCTAACTATA
*
12196356 TG TG TG TG TG TG TG TG TG TG TG TG TG TT TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
12196389 AAGTATGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.45, T:0.55
Consensus pattern (2 bp):
TG
Found at i:12208474 original size:26 final size:27
Alignment explanation
Indices: 12208445--12208502 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
12208435 AACCTTAAAG
12208445 TAAAC-TTGTTTTCTCATTTTAATACC
1 TAAACTTTGTTTTCTCATTTTAATACC
* *
12208471 TAAACTTTTTTTTTCTCATTTTGATACC
1 TAAAC-TTTGTTTTCTCATTTTAATACC
12208499 TAAA
1 TAAA
12208503 GTACTATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.18
28 23 0.82
ACGTcount: A:0.28, C:0.17, G:0.03, T:0.52
Consensus pattern (27 bp):
TAAACTTTGTTTTCTCATTTTAATACC
Found at i:12208673 original size:83 final size:82
Alignment explanation
Indices: 12208576--12208740 Score: 210
Period size: 86 Copynumber: 2.0 Consensus size: 82
12208566 TGCAAAAAGT
12208576 CCTCAAACTT-AAAAAAA-AATTAAGCCCCTGATTTTTTTTT-CACTCAATTGGGTACTTGAACT
1 CCTCAAACTTAAAAAAAACAATTAAG--CCT-ATTTTTTTTTGCACTCAATTGGGTACTTGAACT
*
12208638 TTCAAAATGCATAAAAAATGC
63 ATC-AAATGCATAAAAAATGC
* *
12208659 CCTCAAACTTAAAAAAAAAAGCAATTATGCCTTTTTTTTTTTGCACTCAATTGGGTACTTGAACT
1 CCTCAAACTT--AAAAAAAA-CAATTAAGCCTATTTTTTTTTGCACTCAATTGGGTACTTGAACT
*
12208724 ATCAAATGCATCAAAAA
63 ATCAAATGCATAAAAAA
12208741 GGACCTTTGG
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
83 10 0.14
85 22 0.31
86 34 0.47
88 6 0.08
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.33
Consensus pattern (82 bp):
CCTCAAACTTAAAAAAAACAATTAAGCCTATTTTTTTTTGCACTCAATTGGGTACTTGAACTATC
AAATGCATAAAAAATGC
Found at i:12208886 original size:19 final size:19
Alignment explanation
Indices: 12208864--12208923 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
12208854 ATAAAAAATA
*
12208864 AAAATAAATAAAATTTATT
1 AAAATAATTAAAATTTATT
* *
12208883 AAAAT-ATTAAATTTTAATA
1 AAAATAATTAAAATTT-ATT
*
12208902 AAAATATTTAAAATTTATT
1 AAAATAATTAAAATTTATT
12208921 AAA
1 AAA
12208924 TATTAGAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 8 0.24
19 17 0.52
20 8 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATAATTAAAATTTATT
Found at i:12208898 original size:18 final size:18
Alignment explanation
Indices: 12208872--12208928 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
12208862 TAAAAATAAA
12208872 TAAAATTTATTAAAATAT
1 TAAAATTTATTAAAATAT
* *
12208890 TAAATTTTAATAAAAATATT
1 TAAAATTT-ATTAAAATA-T
12208910 TAAAATTTATT-AAATAT
1 TAAAATTTATTAAAATAT
12208927 TA
1 TA
12208929 GAAAAAATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 3 0.09
18 12 0.36
19 10 0.30
20 8 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAAATTTATTAAAATAT
Found at i:12208942 original size:19 final size:19
Alignment explanation
Indices: 12208920--12208962 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
12208910 TAAAATTTAT
*
12208920 TAAATATTAGAAAAAATCA
1 TAAATATCAGAAAAAATCA
* * *
12208939 TAAAAATCATAAAAAATTA
1 TAAATATCAGAAAAAATCA
12208958 TAAAT
1 TAAAT
12208963 TTTTTTTAAA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (19 bp):
TAAATATCAGAAAAAATCA
Found at i:12209207 original size:20 final size:19
Alignment explanation
Indices: 12209170--12209217 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
12209160 ATTTTATATG
12209170 AATTTTAT-ATTTCTTTAC
1 AATTTTATAATTTCTTTAC
12209188 ATATTTTATAATTT-TCTTAC
1 A-ATTTTATAATTTCT-TTAC
*
12209208 AACTTTATAA
1 AATTTTATAA
12209218 AATTTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.04
19 16 0.62
20 9 0.35
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (19 bp):
AATTTTATAATTTCTTTAC
Found at i:12209289 original size:18 final size:19
Alignment explanation
Indices: 12209248--12209289 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
12209238 ATTTCTATAT
12209248 GTTTTATAAAATTTTACGA
1 GTTTTATAAAATTTTACGA
*
12209267 TTTTTATAAAATTTTAC-A
1 GTTTTATAAAATTTTACGA
12209285 GTTTT
1 GTTTT
12209290 TTTATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (19 bp):
GTTTTATAAAATTTTACGA
Found at i:12209340 original size:20 final size:20
Alignment explanation
Indices: 12209287--12209341 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 20
12209277 ATTTTACAGT
*
12209287 TTTTTTATAATTTTTTTTACGA
1 TTTTTTAT-ATTTTTTCTAC-A
*
12209309 TTTTGTA-ATTTTTTCTA-A
1 TTTTTTATATTTTTTCTACA
12209327 TTTTTTATAGTTTTT
1 TTTTTTATA-TTTTT
12209342 AATTAAACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 7 0.25
19 1 0.04
20 14 0.50
22 6 0.21
ACGTcount: A:0.20, C:0.04, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTTTTATATTTTTTCTACA
Found at i:12209668 original size:11 final size:12
Alignment explanation
Indices: 12209642--12209687 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 12
12209632 AATATAACAA
*
12209642 ATATAAAAATAT
1 ATATTAAAATAT
12209654 ATATTAAAAATAT
1 ATATT-AAAATAT
12209667 ATATTAAAA-AT
1 ATATTAAAATAT
12209678 ATA-TAAAATA
1 ATATTAAAATA
12209688 GAAGAAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
10 5 0.16
11 6 0.19
12 8 0.26
13 12 0.39
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATATTAAAATAT
Found at i:12209670 original size:15 final size:13
Alignment explanation
Indices: 12209645--12209682 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
12209635 ATAACAAATA
12209645 TAAAAATATATAT
1 TAAAAATATATAT
12209658 TAAAAATATATAT
1 TAAAAATATATAT
12209671 TAAAAATATATA
1 TAAAAATATATA
12209683 AAATAGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TAAAAATATATAT
Found at i:12215831 original size:12 final size:12
Alignment explanation
Indices: 12215814--12215838 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12215804 GTAAAAGTGC
12215814 ATATTTTATTAA
1 ATATTTTATTAA
12215826 ATATTTTATTAA
1 ATATTTTATTAA
12215838 A
1 A
12215839 ATTAGTGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATATTTTATTAA
Found at i:12216009 original size:15 final size:16
Alignment explanation
Indices: 12215989--12216025 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
12215979 GAAATTTATT
*
12215989 TTTATAAA-AATTAAA
1 TTTATAAAGAAATAAA
12216004 TTTATAAAGAAATAAA
1 TTTATAAAGAAATAAA
12216020 TTTATA
1 TTTATA
12216026 TAATTAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
TTTATAAAGAAATAAA
Found at i:12216978 original size:11 final size:11
Alignment explanation
Indices: 12216964--12216991 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
12216954 TATCTAAGTA
12216964 ATAATAACAAT
1 ATAATAACAAT
12216975 ATAATAACAAT
1 ATAATAACAAT
12216986 ATAATA
1 ATAATA
12216992 GCAAAATGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (11 bp):
ATAATAACAAT
Found at i:12217041 original size:22 final size:22
Alignment explanation
Indices: 12216993--12217034 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
12216983 AATATAATAG
12216993 CAAAATGACAACAAAGCAACAT
1 CAAAATGACAACAAAGCAACAT
*
12217015 CAAAATGACAATAAA-CAACA
1 CAAAATGACAACAAAGCAACA
12217035 GTGAAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.62, C:0.21, G:0.07, T:0.10
Consensus pattern (22 bp):
CAAAATGACAACAAAGCAACAT
Found at i:12218112 original size:39 final size:40
Alignment explanation
Indices: 12217995--12218131 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 40
12217985 GCGTTTGGAC
* * * *
12217995 AAAAACGCCACTAAAAATCAAGCTTTAGCGGCGCTTTTAT-
1 AAAACCGCCGCTAAAAATCAAGCATTAGCGGCG-TTTTTTG
* ** * *
12218035 AAAACCGCCGTTAAAGGTCGAGCATTAGCGGCGCTTTTTGG
1 AAAACCGCCGCTAAAAATCAAGCATTAGCGGCG-TTTTTTG
12218076 AAAA-CGCCGCTAAAAAT-AAGCATTAGCGGCGTTTTTTG
1 AAAACCGCCGCTAAAAATCAAGCATTAGCGGCGTTTTTTG
* *
12218114 AAAAGCGTCGC-AAAAATC
1 AAAACCGCCGCTAAAAATC
12218132 CTAAGCCAAA
Statistics
Matches: 79, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
38 16 0.20
39 18 0.23
40 41 0.52
41 4 0.05
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (40 bp):
AAAACCGCCGCTAAAAATCAAGCATTAGCGGCGTTTTTTG
Found at i:12218232 original size:41 final size:41
Alignment explanation
Indices: 12218166--12218283 Score: 168
Period size: 41 Copynumber: 2.9 Consensus size: 41
12218156 AAGTTTTTGG
* *
12218166 GGCCTTTAGCGGCGTTTTTGTGAAAGCGCCGCTAATGCT-C
1 GGCCTTTAGCGGCTTTTTTGAGAAAGCGCCGCTAATGCTCC
*
12218206 GAGCTTTTAGCGGCTTTTTTGAGAAAGCGCCGCTAATGCTCC
1 G-GCCTTTAGCGGCTTTTTTGAGAAAGCGCCGCTAATGCTCC
*
12218248 GGCCTTTAGCGG-TGTTTTTGAAAAAGCGCCGCTAAT
1 GGCCTTTAGCGGCT-TTTTTGAGAAAGCGCCGCTAAT
12218284 AATAATAAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
40 2 0.03
41 66 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.31
Consensus pattern (41 bp):
GGCCTTTAGCGGCTTTTTTGAGAAAGCGCCGCTAATGCTCC
Found at i:12219148 original size:33 final size:33
Alignment explanation
Indices: 12219102--12219191 Score: 110
Period size: 33 Copynumber: 2.7 Consensus size: 33
12219092 ATTAAATAAT
* *
12219102 GTTTAGGGGTTAGGGGTTCAGGG-CTGGGTTAAG
1 GTTTAGGGATTAGGGATTCAGGGTC-GGGTTAAG
* * * *
12219135 GTTTAGTGATTAGGGATTCATGGTCGGTTTAGG
1 GTTTAGGGATTAGGGATTCAGGGTCGGGTTAAG
12219168 GTTTAGGGATTAGGGATTCAGGGT
1 GTTTAGGGATTAGGGATTCAGGGT
12219192 TTTTAATTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
33 47 0.98
34 1 0.02
ACGTcount: A:0.18, C:0.06, G:0.42, T:0.34
Consensus pattern (33 bp):
GTTTAGGGATTAGGGATTCAGGGTCGGGTTAAG
Found at i:12219929 original size:145 final size:146
Alignment explanation
Indices: 12219764--12220049 Score: 468
Period size: 145 Copynumber: 2.0 Consensus size: 146
12219754 ATTTTTAGCA
* * *
12219764 TAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAC-TTTTTGCGGCGTTTTTATGAAAAAGGCA
1 TAGCAAAACAGTATCGTTTTATTCCAAATAAAATACTTTTTTGCGGCG-TTTTATGAAAAACGCA
*
12219828 GCAATAGATAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAAATAAAATTTACTTTTA-AAA
65 GCAATAGATAAGCAATAGCGGCATTTTTATAAAAAACGCCACAAAATAAAATTTACTTTTACAAA
*
12219892 AATTGCACCATTCTATT
130 AATAGCACCATTCTATT
* * *
12219909 TAGCAAAACAGTATCGTTTTATTCTAAATAAAATACTTTTTTGTGGCGTTTTATGAAAAACGCCG
1 TAGCAAAACAGTATCGTTTTATTCCAAATAAAATACTTTTTTGCGGCGTTTTATGAAAAACGCAG
12219974 CAATAGATAAGCAATAGCGGCATTTTTATAAAAAACGCCACAAAATAAAATTTACTTTTACAAAA
66 CAATAGATAAGCAATAGCGGCATTTTTATAAAAAACGCCACAAAATAAAATTTACTTTTACAAAA
*
12220039 ATAGCGCCATT
131 ATAGCACCATT
12220050 TTAAAAAAAT
Statistics
Matches: 130, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
145 107 0.82
146 23 0.18
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (146 bp):
TAGCAAAACAGTATCGTTTTATTCCAAATAAAATACTTTTTTGCGGCGTTTTATGAAAAACGCAG
CAATAGATAAGCAATAGCGGCATTTTTATAAAAAACGCCACAAAATAAAATTTACTTTTACAAAA
ATAGCACCATTCTATT
Found at i:12224764 original size:43 final size:43
Alignment explanation
Indices: 12224695--12224859 Score: 224
Period size: 43 Copynumber: 3.8 Consensus size: 43
12224685 AGAGGCTTGT
** *
12224695 TCTTTAGCGGCGTTTGTGACAAAAGCGTCGCTAAAGGTCATGA
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
* * *
12224738 TCTTTAGCGGCGTTTGT-AGAATAAGCGCCGCTAAAGGTTACGA
1 TCTTTAGCGGCGTTTGTGGGAA-AAGCGCCGCTAAAGGTCATGA
* * * *
12224781 TCTATAGCGGCGTTTGTGGGAAAAGCGCCTCTAAAGGTCTTGG
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
12224824 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
12224860 TTAGCGACGC
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
42 3 0.03
43 101 0.94
44 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
Found at i:12226050 original size:15 final size:16
Alignment explanation
Indices: 12226032--12226071 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
12226022 ATATAGAAAA
12226032 TTAAAATATATATTT-
1 TTAAAATATATATTTG
12226047 TTAAAA-AT-TATTTG
1 TTAAAATATATATTTG
*
12226061 TTATAATATAT
1 TTAAAATATAT
12226072 TAATTATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
13 5 0.24
14 7 0.33
15 8 0.38
16 1 0.05
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAAAATATATATTTG
Found at i:12226101 original size:20 final size:20
Alignment explanation
Indices: 12226076--12226115 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
12226066 ATATATTAAT
*
12226076 TATATACAAAACTT-AAAATA
1 TATATA-AAAAATTCAAAATA
12226096 TATATAAAAAATTCAAAATA
1 TATATAAAAAATTCAAAATA
12226116 AAAGTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (20 bp):
TATATAAAAAATTCAAAATA
Found at i:12226661 original size:27 final size:27
Alignment explanation
Indices: 12226619--12226672 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
12226609 TTGCACTCCA
**
12226619 AAATAGATAATGTTTATTAACTTTGTT
1 AAATAGATAAAATTTATTAACTTTGTT
12226646 AAATAGATAAAATTTATTAACTTTGTT
1 AAATAGATAAAATTTATTAACTTTGTT
12226673 GATGTGATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (27 bp):
AAATAGATAAAATTTATTAACTTTGTT
Found at i:12230346 original size:19 final size:18
Alignment explanation
Indices: 12230313--12230351 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
12230303 GCAATTTAGA
*
12230313 AACGAAAATATTAATAAT
1 AACGAAAATAATAATAAT
12230331 AACGATAAATAATAATAAT
1 AACGA-AAATAATAATAAT
12230350 AA
1 AA
12230352 TAACAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (18 bp):
AACGAAAATAATAATAAT
Found at i:12230349 original size:22 final size:22
Alignment explanation
Indices: 12230319--12230367 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
12230309 TAGAAACGAA
* * *
12230319 AATATTAATAATAACGATAAAT
1 AATAATAATAATAACAATAAAC
12230341 AATAATAATAATAACAATAAAC
1 AATAATAATAATAACAATAAAC
12230363 AATAA
1 AATAA
12230368 ACAATTTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (22 bp):
AATAATAATAATAACAATAAAC
Found at i:12232233 original size:44 final size:44
Alignment explanation
Indices: 12232183--12232379 Score: 209
Period size: 44 Copynumber: 4.4 Consensus size: 44
12232173 TATCTACAGT
* *
12232183 CTGCTCCACTACAACTTCAAGGAGATAAGACTTGTTATTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATTTCAAC
*
12232227 CTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATTTCAAC
* * ** * *** * *
12232271 CTG-TCCCATTGCAACTTCAGGGGGATAAGGTTTATGGCTTCCAT
1 CTGCT-CCACTGCAACTTCAGGGAGATAAGACTTGTTATTTCAAC
* *
12232315 CTGCTCCGCTGCAACTTCAGGGAGATAAGA-TTGATTTATTTTTAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTG--TTA-TTTCAAC
12232361 CTGCTCCACTGCAACTTCA
1 CTGCTCCACTGCAACTTCA
12232380 ATGAGGTCAG
Statistics
Matches: 124, Mismatches: 24, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
43 3 0.02
44 98 0.79
45 2 0.02
46 21 0.17
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATTTCAAC
Found at i:12232653 original size:89 final size:89
Alignment explanation
Indices: 12232382--12232625 Score: 389
Period size: 89 Copynumber: 2.7 Consensus size: 89
12232372 CAACTTCAAT
* ** * * *
12232382 GAGGTCAGGCTGGTATCTTCGATCTGCTTCGCTGCCAATATAGGAAGACAAGATCTACTATCTTC
1 GAGGTCAGGCTGGTGTCTTCGATCTGCTTCGCTGCCGGTACAGGAAGACAAGATCTGCTATCTTT
* *
12232447 AGTCTGTTCTGCTACAAACTCAAG
66 AGTCTGTTCTGCTGCAAACTCAGG
12232471 GAGGTCAGGCTGGTGTCTTCGATCTGCTTCGCTGCCGGTACAGGAAGACAAGATCTGCTATCTTT
1 GAGGTCAGGCTGGTGTCTTCGATCTGCTTCGCTGCCGGTACAGGAAGACAAGATCTGCTATCTTT
12232536 AGTCTGTTCTGCTGCAAACTCAGG
66 AGTCTGTTCTGCTGCAAACTCAGG
* * *
12232560 GAGGTCAGGCTGATGTCTTCGATCTGCTTCGCTGCTGGTACAGGAAGACAAGATCTGCTATTTTT
1 GAGGTCAGGCTGGTGTCTTCGATCTGCTTCGCTGCCGGTACAGGAAGACAAGATCTGCTATCTTT
12232625 A
66 A
12232626 ATCTACTCCG
Statistics
Matches: 144, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 144 1.00
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (89 bp):
GAGGTCAGGCTGGTGTCTTCGATCTGCTTCGCTGCCGGTACAGGAAGACAAGATCTGCTATCTTT
AGTCTGTTCTGCTGCAAACTCAGG
Found at i:12233653 original size:51 final size:51
Alignment explanation
Indices: 12233546--12233862 Score: 449
Period size: 51 Copynumber: 6.3 Consensus size: 51
12233536 CTTGCGTATG
** *
12233546 ATCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCT-AAGCTACCACTT
1 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* ** *
12233596 ATCACTTGCCATTTACCACTGATCAGGTAAGTGTAGCTGAAGCTACCACTT
1 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* * *
12233647 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAACTATCACTT
1 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* *
12233698 ATCACTTGCCACTTGCCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* * * *
12233749 ATCACTGGCCACTTGTCACTAATCAAATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* *
12233800 ATCACTTGCCATTTGTCACTGATTAGATAAGTGTAGCTG-AGCTACCACTT
1 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
*
12233850 ATCACTTGTCACT
1 ATCACTTGCCACT
12233863 GATCAGAAGT
Statistics
Matches: 237, Mismatches: 29, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
50 52 0.22
51 185 0.78
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (51 bp):
ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
Found at i:12233733 original size:102 final size:102
Alignment explanation
Indices: 12233546--12233862 Score: 494
Period size: 102 Copynumber: 3.1 Consensus size: 102
12233536 CTTGCGTATG
* * *
12233546 ATCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTGCCATTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTGCCATTT
* *
12233610 ACCACTGATCAGGTAAGTGTAGCTGAAGCTACCACTT
66 GCCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* *
12233647 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAACTATCACTTATCACTTGCCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTGCCATTT
*
12233712 GCCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
66 GCCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
* * * *
12233749 ATCACTGGCCACTTGTCACTAATCAAATAAGTGTAGCTGAAGCTATCACTTATCACTTGCCATTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTGCCATTT
* *
12233814 GTCACTGATTAGATAAGTGTAGCTG-AGCTACCACTT
66 GCCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
12233850 ATCACTTGTCACT
1 ATCACTTGTCACT
12233863 GATCAGAAGT
Statistics
Matches: 196, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
101 57 0.29
102 139 0.71
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (102 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTGCCATTT
GCCACTGATCAGATAAGTGTAGCTGAAGCTACCACTT
Found at i:12236972 original size:14 final size:14
Alignment explanation
Indices: 12236953--12236984 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
12236943 TGGCCTCTCA
12236953 TTTTTCTTTTTCAT
1 TTTTTCTTTTTCAT
*
12236967 TTTTTCTTTTTCCT
1 TTTTTCTTTTTCAT
12236981 TTTT
1 TTTT
12236985 ATGAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTCTTTTTCAT
Found at i:12241511 original size:16 final size:16
Alignment explanation
Indices: 12241490--12241540 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
12241480 AAGAAAGAGC
12241490 AAATACGCTAGTAAAT
1 AAATACGCTAGTAAAT
*
12241506 AAATACGTTAGTAAAT
1 AAATACGCTAGTAAAT
* *
12241522 AAACACGCGAGTAAAT
1 AAATACGCTAGTAAAT
12241538 AAA
1 AAA
12241541 ATACTAGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.53, C:0.12, G:0.14, T:0.22
Consensus pattern (16 bp):
AAATACGCTAGTAAAT
Found at i:12242659 original size:3 final size:3
Alignment explanation
Indices: 12242651--12242691 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
12242641 AAAAGGGGAA
*
12242651 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12242692 CAGAAAACAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12249730 original size:22 final size:21
Alignment explanation
Indices: 12249705--12249760 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
12249695 AATGAAATTA
12249705 TCGAGACTTAAACGATGTTGTC
1 TCGAGACTTAAACGAT-TTGTC
* ** *
12249727 TCGATACTTGTACGGTTTGTC
1 TCGAGACTTAAACGATTTGTC
*
12249748 TCGAGACCTAAAC
1 TCGAGACTTAAAC
12249761 TAATGTAATG
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (21 bp):
TCGAGACTTAAACGATTTGTC
Done.