Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 65 of 204
Found at i:19264416 original size:3 final size:3
Alignment explanation
Indices: 19264408--19264495 Score: 67
Period size: 3 Copynumber: 30.3 Consensus size: 3
19264398 CTTCCCTCCC
* * * * * * *
19264408 TCT TCT TCT TCT CCT TC- TCT TTT TCT TCCT TCT GCG CCT CCT TCC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT TCT TCT TCT
*
19264453 CCT TCT TCT TCT TCT TC- TCT TC- TCT TCT TCT T-T TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
19264496 TCCTGCAGCT
Statistics
Matches: 67, Mismatches: 13, Indels: 10
0.74 0.14 0.11
Matches are distributed among these distances:
2 8 0.12
3 56 0.84
4 3 0.04
ACGTcount: A:0.00, C:0.39, G:0.02, T:0.59
Consensus pattern (3 bp):
TCT
Found at i:19264439 original size:27 final size:26
Alignment explanation
Indices: 19264408--19264494 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 26
19264398 CTTCCCTCCC
*
19264408 TCTTCTTCTTCTCCTTCTCTTTTTCT
1 TCTTCTTCTTCTCCTTCTCTTCTTCT
* ** *
19264434 TCCTTCTGCGCCTCCTTC-C-CCTTCT
1 T-CTTCTTCTTCTCCTTCTCTTCTTCT
19264459 TCTTCTTCTTCT-CTTCTCTTCTTCT
1 TCTTCTTCTTCTCCTTCTCTTCTTCT
19264484 T-TTCTTCTTCT
1 TCTTCTTCTTCT
19264495 TTCCTGCAGC
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
23 4 0.08
24 19 0.39
25 11 0.22
26 2 0.04
27 13 0.27
ACGTcount: A:0.00, C:0.39, G:0.02, T:0.59
Consensus pattern (26 bp):
TCTTCTTCTTCTCCTTCTCTTCTTCT
Found at i:19264480 original size:19 final size:19
Alignment explanation
Indices: 19264456--19264494 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
19264446 TCCTTCCCCT
19264456 TCTTCTTCTTCTTC-TCTTC
1 TCTTCTTCTT-TTCTTCTTC
19264475 TCTTCTTCTTTTCTTCTTC
1 TCTTCTTCTTTTCTTCTTC
19264494 T
1 T
19264495 TTCCTGCAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (19 bp):
TCTTCTTCTTTTCTTCTTC
Found at i:19264496 original size:11 final size:11
Alignment explanation
Indices: 19264454--19264496 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
19264444 CCTCCTTCCC
19264454 CTTCTTCTTCTT
1 CTTCTTCTT-TT
*
19264466 CTTC-TCTTCT
1 CTTCTTCTTTT
19264476 CTTCTTCTTTT
1 CTTCTTCTTTT
19264487 CTTCTTCTTT
1 CTTCTTCTTT
19264497 CCTGCAGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 5 0.18
11 19 0.68
12 4 0.14
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (11 bp):
CTTCTTCTTTT
Found at i:19264683 original size:11 final size:10
Alignment explanation
Indices: 19264668--19264705 Score: 51
Period size: 11 Copynumber: 3.8 Consensus size: 10
19264658 AAAATGGTTG
19264668 TATTATTTTA
1 TATTATTTTA
19264678 GTATTATTTTA
1 -TATTATTTTA
*
19264689 -ATTTTTTTA
1 TATTATTTTA
19264698 TATTATTT
1 TATTATTT
19264706 GTGTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.33
10 6 0.25
11 10 0.42
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (10 bp):
TATTATTTTA
Found at i:19264957 original size:40 final size:39
Alignment explanation
Indices: 19264874--19264982 Score: 139
Period size: 39 Copynumber: 2.8 Consensus size: 39
19264864 GTTTGGACAA
* *
19264874 AAAACGCCGCTAAAAATCAAGCA-TAGCGGCGCTTTAAAT
1 AAAACGCCGCTAAAAAT-GAGCATTAGCGGCGCTTTAAAG
* * *
19264913 AAAACGCCGCTAAAGACTGAGCATTAGCGGCGCTTTCAGG
1 AAAACGCCGCTAAA-AATGAGCATTAGCGGCGCTTTAAAG
*
19264953 AAAACGCCGCCAAAAATGAGCATTAGCGGC
1 AAAACGCCGCTAAAAATGAGCATTAGCGGC
19264983 ATTTTTTTGA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
39 33 0.54
40 28 0.46
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.16
Consensus pattern (39 bp):
AAAACGCCGCTAAAAATGAGCATTAGCGGCGCTTTAAAG
Found at i:19265100 original size:41 final size:41
Alignment explanation
Indices: 19265046--19265196 Score: 214
Period size: 41 Copynumber: 3.7 Consensus size: 41
19265036 CTTTCGGAGC
19265046 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
* *
19265087 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGGT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
* * ** * *
19265128 TTTAGCTGCATTTTCCAAGAAGCGCCGCTAATGCTTAGGGC-
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA-GGCT
19265169 TTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGC
19265197 AAAAACATTT
Statistics
Matches: 94, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
41 92 0.98
42 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
Found at i:19265749 original size:7 final size:7
Alignment explanation
Indices: 19265739--19265798 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
19265729 TAGTAGTTAT
19265739 GGGTTTG
1 GGGTTTG
*
19265746 GGGTTTA
1 GGGTTTG
* *
19265753 TGGTTAG
1 GGGTTTG
*
19265760 AGGTTTG
1 GGGTTTG
*
19265767 GGGTTAG
1 GGGTTTG
19265774 GGGTTTG
1 GGGTTTG
*
19265781 GGATTT-
1 GGGTTTG
*
19265787 GGGTTAG
1 GGGTTTG
19265794 GGGTT
1 GGGTT
19265799 ATAGGTTAAG
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
6 4 0.10
7 36 0.90
ACGTcount: A:0.10, C:0.00, G:0.50, T:0.40
Consensus pattern (7 bp):
GGGTTTG
Found at i:19265778 original size:21 final size:21
Alignment explanation
Indices: 19265717--19265805 Score: 67
Period size: 21 Copynumber: 4.2 Consensus size: 21
19265707 TATATTAAAA
** *
19265717 AGGTTTAGGGGTTAGTAGTTAT
1 AGGTTT-GGGGTTAGGGGTTAG
* *
19265739 GGGTTTGGGGTTTA-TGGTTAG
1 AGGTTTGGGG-TTAGGGGTTAG
*
19265760 AGGTTTGGGGTTAGGGGTTTG
1 AGGTTTGGGGTTAGGGGTTAG
*
19265781 -GGATTT-GGGTTAGGGGTTAT
1 AGG-TTTGGGGTTAGGGGTTAG
19265801 AGGTT
1 AGGTT
19265806 AAGAGTTAGT
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
20 19 0.35
21 28 0.51
22 8 0.15
ACGTcount: A:0.15, C:0.00, G:0.45, T:0.40
Consensus pattern (21 bp):
AGGTTTGGGGTTAGGGGTTAG
Found at i:19266436 original size:27 final size:27
Alignment explanation
Indices: 19266404--19266460 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
19266394 TTACATGTTG
19266404 AAATTAATTAAGGGAATGTAAACAAGA
1 AAATTAATTAAGGGAATGTAAACAAGA
*
19266431 AAATTAATTAAGGGAATGTAAGCAAGA
1 AAATTAATTAAGGGAATGTAAACAAGA
19266458 AAA
1 AAA
19266461 AAGAATGCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.56, C:0.04, G:0.19, T:0.21
Consensus pattern (27 bp):
AAATTAATTAAGGGAATGTAAACAAGA
Found at i:19268662 original size:5 final size:5
Alignment explanation
Indices: 19268652--19268693 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
19268642 AAAACCAATC
19268652 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AA
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AA
19268694 AAATAATTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:19272583 original size:43 final size:42
Alignment explanation
Indices: 19272512--19272822 Score: 354
Period size: 43 Copynumber: 7.3 Consensus size: 42
19272502 ATGACACTTT
* ** *
19272512 TAGCAGCGTTTGTGAAAAAAGCGCCGCTAAAAGTTATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTT-TGATCTA
** * *
19272555 TAGCGGCGTTTGTAAGAGAAGCGTCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT-TTGATCTA
* * *
19272598 TAGCGGCATTTGTGGGAAAAGTGTCGCTAAAGGTTCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTT-TGATCTA
* * *
19272641 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCCTGATTTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT-TTGATCTA
* *
19272684 TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGATCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT-TTGATCTA
*
19272727 TAGCGGCGTTTGTGGG-AAAGCGCCGTTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT-TTGATCTA
* * * *
19272769 TAGCGGCGTTTGTGAGAAAAGCGCTGCTAAAGGTCCTGATCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT-TTGATCTA
*
19272812 TAGCGGTGTTT
1 TAGCGGCGTTT
19272823 ATTTCTAAAA
Statistics
Matches: 233, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
42 39 0.17
43 193 0.83
44 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.28
Consensus pattern (42 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTTGATCTA
Found at i:19275591 original size:44 final size:44
Alignment explanation
Indices: 19275529--19275624 Score: 174
Period size: 44 Copynumber: 2.2 Consensus size: 44
19275519 TTTTTGAGGA
* *
19275529 AGGAAAGATATCATAGAAATGATCTCATTTGATGCTTGAATTAG
1 AGGAAAGATATCATAGAAATGATATCATTTGATACTTGAATTAG
19275573 AGGAAAGATATCATAGAAATGATATCATTTGATACTTGAATTAG
1 AGGAAAGATATCATAGAAATGATATCATTTGATACTTGAATTAG
19275617 AGGAAAGA
1 AGGAAAGA
19275625 ATTTCTGAGT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (44 bp):
AGGAAAGATATCATAGAAATGATATCATTTGATACTTGAATTAG
Found at i:19283561 original size:61 final size:59
Alignment explanation
Indices: 19283490--19283643 Score: 188
Period size: 61 Copynumber: 2.6 Consensus size: 59
19283480 TTGTAATAAG
*
19283490 ATTATTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAATATAATTTAATAAAAAT---AATAAATAATTTAATAATATTCTTAACATA
* * * *
19283551 ATTATCATTAAATACAATTTAAT-AAAATAATATATAATTTAATAATATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAATATTCTTAACATA
*
19283609 ATTATTATTAAAATATGAA-TTAATAAAAATCATAA
1 ATTATTATT-AAATAT-AATTTAATAAAAATAATAA
19283644 TATATAAAAT
Statistics
Matches: 80, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
57 19 0.24
58 15 0.19
59 10 0.12
60 15 0.19
61 21 0.26
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.41
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAATATTCTTAACATA
Found at i:19285747 original size:12 final size:11
Alignment explanation
Indices: 19285730--19285759 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
19285720 TTGTAAAAAG
19285730 AAAAAAAATTC
1 AAAAAAAATTC
19285741 AAAAAAAATTC
1 AAAAAAAATTC
19285752 AAAAAAAA
1 AAAAAAAA
19285760 GAAGTTCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:19287021 original size:16 final size:15
Alignment explanation
Indices: 19286970--19287021 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 15
19286960 AACACAAGAA
19286970 AGTGAAAAGCAAAAAG
1 AGTGAAAAG-AAAAAG
**
19286986 AGCCTGAAAAGAAATCG
1 AG--TGAAAAGAAAAAG
19287003 AGTGAAAAAGAAAAAG
1 AGTG-AAAAGAAAAAG
19287019 AGT
1 AGT
19287022 CTGTTGAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
15 2 0.07
16 14 0.48
17 6 0.21
18 7 0.24
ACGTcount: A:0.58, C:0.08, G:0.25, T:0.10
Consensus pattern (15 bp):
AGTGAAAAGAAAAAG
Found at i:19288529 original size:239 final size:239
Alignment explanation
Indices: 19288110--19288825 Score: 1360
Period size: 239 Copynumber: 3.0 Consensus size: 239
19288100 AGATTTAACT
*
19288110 TTTGTAAAACACTTAGATCGTGTTGTGCTTAGTTGTTCCATTTTGCTTGACGATGATCCATCTGT
1 TTTGTAAAACACTTAGATCGTGTTGTGCTTAGTTGTTCCATTTTGCTTGACGATGATCTATCTGT
* *
19288175 TTTGGTTGTTGACAATAAGATTATTGTTTCTGATCATTTTTATGATGCATGTGTGAATCAATCTA
66 TTTGGTTGTTGATAATAAGATTATTGTTTCTGATCATTTTTATGATGCATGTGTGAATGAATCTA
19288240 TAGTCAATCGTCTAATGCACGGTATGATTGTGCAACTCCGTGAACCGTGTGAATCCTTTCAAATA
131 TAGTCAATCGTCTAATGCACGGTATGATTGTGCAACTCCGTGAACCGTGTGAATCCTTTCAAATA
19288305 CCTGCTTGTGACGATTATGTCTACCATTTGATTCATTATTCACG
196 CCTGCTTGTGACGATTATGTCTACCATTTGATTCATTATTCACG
19288349 TTTGTAAAACACTTAGATCGTGTTGTGCTTAGTTGTTCCATTTTGCTTGACGATGATCTATCTGT
1 TTTGTAAAACACTTAGATCGTGTTGTGCTTAGTTGTTCCATTTTGCTTGACGATGATCTATCTGT
*
19288414 TTTGGTTGTTGATAATAAGATTATTGTTTCTGATCATTTTTATGATACATGTGTGAATGAATCTA
66 TTTGGTTGTTGATAATAAGATTATTGTTTCTGATCATTTTTATGATGCATGTGTGAATGAATCTA
19288479 TAGTCAATCGTCTAATGCACGGTATGATTGTGCAACTCCGTGAACCGTGTGAATCCTTTCAAATA
131 TAGTCAATCGTCTAATGCACGGTATGATTGTGCAACTCCGTGAACCGTGTGAATCCTTTCAAATA
19288544 CCTGCTTGTGACGATTATGTCTACCATTTGATTCATTATTCACG
196 CCTGCTTGTGACGATTATGTCTACCATTTGATTCATTATTCACG
19288588 TTTGTAAAACACTTAGATCGTGTTGTGCTTAGTTGTTCCATTTTGCTTGACGATGATCTATCTGT
1 TTTGTAAAACACTTAGATCGTGTTGTGCTTAGTTGTTCCATTTTGCTTGACGATGATCTATCTGT
19288653 TTTGGTTGTTGATAATAAGATTATTGTTTCTGATCATTTTTATGATGCATGTGTGAATGAATCTA
66 TTTGGTTGTTGATAATAAGATTATTGTTTCTGATCATTTTTATGATGCATGTGTGAATGAATCTA
* *
19288718 TAATCAATCGTCTAATGCATGGTATGATTGTGCAACTCCGTGAACCGTGTGAATCCTTTCAAATA
131 TAGTCAATCGTCTAATGCACGGTATGATTGTGCAACTCCGTGAACCGTGTGAATCCTTTCAAATA
* *
19288783 CCTGCTTTTGACGATTATGTCTATCATTTGATTCATTATTCAC
196 CCTGCTTGTGACGATTATGTCTACCATTTGATTCATTATTCAC
19288826 ATTCTACTTA
Statistics
Matches: 468, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
239 468 1.00
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (239 bp):
TTTGTAAAACACTTAGATCGTGTTGTGCTTAGTTGTTCCATTTTGCTTGACGATGATCTATCTGT
TTTGGTTGTTGATAATAAGATTATTGTTTCTGATCATTTTTATGATGCATGTGTGAATGAATCTA
TAGTCAATCGTCTAATGCACGGTATGATTGTGCAACTCCGTGAACCGTGTGAATCCTTTCAAATA
CCTGCTTGTGACGATTATGTCTACCATTTGATTCATTATTCACG
Found at i:19300017 original size:28 final size:27
Alignment explanation
Indices: 19299985--19300042 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
19299975 TATCTATATA
* *
19299985 TTTTTAATAAT-TTTATTTTTATGATACT
1 TTTTTAA-AATATTTATGTATAT-ATACT
*
19300013 TTTTTTAAATATTTATGTATATATACT
1 TTTTTAAAATATTTATGTATATATACT
19300040 TTT
1 TTT
19300043 GTGCTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 11 0.42
28 15 0.58
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (27 bp):
TTTTTAAAATATTTATGTATATATACT
Found at i:19303900 original size:25 final size:25
Alignment explanation
Indices: 19303859--19303915 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
19303849 ACAATCCATG
** * *
19303859 TAAATCATGTATTTCATGTAACTTT
1 TAAATCATGTAAATCATATAACATT
19303884 TAAATCATGTAAATCATATAACATT
1 TAAATCATGTAAATCATATAACATT
*
19303909 TATATCA
1 TAAATCA
19303916 ATTCTTTCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (25 bp):
TAAATCATGTAAATCATATAACATT
Found at i:19304206 original size:23 final size:23
Alignment explanation
Indices: 19304176--19304244 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 23
19304166 CCAAGCTGAT
19304176 AAACGGTAAGCTCTATAGAGCTG
1 AAACGGTAAGCTCTATAGAGCTG
*
19304199 AAACGGTAAGCTTTATAGAGCTG
1 AAACGGTAAGCTCTATAGAGCTG
*
19304222 AAACGATAAGCTC-ATACGAGCTG
1 AAACGGTAAGCTCTATA-GAGCTG
19304245 TGGTGAGTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
22 3 0.07
23 39 0.93
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (23 bp):
AAACGGTAAGCTCTATAGAGCTG
Found at i:19309240 original size:7 final size:7
Alignment explanation
Indices: 19309228--19309280 Score: 99
Period size: 7 Copynumber: 7.7 Consensus size: 7
19309218 ACAAAGGAAC
19309228 AAAAAGA
1 AAAAAGA
19309235 AAAAAG-
1 AAAAAGA
19309241 AAAAAGA
1 AAAAAGA
19309248 AAAAAGA
1 AAAAAGA
19309255 AAAAAGA
1 AAAAAGA
19309262 AAAAAGA
1 AAAAAGA
19309269 AAAAAGA
1 AAAAAGA
19309276 AAAAA
1 AAAAA
19309281 ACAAACAAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.13
7 39 0.87
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:19309251 original size:14 final size:13
Alignment explanation
Indices: 19309228--19309298 Score: 90
Period size: 14 Copynumber: 5.4 Consensus size: 13
19309218 ACAAAGGAAC
19309228 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
19309241 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
19309254 AAAAAAGAAAAAAG
1 -AAAAAGAAAAAAG
19309268 AAAAAAGAAAAAA-
1 -AAAAAGAAAAAAG
* * *
19309281 ACAAACAAACAAG
1 AAAAAGAAAAAAG
19309294 AAAAA
1 AAAAA
19309299 TACTAGCTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
12 9 0.17
13 17 0.33
14 26 0.50
ACGTcount: A:0.85, C:0.04, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:19309253 original size:20 final size:20
Alignment explanation
Indices: 19309228--19309298 Score: 99
Period size: 21 Copynumber: 3.5 Consensus size: 20
19309218 ACAAAGGAAC
19309228 AAAAAGAAAAAAGAAAAAGA
1 AAAAAGAAAAAAGAAAAAGA
19309248 AAAAAGAAAAAAGAAAAAAGA
1 AAAAAGAAAAAAG-AAAAAGA
* *
19309269 AAAAAGAAAAAA-ACAAACA
1 AAAAAGAAAAAAGAAAAAGA
*
19309288 AACAAGAAAAA
1 AAAAAGAAAAA
19309299 TACTAGCTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
19 15 0.32
20 13 0.28
21 19 0.40
ACGTcount: A:0.85, C:0.04, G:0.11, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAAGAAAAAGA
Found at i:19309608 original size:27 final size:27
Alignment explanation
Indices: 19309578--19309634 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
19309568 TTTTTGAATA
19309578 TTCTTTAATTTTT-TTTTCAAAATTTTT
1 TTCTTTAATTTTTCTTTTC-AAATTTTT
** *
19309605 TTCTTTTCTTTTTCTTTTCAACTTTTT
1 TTCTTTAATTTTTCTTTTCAAATTTTT
19309632 TTC
1 TTC
19309635 AAAATTTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (27 bp):
TTCTTTAATTTTTCTTTTCAAATTTTT
Found at i:19309611 original size:22 final size:22
Alignment explanation
Indices: 19309563--19309618 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
19309553 TCATGTGGAC
* *
19309563 CTTTTTTTTTGAATATTCTTTA
1 CTTTTTTTTTCAAAATTCTTTA
* * *
19309585 ATTTTTTTTTCAAAATTTTTTT
1 CTTTTTTTTTCAAAATTCTTTA
19309607 CTTTTCTTTTTC
1 CTTTT-TTTTTC
19309619 TTTTCAACTT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.71
Consensus pattern (22 bp):
CTTTTTTTTTCAAAATTCTTTA
Found at i:19312460 original size:19 final size:18
Alignment explanation
Indices: 19312437--19312478 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
19312427 AAACAAAAGA
*
19312437 AAAATTAAAATGTAAAAAT
1 AAAATTAAAA-ATAAAAAT
*
19312456 CAAATTAAAAATAAAAAT
1 AAAATTAAAAATAAAAAT
19312474 AAAAT
1 AAAAT
19312479 GGCTAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAATTAAAAATAAAAAT
Found at i:19314273 original size:20 final size:20
Alignment explanation
Indices: 19314236--19314291 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
19314226 AATTACAGAA
* *
19314236 AAAGCATCGATACCCTTTCA-
1 AAAGTATCGATA-TCTTTCAC
*
19314256 AAATGTATCGATATCTTTTAC
1 AAA-GTATCGATATCTTTCAC
*
19314277 CAAGTATCGATATCT
1 AAAGTATCGATATCT
19314292 CTACTCCAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 20 0.67
21 10 0.33
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
AAAGTATCGATATCTTTCAC
Found at i:19316784 original size:71 final size:72
Alignment explanation
Indices: 19316663--19316818 Score: 244
Period size: 71 Copynumber: 2.2 Consensus size: 72
19316653 TTGTGGATTC
*
19316663 TTCACAGCTCGTG-TAAGCAACATCATGTAAAGTTACCATCCCGACCCACAACTCGTGTGAGCAG
1 TTCACAGCTCGTGTTAAGCAAAATCATGTAAAGTTACCATCCCGACCCACAACTCGTGTGAGCAG
19316727 GCTTATT
66 GCTTATT
* *
19316734 TTCATAGCTCGTGTTAA-CAAAATCATGTAAAGTTACCATCCCGACTCACAACTCGTGTGAGCAG
1 TTCACAGCTCGTGTTAAGCAAAATCATGTAAAGTTACCATCCCGACCCACAACTCGTGTGAGCAG
19316798 GCTTATT
66 GCTTATT
* * *
19316805 CTCAGAACTCGTGT
1 TTCACAGCTCGTGT
19316819 GAGCAACCTT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
71 75 0.96
72 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (72 bp):
TTCACAGCTCGTGTTAAGCAAAATCATGTAAAGTTACCATCCCGACCCACAACTCGTGTGAGCAG
GCTTATT
Found at i:19316829 original size:27 final size:27
Alignment explanation
Indices: 19316778--19316830 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
19316768 ACCATCCCGA
**
19316778 CTCACAACTCGTGTGAGCAGGCTTATT
1 CTCACAACTCGTGTGAGCAACCTTATT
*
19316805 CTCAGAACTCGTGTGAGCAACCTTAT
1 CTCACAACTCGTGTGAGCAACCTTAT
19316831 CTCGTGTGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (27 bp):
CTCACAACTCGTGTGAGCAACCTTATT
Found at i:19327073 original size:44 final size:44
Alignment explanation
Indices: 19327021--19327136 Score: 223
Period size: 44 Copynumber: 2.6 Consensus size: 44
19327011 GATAGGTAAT
19327021 ATGTGAGAATACTTGTATGTGATATATGATGTACTTATTTTAAG
1 ATGTGAGAATACTTGTATGTGATATATGATGTACTTATTTTAAG
*
19327065 ATGTGAGAATACTTGTATGTGATATATGATGTACTTATTTTAAT
1 ATGTGAGAATACTTGTATGTGATATATGATGTACTTATTTTAAG
19327109 ATGTGAGAATACTTGTATGTGATATATG
1 ATGTGAGAATACTTGTATGTGATATATG
19327137 TGGTTGGTTA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 71 1.00
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.43
Consensus pattern (44 bp):
ATGTGAGAATACTTGTATGTGATATATGATGTACTTATTTTAAG
Found at i:19330111 original size:68 final size:68
Alignment explanation
Indices: 19330030--19330181 Score: 214
Period size: 68 Copynumber: 2.2 Consensus size: 68
19330020 TGTCATAGCT
*
19330030 GAGCTATGGTCTTACACCTTGTAACCCCATGTTTAATGTCCTGGCGGACTCTATTGGTTGCCACA
1 GAGCTATGGTCTTACACCTTGTAACCCCATGTTTAATGTCCTGGCAGACTCTATTGGTTGCCACA
19330095 GTC
66 GTC
* * * * * *
19330098 GAGCTATGTTCTTACACTTTGTAACCCCGTGTTTAATGTCCTGGTAGACTTTATTGGTTGCCATA
1 GAGCTATGGTCTTACACCTTGTAACCCCATGTTTAATGTCCTGGCAGACTCTATTGGTTGCCACA
**
19330163 ACC
66 GTC
*
19330166 AAGCTATGGTCTTACA
1 GAGCTATGGTCTTACA
19330182 TGTTGTACCT
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 73 1.00
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (68 bp):
GAGCTATGGTCTTACACCTTGTAACCCCATGTTTAATGTCCTGGCAGACTCTATTGGTTGCCACA
GTC
Found at i:19332287 original size:27 final size:27
Alignment explanation
Indices: 19332248--19332452 Score: 214
Period size: 27 Copynumber: 7.6 Consensus size: 27
19332238 TAAATTGTAC
*
19332248 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
19332275 AGTACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
19332302 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19332328 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
19332356 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19332383 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
19332411 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19332438 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19332453 GACTTAATAT
Statistics
Matches: 150, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
27 126 0.84
28 24 0.16
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:19332309 original size:54 final size:54
Alignment explanation
Indices: 19332249--19332452 Score: 239
Period size: 54 Copynumber: 3.8 Consensus size: 54
19332239 AAATTGTACA
* * * *
19332249 GCACTAAGTGTGCGATTTGGCTATGTAGTACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
* ** * *
19332303 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTG
* **
19332357 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTG
* * * *
19332412 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
19332453 GACTTAATAT
Statistics
Matches: 127, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 79 0.62
55 47 0.37
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (54 bp):
GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
Found at i:19340351 original size:27 final size:27
Alignment explanation
Indices: 19340308--19340509 Score: 196
Period size: 27 Copynumber: 7.6 Consensus size: 27
19340298 TAAATTGTAC
*
19340308 AGCACTAAGT-TGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
19340334 AGTACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
19340361 TGCAC-AAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
19340386 ATGCACTAAGTGTGCGAATTGAC-ATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
19340413 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19340440 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
19340468 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19340495 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19340510 GACTTAATAT
Statistics
Matches: 147, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
26 52 0.35
27 71 0.48
28 24 0.16
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:19340394 original size:53 final size:53
Alignment explanation
Indices: 19340330--19340483 Score: 177
Period size: 53 Copynumber: 2.9 Consensus size: 53
19340320 CGATTTGGCT
* *
19340330 ATGTAGTACTAAGTGTGCGATTTGACCATGTTGCAC-AAGTGTGCGAAATGAAA
1 ATGTAGCACTAAGTGTGCGATTTGA-CATGTGGCACTAAGTGTGCGAAATGAAA
* * ** **
19340383 ATG-ATGCACTAAGTGTGCGAATTGACATGCGGCACTAAGTGTGCGAGTTGACT
1 ATGTA-GCACTAAGTGTGCGATTTGACATGTGGCACTAAGTGTGCGAAATGAAA
*
19340436 ATGTAGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGA
1 ATGTAGCACTAAGTGTGCGA-TTTGA-CATGTGGCACTAAGTGTGCGA
19340484 GTTGATTATA
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
52 9 0.11
53 52 0.61
54 5 0.06
55 19 0.22
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (53 bp):
ATGTAGCACTAAGTGTGCGATTTGACATGTGGCACTAAGTGTGCGAAATGAAA
Found at i:19344256 original size:38 final size:38
Alignment explanation
Indices: 19344205--19344291 Score: 95
Period size: 38 Copynumber: 2.3 Consensus size: 38
19344195 TGGAATTGAA
* * * *
19344205 TATCTACTAGTCCTCCAGGGCGACA-TCGTGACGACTGT
1 TATCTAATGGTCCTCCAGGGCGACACT-ATGACGACGGT
** *
19344243 TATCTAATGGTCCTTTAGGGTGACACTATGACGACGGT
1 TATCTAATGGTCCTCCAGGGCGACACTATGACGACGGT
19344281 TATCTAATGGT
1 TATCTAATGGT
19344292 TCTTTGGGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 40 0.98
39 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (38 bp):
TATCTAATGGTCCTCCAGGGCGACACTATGACGACGGT
Found at i:19344321 original size:38 final size:38
Alignment explanation
Indices: 19344232--19344343 Score: 118
Period size: 38 Copynumber: 2.9 Consensus size: 38
19344222 GGGCGACATC
*
19344232 GTGACGACTGTTATCTAATGGTCCTTTAGGGTGACACT
1 GTGACGACAGTTATCTAATGGTCCTTTAGGGTGACACT
* * * * * *
19344270 ATGACGACGGTTATCTAATGGTTCTTTGGGGTGATATT
1 GTGACGACAGTTATCTAATGGTCCTTTAGGGTGACACT
* * *
19344308 GTGACAACAGTTATCTACTGGT-CTTATAGGGCGACA
1 GTGACGACAGTTATCTAATGGTCCTT-TAGGGTGACA
19344344 TCGTGTAAAC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
37 3 0.05
38 57 0.95
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (38 bp):
GTGACGACAGTTATCTAATGGTCCTTTAGGGTGACACT
Found at i:19345429 original size:61 final size:58
Alignment explanation
Indices: 19345316--19345431 Score: 137
Period size: 61 Copynumber: 1.9 Consensus size: 58
19345306 ATCAATTTAA
* * *
19345316 TATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAATTAATACAATACTTATCAAGATAAATAGTAAATTAAATTTAATATTAAATC
*
19345374 TATTAAATTAATACAATA-TGTATCTAGAAGATAAATAGTAAATTTAATATT-ATATTAA
1 TATTAAATTAATACAATACT-TATC---AAGATAAATAGTAAATTAAAT-TTAATATTAA
19345432 GATAATTCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
57 1 0.02
58 21 0.43
61 25 0.51
62 2 0.04
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (58 bp):
TATTAAATTAATACAATACTTATCAAGATAAATAGTAAATTAAATTTAATATTAAATC
Found at i:19348737 original size:15 final size:15
Alignment explanation
Indices: 19348719--19348747 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19348709 TATTGAATCG
19348719 AAAAAATAAA-TTTA
1 AAAAAATAAAGTTTA
19348733 AAAAAATAAAGTTTA
1 AAAAAATAAAGTTTA
19348748 TAGGTTAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
AAAAAATAAAGTTTA
Found at i:19357252 original size:50 final size:50
Alignment explanation
Indices: 19357115--19357462 Score: 493
Period size: 50 Copynumber: 7.0 Consensus size: 50
19357105 TTTCCTGTAC
* * * ** * *
19357115 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * ** *
19357165 TGCCTATGCCATGT-CCAGACATGGTCTGACGGGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
19357214 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
19357264 TGCCAACGCCATGTCCCAGACATGGTCTTACATGTGACCTCTCATCAT-GG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATC-TCGG
* *
19357314 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
19357364 TGCCAACGCCATGTCCCAGACATGGTCTAACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
19357414 TGCCAACGCTATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
19357463 TGTTTACATG
Statistics
Matches: 266, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
49 39 0.15
50 226 0.85
51 1 0.00
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:19357544 original size:44 final size:44
Alignment explanation
Indices: 19357480--19357575 Score: 156
Period size: 44 Copynumber: 2.2 Consensus size: 44
19357470 ATGGATCAAC
* *
19357480 CATGGTACTTTTCCGCCAATTCTTTCTTAATTGCCATGTTATAAA
1 CATGG-ACTTTTCCACCAATTCTTCCTTAATTGCCATGTTATAAA
*
19357525 CATGGACTTTTCCATCAATTCTTCCTTAATTGCCATGTTATAAA
1 CATGGACTTTTCCACCAATTCTTCCTTAATTGCCATGTTATAAA
19357569 CATGGAC
1 CATGGAC
19357576 CTTGAGATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 43 0.90
45 5 0.10
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (44 bp):
CATGGACTTTTCCACCAATTCTTCCTTAATTGCCATGTTATAAA
Found at i:19358073 original size:22 final size:21
Alignment explanation
Indices: 19358033--19358078 Score: 51
Period size: 22 Copynumber: 2.1 Consensus size: 21
19358023 TTTTCTCCCA
19358033 TTCTAGGTCAAAATCTCAT-T
1 TTCTAGGTCAAAATCTCATAT
19358053 TTCTAGGATCTAAAA-CATCATAT
1 TTCTAGG-TC-AAAATC-TCATAT
19358076 TTC
1 TTC
19358079 ACTTATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
20 7 0.32
21 3 0.14
22 8 0.36
23 4 0.18
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.39
Consensus pattern (21 bp):
TTCTAGGTCAAAATCTCATAT
Found at i:19360133 original size:18 final size:19
Alignment explanation
Indices: 19360110--19360148 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19360100 TACAAATGCA
*
19360110 AACATT-ACATAATTATTT
1 AACATTCACATAATGATTT
*
19360128 AACATTCACATCATGATTT
1 AACATTCACATAATGATTT
19360147 AA
1 AA
19360149 TCTTATCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (19 bp):
AACATTCACATAATGATTT
Found at i:19360683 original size:18 final size:18
Alignment explanation
Indices: 19360660--19360715 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
19360650 TTTACAACAT
19360660 AATTCACATTCTATTTTC
1 AATTCACATTCTATTTTC
19360678 AATT--CA--CTATTGTT-
1 AATTCACATTCTATT-TTC
*
19360692 -TTTCACATTCTATTTTC
1 AATTCACATTCTATTTTC
19360709 AATTCAC
1 AATTCAC
19360716 TATCTCATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 14
0.64 0.04 0.31
Matches are distributed among these distances:
13 2 0.07
14 5 0.17
15 4 0.14
16 4 0.14
17 5 0.17
18 9 0.31
ACGTcount: A:0.27, C:0.21, G:0.02, T:0.50
Consensus pattern (18 bp):
AATTCACATTCTATTTTC
Found at i:19360840 original size:22 final size:22
Alignment explanation
Indices: 19360815--19360880 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
19360805 TGCACTAATG
19360815 AACAGAGAGCACTGAAGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
* *
19360837 AACAGAGAGCACAGATGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
* *
19360859 AACAGAGAGCATTGACGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
19360881 GTGATGCGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.39, C:0.18, G:0.27, T:0.15
Consensus pattern (22 bp):
AACAGAGAGCACTGAAGTGCTA
Found at i:19361934 original size:15 final size:14
Alignment explanation
Indices: 19361913--19361948 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
19361903 ATAATCCTTA
*
19361913 ATAATTATCTTAAT
1 ATAATTATCCTAAT
19361927 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
19361942 ATAATTA
1 ATAATTA
19361949 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:19362250 original size:25 final size:25
Alignment explanation
Indices: 19362220--19362306 Score: 129
Period size: 25 Copynumber: 3.5 Consensus size: 25
19362210 TATCAACTAG
* *
19362220 TAATCAGAGAGCACTAACGTGCTAA
1 TAATCAGAGAGCACTGATGTGCTAA
19362245 TAATCAGAGAGCACTGATGTGCTAA
1 TAATCAGAGAGCACTGATGTGCTAA
*
19362270 TAATCAGAGAGCGCTGATGTGCTAA
1 TAATCAGAGAGCACTGATGTGCTAA
* *
19362295 GAATTAGAGAGC
1 TAATCAGAGAGC
19362307 GCGCTAAAGT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (25 bp):
TAATCAGAGAGCACTGATGTGCTAA
Found at i:19363338 original size:23 final size:23
Alignment explanation
Indices: 19363308--19363354 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
19363298 AATAAGTATG
19363308 TACATATATTAATTACAAATGTA
1 TACATATATTAATTACAAATGTA
* *
19363331 TACATATATTTATTACACATGTA
1 TACATATATTAATTACAAATGTA
19363354 T
1 T
19363355 TTATAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (23 bp):
TACATATATTAATTACAAATGTA
Found at i:19374241 original size:49 final size:49
Alignment explanation
Indices: 19374136--19374806 Score: 1055
Period size: 49 Copynumber: 13.9 Consensus size: 49
19374126 TAGTATGGCG
**
19374136 TAATGGCTAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
19374183 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
19374232 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
19374281 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGATAAGGCC
19374332 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * *
19374379 TAATAGCCGATGTGATGAATGTGAAAGTATAAATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
19374428 TAATGGCCGATGTAATGAATGTGAAAGTG--TATATATGAGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
19374475 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
19374524 TAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
19374571 TAATGGCCGATGTGATGAATATGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
19374620 TAATGGCCGATGTAATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
19374669 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * *
19374716 TAATGGCCGATGTGATGGATGTGAAAGTG--TATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * *
19374763 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
19374807 TCCCGAAGGG
Statistics
Matches: 583, Mismatches: 29, Indels: 24
0.92 0.05 0.04
Matches are distributed among these distances:
47 255 0.44
48 1 0.00
49 278 0.48
51 49 0.08
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:19374314 original size:96 final size:95
Alignment explanation
Indices: 19374136--19374806 Score: 1051
Period size: 96 Copynumber: 7.0 Consensus size: 95
19374126 TAGTATGGCG
** *
19374136 TAATGGCTAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
19374201 ATGTGAAAGTGTATATATATGTGATAAGGCC
66 ATGTGAAAGTG-ATATATATGTGATAAGGCC
19374232 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
19374297 GAATGTGAAAGTGTATATATATATGTGATAAGGCC
64 GAATGTGAAAGTG---ATATATATGTGATAAGGCC
*
19374332 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
19374397 ATGTGAAAGT-ATAAATATATGTGATAAGGCC
66 ATGTGAAAGTGAT--ATATATGTGATAAGGCC
* *
19374428 TAATGGCCGATGTAATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
19374493 ATGTGAAAGTGTATATATATGTGATAAGGCC
66 ATGTGAAAGTG-ATATATATGTGATAAGGCC
*
19374524 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
19374589 ATATGAAAGTGTATATATATGTGATAAGGCC
66 ATGTGAAAGTG-ATATATATGTGATAAGGCC
*
19374620 TAATGGCCGATGTAATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
19374685 GAATGTGAAAGTG-TATATATGTGATAAGGCC
64 GAATGTGAAAGTGATATATATGTGATAAGGCC
* * * * * * * *
19374716 TAATGGCCGATGTGATGGATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
19374781 ATGTGAAAGTG-TATAAATGTGATAAG
66 ATGTGAAAGTGATATATATGTGATAAG
19374807 TCCCGAAGGG
Statistics
Matches: 541, Mismatches: 24, Indels: 22
0.92 0.04 0.04
Matches are distributed among these distances:
94 56 0.10
96 297 0.55
98 139 0.26
100 49 0.09
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (95 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGATATATATGTGATAAGGCC
Found at i:19387881 original size:21 final size:21
Alignment explanation
Indices: 19387857--19387898 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
19387847 GAAGTTAAAA
19387857 TGTTTTAATTTCTCA-TTAATT
1 TGTTTTAATTTC-CATTTAATT
19387878 TGTTTTAATTTCCATTTAATT
1 TGTTTTAATTTCCATTTAATT
19387899 ACAAAATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.24, C:0.10, G:0.05, T:0.62
Consensus pattern (21 bp):
TGTTTTAATTTCCATTTAATT
Found at i:19393881 original size:31 final size:29
Alignment explanation
Indices: 19393850--19393905 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
19393840 AAAATTTGAA
19393850 AAAGGTAAAC-TTTTAGTCACTTATATTTG
1 AAAGGT-AACGTTTTAGTCACTTATATTTG
* *
19393879 AAATGTTACGTTTTAGTCACTTATATT
1 AAAGGTAACGTTTTAGTCACTTATATT
19393906 AACGTATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (29 bp):
AAAGGTAACGTTTTAGTCACTTATATTTG
Found at i:19394137 original size:20 final size:21
Alignment explanation
Indices: 19394112--19394153 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
19394102 TTTCATTATC
* *
19394112 TTCTA-CTTCTTCATCTGTTT
1 TTCTACCTTCTCCATCTCTTT
19394132 TTCTACCTTCTCCATCTCTTT
1 TTCTACCTTCTCCATCTCTTT
19394153 T
1 T
19394154 AATATAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.10, C:0.31, G:0.02, T:0.57
Consensus pattern (21 bp):
TTCTACCTTCTCCATCTCTTT
Found at i:19399463 original size:31 final size:29
Alignment explanation
Indices: 19399422--19399495 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 29
19399412 TTAACGGTTC
* *
19399422 AGTGAGTAAAATGTTACAACATGTT-AACGTA
1 AGTGACTAAAATGTT--AACAT-TTAAACATA
*
19399453 AGTGACTAAAACG-TAACATTTCAAACATA
1 AGTGACTAAAATGTTAACATTT-AAACATA
19399482 AGTGACTAAAATGT
1 AGTGACTAAAATGT
19399496 AATTTGAGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
27 2 0.06
28 5 0.14
29 17 0.47
30 1 0.03
31 11 0.31
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (29 bp):
AGTGACTAAAATGTTAACATTTAAACATA
Found at i:19402716 original size:3 final size:3
Alignment explanation
Indices: 19402708--19402745 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
19402698 GCATCCAATA
*
19402708 AAT AAT AAT AAT AAT AAT AAT AAT AGAC AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AA
19402746 AATTCCCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.87
4 2 0.06
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:19404049 original size:2 final size:2
Alignment explanation
Indices: 19404042--19404073 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19404032 TGAGTGGGAA
19404042 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
19404074 CTTATTTTCT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:19410200 original size:21 final size:21
Alignment explanation
Indices: 19410174--19410214 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19410164 AGACGAGCAA
* *
19410174 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
19410195 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
19410215 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:19412146 original size:14 final size:14
Alignment explanation
Indices: 19412127--19412156 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19412117 TAACATTATG
*
19412127 ATTAATGGCAAACA
1 ATTAATGGAAAACA
19412141 ATTAATGGAAAACA
1 ATTAATGGAAAACA
19412155 AT
1 AT
19412157 CAAGTGGTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.10, G:0.13, T:0.23
Consensus pattern (14 bp):
ATTAATGGAAAACA
Found at i:19414715 original size:19 final size:19
Alignment explanation
Indices: 19414660--19414730 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
19414650 AATTTCTTAG
*
19414660 ATAACTTTTACAACTTTTTA
1 ATAATTTTTA-AACTTTTTA
* *
19414680 GTAATTATTAATA-TTTTTA
1 ATAATTTTTAA-ACTTTTTA
*
19414699 ATAATTTTTAAACTTTTTT
1 ATAATTTTTAAACTTTTTA
*
19414718 AT-AGTTTTAAACT
1 ATAATTTTTAAACT
19414731 CATCTCAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 11 0.26
19 23 0.55
20 8 0.19
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (19 bp):
ATAATTTTTAAACTTTTTA
Found at i:19418399 original size:33 final size:33
Alignment explanation
Indices: 19418313--19418388 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
19418303 AACTTTTTCG
* * * *
19418313 GAAAATATTTT-CAGAAAATCTACCAAACAACA
1 GAAAATATTTTACACAAATTCAATCAAACAACA
* *
19418345 GAAAATATTTTACACAGATTCAATCAAACACCA
1 GAAAATATTTTACACAAATTCAATCAAACAACA
19418378 GAAAATATTTT
1 GAAAATATTTT
19418389 CCAATAATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 11 0.30
33 26 0.70
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.26
Consensus pattern (33 bp):
GAAAATATTTTACACAAATTCAATCAAACAACA
Found at i:19418423 original size:35 final size:34
Alignment explanation
Indices: 19418379--19418445 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
19418369 CAAACACCAG
*
19418379 AAAATATTTTCCA-ATAATTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGA-AA-TCATTTTACAGAAAAGT
* *
19418414 AAAACATTTTCTAGAAATCATTTTACGGAAAA
1 AAAACATTTTCCAGAAATCATTTTACAGAAAA
19418446 CATTTTACTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 14 0.50
35 13 0.46
36 1 0.04
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (34 bp):
AAAACATTTTCCAGAAATCATTTTACAGAAAAGT
Found at i:19418956 original size:16 final size:15
Alignment explanation
Indices: 19418937--19418973 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
19418927 ATTATAAAAG
19418937 AAAAAT-AATAATATT
1 AAAAATAAATAATA-T
19418952 AAAAATAAATAATAT
1 AAAAATAAATAATAT
19418967 AAAAATA
1 AAAAATA
19418974 CGCAATCTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAATAAATAATAT
Found at i:19419035 original size:15 final size:16
Alignment explanation
Indices: 19419006--19419040 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
19418996 TTATAAAAAT
*
19419006 ATATAAAATTTTAATA
1 ATATAAAATTATAATA
19419022 ATATAAAA-TATAATA
1 ATATAAAATTATAATA
19419037 ATAT
1 ATAT
19419041 GTATTAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAAAATTATAATA
Found at i:19423891 original size:194 final size:196
Alignment explanation
Indices: 19423542--19423899 Score: 517
Period size: 194 Copynumber: 1.8 Consensus size: 196
19423532 TCCATCATCA
* * *
19423542 ATTAGGGTTATGAGATGCTACAGTAAATAACAAAAATAGAAGCATGCTATTTCATTTCAAAACTT
1 ATTAGAGTTATGAGATACTACAGTAAATAACAAAAATAGAAGCATGCTATTTCAATTCAAAACTT
* **
19423607 ATTAAAAAATTCATTAATCATCAAACATTCATTTAAACATGTTATACATGCAAGACCGAGCTTAA
66 ATTAAAAAATTCATTAATCATCAAACATTCAGTTAAACATGTTATACATGCAAGACAAAGCTTAA
* *
19423672 ATTGAGCTTACAAAAGCTTTAAAACAATTTAGAACTAAGAAGGGTCTCACTCGTATATGTCATCG
131 ATCGAGCTTACAAAAGCTATAAAACAATTTAGAACTAAGAAGGGTCTCACTCGTATATGTCATCG
19423737 G
196 G
* *
19423738 ATTAGAGTTATGAGATACTACAGTAAATAA-AAAACA-A-AATG-ATGTTATTTCAATTCATAAC
1 ATTAGAGTTATGAGATACTACAGTAAATAACAAAA-ATAGAA-GCATGCTATTTCAATTCAAAAC
** * * *
19423799 TTATTAAACCATTTATTAATCATCGAACATTCAGTTAAACATGTTATACATGCAATACAAAGCTT
64 TTATTAAAAAATTCATTAATCATCAAACATTCAGTTAAACATGTTATACATGCAAGACAAAGCTT
* *
19423864 AAATCGAGCTTACGAAATCTATAAAACAATTTAGAA
129 AAATCGAGCTTACAAAAGCTATAAAACAATTTAGAA
19423900 GCAGCGCCTA
Statistics
Matches: 143, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
194 108 0.76
195 6 0.04
196 29 0.20
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.31
Consensus pattern (196 bp):
ATTAGAGTTATGAGATACTACAGTAAATAACAAAAATAGAAGCATGCTATTTCAATTCAAAACTT
ATTAAAAAATTCATTAATCATCAAACATTCAGTTAAACATGTTATACATGCAAGACAAAGCTTAA
ATCGAGCTTACAAAAGCTATAAAACAATTTAGAACTAAGAAGGGTCTCACTCGTATATGTCATCG
G
Found at i:19427519 original size:26 final size:25
Alignment explanation
Indices: 19427490--19427547 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 25
19427480 AGTTTAGTGT
19427490 TGCTTTTGAAAAATGCTTTTAAAAAG
1 TGCTTTTGAAAAATGC-TTTAAAAAG
* * * *
19427516 TGCTGTGGAAAAGTGCTTTGAAAAG
1 TGCTTTTGAAAAATGCTTTAAAAAG
*
19427541 TACTTTT
1 TGCTTTT
19427548 ATAAAGTTTG
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.38
Consensus pattern (25 bp):
TGCTTTTGAAAAATGCTTTAAAAAG
Found at i:19427540 original size:12 final size:12
Alignment explanation
Indices: 19427494--19427546 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
19427484 TAGTGTTGCT
*
19427494 TTTGAAAAATGC
1 TTTGAAAAGTGC
*
19427506 TTTTAAAAAGTGC
1 -TTTGAAAAGTGC
*
19427519 TGTGGAAAAGTGC
1 T-TTGAAAAGTGC
*
19427532 TTTGAAAAGTAC
1 TTTGAAAAGTGC
19427544 TTT
1 TTT
19427547 TATAAAGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
12 13 0.39
13 20 0.61
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (12 bp):
TTTGAAAAGTGC
Found at i:19427865 original size:30 final size:30
Alignment explanation
Indices: 19427829--19427890 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
19427819 TATTTTAAAT
*
19427829 AATTAGATATTAATACATTTGTATTATTTA
1 AATTAGATATTAACACATTTGTATTATTTA
19427859 AATTAGATATTAACACATTTGTATTATTTA
1 AATTAGATATTAACACATTTGTATTATTTA
19427889 AA
1 AA
19427891 AAATTTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (30 bp):
AATTAGATATTAACACATTTGTATTATTTA
Found at i:19431479 original size:28 final size:28
Alignment explanation
Indices: 19431422--19431500 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 28
19431412 ATAATAAATA
*
19431422 TTTTTATA-TTTTTAATTTTAAAATACTT
1 TTTTTAAATTTTTTAATTTTAAAATA-TT
19431450 TTTTTAAATTTTTTATATTTTAAAAT-TT
1 TTTTTAAATTTTTTA-ATTTTAAAATATT
*
19431478 TTTTAAAATACTTTTTTAATTTT
1 TTTT-TAA-A-TTTTTTAATTTT
19431501 TTTAATTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
28 13 0.30
29 8 0.18
30 16 0.36
31 7 0.16
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (28 bp):
TTTTTAAATTTTTTAATTTTAAAATATT
Found at i:19431509 original size:39 final size:40
Alignment explanation
Indices: 19431437--19431558 Score: 174
Period size: 39 Copynumber: 3.0 Consensus size: 40
19431427 ATATTTTTAA
* *
19431437 TTTTAAAATACTTTTTTTAAATTTTTTATATTTTAAAATTT
1 TTTTAAAATAC-TTTTTTAATTTTTTTATATTTTAAAATAT
19431478 TTTTAAAATACTTTTTTAATTTTTTTA-ATTTTAAAATAT
1 TTTTAAAATACTTTTTTAATTTTTTTATATTTTAAAATAT
*
19431517 TTTTAAAATACTTTTTTAATTTTTGTTTTAATTTTTAAAATA
1 TTTTAAAATACTTTTTTAATTTTT-TTAT-A-TTTTAAAATA
19431559 AATTTTTGGT
Statistics
Matches: 74, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
39 35 0.47
40 17 0.23
41 11 0.15
42 1 0.01
43 10 0.14
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (40 bp):
TTTTAAAATACTTTTTTAATTTTTTTATATTTTAAAATAT
Found at i:19444516 original size:24 final size:24
Alignment explanation
Indices: 19444484--19444529 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
19444474 ATATTCACCT
19444484 TTGAACACTCGGAATGTTATCCCG
1 TTGAACACTCGGAATGTTATCCCG
19444508 TTGAACACTCGGAATGTTATCC
1 TTGAACACTCGGAATGTTATCC
19444530 GTTATCGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (24 bp):
TTGAACACTCGGAATGTTATCCCG
Found at i:19444740 original size:102 final size:103
Alignment explanation
Indices: 19444570--19444811 Score: 396
Period size: 102 Copynumber: 2.4 Consensus size: 103
19444560 CCAGTGATTC
* * **
19444570 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATATGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAATAATACAGTGGAATCAGCACTTAGCAACC
*
19444635 ACCAATGAATCGGGGAATTAGCACTTAGCAACCCCTTG
66 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
*
19444673 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAA-AATACAGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAATAATACAGTGGAATCAGCACTTAGCAACC
19444737 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
66 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
* * *
19444775 GGGGAATCAGCACTTAGCAACCCGCTTTATATTCAAT
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAT
19444812 GTACTCCGGC
Statistics
Matches: 128, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
102 94 0.73
103 34 0.27
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAATAATACAGTGGAATCAGCACTTAGCAACC
ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:19452053 original size:33 final size:34
Alignment explanation
Indices: 19452000--19452124 Score: 114
Period size: 33 Copynumber: 3.7 Consensus size: 34
19451990 TTATCCGTTA
* * *
19452000 TCGGTGGATTCAGCAATTAGCAAACACCAGTGAT
1 TCGGTGGAATCAGCACTTAGCAAACACCAATGAT
* * *
19452034 TCGG-GGAATCAGCACTTAGCAACCCCTTTCACATTA-
1 TCGGTGGAATCAGCACTTAGCAAACAC---CA-ATGAT
* *
19452070 T-GGTGGAATCAGCACTTAGCAACCACCAATGAA
1 TCGGTGGAATCAGCACTTAGCAAACACCAATGAT
19452103 TCGG-GGAATCAGCACTTAGCAA
1 TCGGTGGAATCAGCACTTAGCAA
19452125 CCCCTTGGGG
Statistics
Matches: 76, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
32 3 0.04
33 39 0.51
34 6 0.08
35 2 0.03
36 24 0.32
37 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (34 bp):
TCGGTGGAATCAGCACTTAGCAAACACCAATGAT
Found at i:19452080 original size:36 final size:35
Alignment explanation
Indices: 19452034--19452232 Score: 165
Period size: 33 Copynumber: 5.8 Consensus size: 35
19452024 CACCAGTGAT
*
19452034 TCGGGGAATCAGCACTTAGCAACCCCTTTCACAT-TA
1 TCGGGGAATCAGCACTTAGCAACCCC-TTCA-ATGAA
*
19452070 T-GGTGGAATCAGCACTTAGCAACCAC--CAATGAA
1 TCGG-GGAATCAGCACTTAGCAACCCCTTCAATGAA
19452103 TCGGGGAATCAGCACTTAGCAACCCC-T---TG--
1 TCGGGGAATCAGCACTTAGCAACCCCTTCAATGAA
*
19452132 --GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAA
1 TCGGGGAATCAGCACTTAGCAA-CCCCTTCA-A--T-GAA
*
19452170 TACGGTGGAATCAGCACTTAGCAACCAC--CAATGAA
1 T-CGG-GGAATCAGCACTTAGCAACCCCTTCAATGAA
*
19452205 TCGGGGAATCAACACTTAGCAACCCCTT
1 TCGGGGAATCAGCACTTAGCAACCCCTT
19452233 GGGGGAATCA
Statistics
Matches: 134, Mismatches: 8, Indels: 43
0.72 0.04 0.23
Matches are distributed among these distances:
27 20 0.15
28 4 0.03
29 1 0.01
31 2 0.01
32 2 0.01
33 45 0.34
34 5 0.04
35 6 0.04
36 23 0.17
38 1 0.01
39 2 0.01
41 5 0.04
42 18 0.13
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.21
Consensus pattern (35 bp):
TCGGGGAATCAGCACTTAGCAACCCCTTCAATGAA
Found at i:19452113 original size:69 final size:70
Alignment explanation
Indices: 19451997--19452130 Score: 216
Period size: 69 Copynumber: 1.9 Consensus size: 70
19451987 ATGTTATCCG
* * *
19451997 TTATCGGTGGATTCAGCAATTAGCAAACACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTT
1 TTATCGGTGGAATCAGCAATTAGCAAACACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
19452062 TCACA
66 TCACA
* *
19452067 TTAT-GGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
1 TTATCGGTGGAATCAGCAATTAGCAAACACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
19452131 GGGGGAATCA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 55 0.93
70 4 0.07
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (70 bp):
TTATCGGTGGAATCAGCAATTAGCAAACACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
TCACA
Found at i:19452191 original size:102 final size:96
Alignment explanation
Indices: 19452036--19452260 Score: 378
Period size: 102 Copynumber: 2.3 Consensus size: 96
19452026 CCAGTGATTC
*
19452036 GGGGAATCAGCACTTAGCAACCCCTTTCACATTATGGTGGAATCAGCACTTAGCAACCACCAATG
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTATGGTGGAATCAGCACTTAGCAACCACCAATG
*
19452101 AATCGGGGAATCAGCACTTAGCAACCCCTTG
66 AATCGGGGAATCAACACTTAGCAACCCCTTG
19452132 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACA-TT---AT--GGTGGAATCAGCACTTAGCAACCA
19452197 CCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
60 CCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
19452234 GGGGAATCAGCACTTAGCAACCCCCTT
1 GGGGAATCAGCACTTAGCAACCCCCTT
19452261 TATATTCAAT
Statistics
Matches: 121, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
96 30 0.25
97 2 0.02
100 2 0.02
102 87 0.72
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (96 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTATGGTGGAATCAGCACTTAGCAACCACCAATG
AATCGGGGAATCAACACTTAGCAACCCCTTG
Found at i:19457756 original size:42 final size:43
Alignment explanation
Indices: 19457655--19457758 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
19457645 TCTCTAGATT
* * *
19457655 GTGTGCAATTCGAAATAGGGCCACACAGTCGTGTTGCCATACC
1 GTGTGCAATTCAAAATAGGGCCACACAGCCGTGTTGCCAGACC
* * * *
19457698 GTGTGCAATTCCAAATAGGGTCATAC-GACCGTGTTG-TAGACC
1 GTGTGCAATTCAAAATAGGGCCACACAG-CCGTGTTGCCAGACC
19457740 GTGTGCAATTCAAAATAGG
1 GTGTGCAATTCAAAATAGG
19457759 ATCACATGAT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 23 0.43
43 30 0.57
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (43 bp):
GTGTGCAATTCAAAATAGGGCCACACAGCCGTGTTGCCAGACC
Found at i:19457773 original size:42 final size:42
Alignment explanation
Indices: 19457655--19457773 Score: 123
Period size: 42 Copynumber: 2.8 Consensus size: 42
19457645 TCTCTAGATT
* * * *
19457655 GTGTGCAATTCGAAATAGGGCCACACAGTCGTGTTGCCATACC
1 GTGTGCAATTCAAAATAGGGTCACAGA-TCGTGTTGCCAGACC
* * * *
19457698 GTGTGCAATTCCAAATAGGGTCATACGACCGTGTTG-TAGACC
1 GTGTGCAATTCAAAATAGGGTCACA-GATCGTGTTGCCAGACC
*
19457740 GTGTGCAATTCAAAATAGGATCACATGATCGTGT
1 GTGTGCAATTCAAAATAGGGTCACA-GATCGTGT
19457774 CGCAAACTGT
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 33 0.52
43 29 0.46
44 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (42 bp):
GTGTGCAATTCAAAATAGGGTCACAGATCGTGTTGCCAGACC
Found at i:19460117 original size:68 final size:68
Alignment explanation
Indices: 19459994--19460155 Score: 236
Period size: 68 Copynumber: 2.4 Consensus size: 68
19459984 AACACGTGAA
* * *
19459994 AGTCTGCTAGGACATTAAACATGGGGATTACAGGTGTAAGACCATAACTCAACTATGGCAACCAA
1 AGTCTGCCAGGACATTAAACATGAGGATTACAGGTGTAAGACCATAACTCAACTATGGAAACCAA
19460059 TAG
66 TAG
* * * * *
19460062 AGTCCT-TCAGGACATTAGACATGAGGATTACAGGTGTAAGATCATAGCTCGACTATGGAAACCA
1 AGT-CTGCCAGGACATTAAACATGAGGATTACAGGTGTAAGACCATAACTCAACTATGGAAACCA
19460126 ATAG
65 ATAG
19460130 AGTCTGCCAGGACATTAAACATGAGG
1 AGTCTGCCAGGACATTAAACATGAGG
19460156 CATGATAAGT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
67 2 0.02
68 78 0.95
69 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (68 bp):
AGTCTGCCAGGACATTAAACATGAGGATTACAGGTGTAAGACCATAACTCAACTATGGAAACCAA
TAG
Found at i:19464433 original size:41 final size:41
Alignment explanation
Indices: 19464388--19464471 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
19464378 AATTAAAAAC
19464388 GTGTAATTCTCGTATCTAAAAAATGAACATCAATACTAGGG
1 GTGTAATTCTCGTATCTAAAAAATGAACATCAATACTAGGG
19464429 GTGTAATTCTCGTATCTAAAAAATGAACATCAATACTAGGG
1 GTGTAATTCTCGTATCTAAAAAATGAACATCAATACTAGGG
19464470 GT
1 GT
19464472 AAAAACCAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (41 bp):
GTGTAATTCTCGTATCTAAAAAATGAACATCAATACTAGGG
Found at i:19470448 original size:217 final size:217
Alignment explanation
Indices: 19470202--19470616 Score: 557
Period size: 217 Copynumber: 1.9 Consensus size: 217
19470192 AATTTCAGGG
* * * *
19470202 GGATAAGACTTACTTTCTTGGTCTGCTCCACTGCAACTTTAGGAAGATAAGACCT-GATATGATC
1 GGATAAGACCTACTTACTTAGTCTGCTCCACTGCAACTTCAGGAAGATAAGA-CTAGATATGATC
* * *
19470266 TGCTCTCTGCAACTTCAGAGAGATAAGATCAGTGGTTTTAATCCGCTCCACTACAA-CTTCAAGG
65 TGCTCTCTACAACTTCAGAGAGATAAGATCAGTGATTTTAATCCGATCCACTACAACCTT-AAGG
* *
19470330 AGATAGGATTATTGGCTTTAATTTGCTTCACTGCAA-CTTCAAGGAGATAAGATTCGCCATCTTC
129 AGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACCTT-AAGGAGATAAGATTCGCCATCTTC
*
19470394 AGTCTGTCTCACTGCAACTTTAGAA
193 AATCTGTCTCACTGCAACTTTAGAA
* * *
19470419 GGATAAGACCTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCT
1 GGATAAGACCTACTTACTTAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGATATGATCT
* * * ** ** *
19470484 GCTCTCTACAACTTTAGAGAGATAAGATCTGTTATTTTAATCCGATCTGCTGTAACCTTAGGGAG
66 GCTCTCTACAACTTCAGAGAGATAAGATCAGTGATTTTAATCCGATCCACTACAACCTTAAGGAG
* * * *
19470549 ATAGGATTATTGGCTTTAATCTGCTCCACTGTAACCTTACGGAGATAAGATTTGCCGTCTTCAAT
131 ATAGGATTATTGGCTTTAATCTGCTCCACTGCAACCTTAAGGAGATAAGATTCGCCATCTTCAAT
19470614 CTG
196 CTG
19470617 CTCCACTACT
Statistics
Matches: 170, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
216 2 0.01
217 162 0.95
218 6 0.04
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (217 bp):
GGATAAGACCTACTTACTTAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGATATGATCT
GCTCTCTACAACTTCAGAGAGATAAGATCAGTGATTTTAATCCGATCCACTACAACCTTAAGGAG
ATAGGATTATTGGCTTTAATCTGCTCCACTGCAACCTTAAGGAGATAAGATTCGCCATCTTCAAT
CTGTCTCACTGCAACTTTAGAA
Found at i:19470468 original size:44 final size:44
Alignment explanation
Indices: 19470177--19470471 Score: 137
Period size: 44 Copynumber: 6.8 Consensus size: 44
19470167 TTGTTTATTC
* * * * * * *
19470177 AGTCTGCCCCACTACAATTTCAGGGGGATAAGACTTACTTTCTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTTACTT
* * * * *
19470221 GGTCTGCTCCACTGCAACTTTAGGAAGATAAGACCTG-ATA-TG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTTACTT
* * * *
19470263 A-TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCAGTGGTT--TT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C-CTGCTTACTT
* * * * * ** *
19470305 AATCCGCTCCACTACAACTTCAAGGAGATAGGA--TTATTGGCTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTT-AC-TT
* * * * * *
19470349 AATTTGCTTCACTGCAACTTCAAGGAGATAAGA-TTCGC-CATCTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCT-GCTTA-CTT
* *
19470393 CAGTCTG-TCTCACTGCAACTTTA-GAAGGATAAGACCTGCTTACTT
1 -AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACCTGCTTACTT
19470438 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
19470472 TAGATGTGAT
Statistics
Matches: 186, Mismatches: 46, Indels: 38
0.69 0.17 0.14
Matches are distributed among these distances:
40 23 0.12
41 7 0.04
42 5 0.03
43 7 0.04
44 108 0.58
45 34 0.18
46 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTTACTT
Found at i:19470795 original size:44 final size:44
Alignment explanation
Indices: 19470746--19471078 Score: 264
Period size: 44 Copynumber: 7.6 Consensus size: 44
19470736 TGTCTTCGAT
* *
19470746 CTACTCCACCACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
1 CTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAAC
** * * ** * * *
19470790 CTACTCCACTGTTGCTCAAGGAGATAAG-GCTGGGGA-CTTCGAT
1 CTACTCCACTACTGCTCAGGGAGATAAGATCT-GTAATTTTCAAC
* * *
19470833 CTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
1 CTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAAC
* * ** * * *
19470877 CTACTCCACTGCTGCTCAGGGAGATAAG-GCTGGGGA-CTTCGAT
1 CTACTCCACTACTGCTCAGGGAGATAAGATCT-GTAATTTTCAAC
* *
19470920 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
1 CTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAAC
* * * ** * * *
19470964 CTACTCCACTGCTACTCAGGGAGATAAG-GCTGGGGA-CTTCGAT
1 CTACTCCACTACTGCTCAGGGAGATAAGATCT-GTAATTTTCAAC
* * * *
19471007 ATGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
1 CTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAAC
* *
19471051 CTATTCCACTGCTGCTCAGGGAGATAAG
1 CTACTCCACTACTGCTCAGGGAGATAAG
19471079 GCTGGGGACT
Statistics
Matches: 212, Mismatches: 68, Indels: 18
0.71 0.23 0.06
Matches are distributed among these distances:
43 95 0.45
44 117 0.55
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (44 bp):
CTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAAC
Found at i:19470848 original size:43 final size:43
Alignment explanation
Indices: 19470793--19471121 Score: 250
Period size: 43 Copynumber: 7.6 Consensus size: 43
19470783 TTTCAACCTA
** *
19470793 CTCCACTGTTGCTCAAGGAGATAAGGCTGGGGACTTCGATCTG
1 CTCCACTACTGCTCAGGGAGATAAGGCTGGGGACTTCGATCTG
* * * ** * * * *
19470836 CTCCACTATTGCTTAGGGAGATAAGATCT-GTAATTTTCAACCTA
1 CTCCACTACTGCTCAGGGAGATAAG-GCTGGGGA-CTTCGATCTG
*
19470880 CTCCACTGCTGCTCAGGGAGATAAGGCTGGGGACTTCGATCTG
1 CTCCACTACTGCTCAGGGAGATAAGGCTGGGGACTTCGATCTG
* * ** * * * *
19470923 CTCCACTACTGCTTAGGGAGATAAGATCT-GTAATTTTCAACCTA
1 CTCCACTACTGCTCAGGGAGATAAG-GCTGGGGA-CTTCGATCTG
* * *
19470967 CTCCACTGCTACTCAGGGAGATAAGGCTGGGGACTTCGATATG
1 CTCCACTACTGCTCAGGGAGATAAGGCTGGGGACTTCGATCTG
* * * ** * * * *
19471010 CTCCATTACTGCTTAGGGAGATAAGATCT-GTAATTTTCAACCTA
1 CTCCACTACTGCTCAGGGAGATAAG-GCTGGGGA-CTTCGATCTG
* * *
19471054 TTCCACTGCTGCTCAGGGAGATAAGGCTGGGGACTTCGATATG
1 CTCCACTACTGCTCAGGGAGATAAGGCTGGGGACTTCGATCTG
*
19471097 CTCCACTACTGCTTAGGGAGATAAG
1 CTCCACTACTGCTCAGGGAGATAAG
19471122 ATCTATGATT
Statistics
Matches: 210, Mismatches: 67, Indels: 18
0.71 0.23 0.06
Matches are distributed among these distances:
43 116 0.55
44 94 0.45
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (43 bp):
CTCCACTACTGCTCAGGGAGATAAGGCTGGGGACTTCGATCTG
Found at i:19471149 original size:87 final size:87
Alignment explanation
Indices: 19470739--19471125 Score: 684
Period size: 87 Copynumber: 4.4 Consensus size: 87
19470729 AGGCTAGTGT
* * *
19470739 CTTCGATCTACTCCACCACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGTTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
*
19470804 CTCAAGGAGATAAGGCTGGGGA
66 CTCAGGGAGATAAGGCTGGGGA
*
19470826 CTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
19470891 CTCAGGGAGATAAGGCTGGGGA
66 CTCAGGGAGATAAGGCTGGGGA
*
19470913 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTA
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
19470978 CTCAGGGAGATAAGGCTGGGGA
66 CTCAGGGAGATAAGGCTGGGGA
* * *
19471000 CTTCGATATGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
19471065 CTCAGGGAGATAAGGCTGGGGA
66 CTCAGGGAGATAAGGCTGGGGA
*
19471087 CTTCGATATGCTCCACTACTGCTTAGGGAGATAAGATCT
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
19471126 ATGATTTTTA
Statistics
Matches: 288, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 288 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (87 bp):
CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
CTCAGGGAGATAAGGCTGGGGA
Found at i:19490391 original size:68 final size:68
Alignment explanation
Indices: 19490268--19490426 Score: 194
Period size: 68 Copynumber: 2.3 Consensus size: 68
19490258 AAAACGGGGA
* * * * * * *
19490268 AGTCCGTTAGAACATTAAAAATTGGGATTACAGGTGTAAGACTATAGCTCAACTATGACATCCAC
1 AGTCCGTCAGGACATTAAAAATGGGGATTACAAGTGTAAAACTATAGCTCAACTATGACAACCAA
19490333 TAG
66 TAG
* * * * *
19490336 AGTCTG-CTAGGACATTAAACATGGGGATTACAAGTGTAAAACTGTAGCTCCACTATGGCAACCA
1 AGTCCGTC-AGGACATTAAAAATGGGGATTACAAGTGTAAAACTATAGCTCAACTATGACAACCA
19490400 ATAG
65 ATAG
19490404 AGTCCGTCAGGACATTAAAAATG
1 AGTCCGTCAGGACATTAAAAATG
19490427 AGTTATAATG
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
68 74 0.99
69 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (68 bp):
AGTCCGTCAGGACATTAAAAATGGGGATTACAAGTGTAAAACTATAGCTCAACTATGACAACCAA
TAG
Found at i:19490553 original size:27 final size:26
Alignment explanation
Indices: 19490495--19490554 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
19490485 ATAAATGTGC
* **
19490495 GTAGTCTGCAAGGACAATAATCAGGG
1 GTAGTCCGCAAGGACAATAAAAAGGG
*
19490521 GATAGTCCGCCAGGACAATAAAAATGGG
1 G-TAGTCCGCAAGGACAATAAAAA-GGG
19490549 GTAGTC
1 GTAGTC
19490555 ATGATAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.04
27 23 0.82
28 4 0.14
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (26 bp):
GTAGTCCGCAAGGACAATAAAAAGGG
Found at i:19491418 original size:27 final size:27
Alignment explanation
Indices: 19491367--19491425 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
19491357 TAAATGTGCG
**
19491367 TAGTCCGCAAGGACAATAATCATGGGA
1 TAGTCCGCAAGGACAATAAAAATGGGA
* *
19491394 TAGTCCGCTAGGACAATAAAAATGGGG
1 TAGTCCGCAAGGACAATAAAAATGGGA
19491421 TAGTC
1 TAGTC
19491426 ATGATAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (27 bp):
TAGTCCGCAAGGACAATAAAAATGGGA
Found at i:19491511 original size:871 final size:889
Alignment explanation
Indices: 19490333--19492124 Score: 2990
Period size: 871 Copynumber: 2.0 Consensus size: 889
19490323 TGACATCCAC
19490333 TAGAGTCTGCTAGGACATTAAACATGGGGATTACAAGTGTAAAACTGTAGCTCCACTATGGCAAC
1 TAGAGTCTGCTAGGACATTAAACATGGGGATTACAAGTGTAAAACTGTAGCTCCACTATGGCAAC
19490398 CAATAGAGTCCGTCAGGACATTAAAAATGAGTTATAATGAGTAAGATCATAACTCGGGTATGGCA
66 CAATAGAGTCCGTCAGGACATTAAAAATGAGTTATAATGAGTAAGATCATAACTCGGGTATGGCA
*
19490463 ACATATGGAGTTCGTCGAGACAATAAATGTGCGTAGTCTGCAAGGACAATAATCAGGGGATAGTC
131 ACATATGGAGTTCGTCGAGACAATAAATGTGCGTAGTCCGCAAGGACAATAATCAGGGGATAGTC
19490528 CGCCAGGACAATAAAAATGGGGTAGTCATGATAATAGGTATATGAAAACGAAGTTAAAGGTTTTG
196 CGCCAGGACAATAAAAATGGGGTAGTCATGATAATAGGTATATGAAAACGAAGTTAAAGGTTTTG
19490593 AAACCAGTTTAGGGGTTTTGCATGTTTCTGGAAAATTAAGTTTTAAGCTGAGAATGTTGAGTGTA
261 AAACCAGTTTAGGGGTTTTGCATGTTTCTGGAAAATTAAGTTTTAAGCTGAGAATGTTGAGTGTA
19490658 ACTCATGGTTTTGGTTATAGTCATTAGCTTTCAAAAGAATGAAAGCTCTGGCATTCAAAAAAACT
326 ACTCATGGTTTTGGTTATAGTCATTAGCTTTCAAAAGAATGAAAGCTCTGGCATTCAAAAAAACT
*
19490723 AAACTGATAAGGCAAAAAAGAATCAGGTGAGTGTGTCGGTATATG-AA-GG-GA-AAT-TAT-TG
391 AAACTGATAAGGCAAAAAAGAATCAGGTGAGTGTGTCGGCATATGAAAGGGTGATAATGTATATG
*
19490782 -A-C-G-GG-AT-AG-A-TGCA-G-TT-GG-GATTGGGAAATGAGAATTTTTGTTAGATACCTCC
456 TATCTGTGGAATGAGTACTGAAGGATTGGGAGATTGGGAAATGAGAATTTTTGTTAGATACCTCC
19490835 ATACAGAGTTGTTGTGTGCAATCCATGATGTATAAAGCTCTGAGCCTTTAAGGAGGGGACACTTT
521 ATACAGAGTTGTTGTGTGCAATCCATGATGTATAAAGCTCTGAGCCTTTAAGGAGGGGACACTTT
19490900 GGTGTTCGAGCATCAAGGTATAAGAATGCTAAAATAGAGGAAAGAGCGAATGAATAGGAGAATGA
586 GGTGTTCGAGCATCAAGGTATAAGAATGCTAAAATAGAGGAAAGAGCGAATGAATAGGAGAATGA
19490965 AATTTCGTTACGATACCACCATATAGTTTTGCTAAATACAAACCGTGATGTGTGAAGCTCCGAGC
651 AATTTCGTTACGATACCACCATATAGTTTTGCTAAATACAAACCGTGATGTGTGAAGCTCCGAGC
* * *
19491030 ATTGTGAGGTGGCATTTCGGTGTTCGGGTATCAAGGTAAAATGTACAAAGGAATGATATTGACTG
716 ATTGTGAGGTGGCATTTCGGTGTTCGAGTATCAAGGTAAAATGTAAAAAGGAATGATATCGACTG
19491095 GTCCTTCGAGGTGACACCATGACATTGATATTTAAGTTCCATAAAGCAACACCTAACGACGGTTA
781 GTCCTTCGAGGTGACACCATGACATTGATATTTAAGTTCCATAAAGCAACACCTAACGACGGTTA
19491160 ACAGGCTCTATGGGGTGACATCGCGATGGCAGTAAAGTCACCAA
846 ACAGGCTCTATGGGGTGACATCGCGATGGCAGTAAAGTCACCAA
19491204 TAGAGTCTGCTAGGACATTAAACATGGGGATTACAAGTGTAAAACTGTAGCTCCACTATGGCAAC
1 TAGAGTCTGCTAGGACATTAAACATGGGGATTACAAGTGTAAAACTGTAGCTCCACTATGGCAAC
*
19491269 CAATAGAGTCCGTCAGGACATTAAAAATGGGTTATAATGAGTAAGATCATAACTCGGGTATGGCA
66 CAATAGAGTCCGTCAGGACATTAAAAATGAGTTATAATGAGTAAGATCATAACTCGGGTATGGCA
*
19491334 ACATATGGAGTTCGTCGAGACAATAAATGTGCGTAGTCCGCAAGGACAATAATCATGGGATAGTC
131 ACATATGGAGTTCGTCGAGACAATAAATGTGCGTAGTCCGCAAGGACAATAATCAGGGGATAGTC
* *
19491399 CGCTAGGACAATAAAAATGGGGTAGTCATGATAATAGGTATATGAAAACGAAGTTAAGGGTTTTG
196 CGCCAGGACAATAAAAATGGGGTAGTCATGATAATAGGTATATGAAAACGAAGTTAAAGGTTTTG
19491464 AAACCAGTTTAGGGGTTTTGCATGTTTCTGGAAAATTAAGTTTTAAGCTGAGAATGTTGAGTGTA
261 AAACCAGTTTAGGGGTTTTGCATGTTTCTGGAAAATTAAGTTTTAAGCTGAGAATGTTGAGTGTA
19491529 ACTCATGGTTTTGGTTATAGTCATTAGCTTTCAAAAGAATGAAAGCTCTGGCATTCAAAAAAACT
326 ACTCATGGTTTTGGTTATAGTCATTAGCTTTCAAAAGAATGAAAGCTCTGGCATTCAAAAAAACT
*
19491594 AAACTGATAAGGCGAAAAAGAATCAGGTGAGTGTGTCGGCATATGAAAAGGGTCATGATAATAGG
391 AAACTGATAAGGCAAAAAAGAATCAGGTGAGTGTGTCGGCATATG-AAAGGG---TGATAAT--G
19491659 TATATGAATTTCATGTCTGTGGCAATGGAGTACTGAAGGGAAATTATTGACGGGATAGATGTAGT
450 TATATG----T-A--TCTGTGG-AAT-GAGTACT-----G-----A---A--GGAT---TG--G-
19491724 TGAGATTGGGAAATGAGAATTTTTGTTAGATACCTCCATACAGAGTTGTTGTGTGCAATCCATGA
485 -GAGATTGGGAAATGAGAATTTTTGTTAGATACCTCCATACAGAGTTGTTGTGTGCAATCCATGA
19491789 TGTATAAAGCTCTGAGCCTTTAAGGAGGGGACACTTTGGTGTTCGAGCATCAAGGTATAAGAATG
549 TGTATAAAGCTCTGAGCCTTTAAGGAGGGGACACTTTGGTGTTCGAGCATCAAGGTATAAGAATG
* *
19491854 CTAAAATGGAGGAAAGAGCGAATGAATAGGAGAATGAAATTTCGTTATGATACCACCATATAGTT
614 CTAAAATAGAGGAAAGAGCGAATGAATAGGAGAATGAAATTTCGTTACGATACCACCATATAGTT
* *
19491919 TTTCTAAATACAAATCGTGATGTGTGAAGCTCCGAGCATTGTGAGGTGGCATTTCGGTGTTCGAG
679 TTGCTAAATACAAACCGTGATGTGTGAAGCTCCGAGCATTGTGAGGTGGCATTTCGGTGTTCGAG
19491984 TATCAAGGTAAAATGTAAAAAGGAATGATATCGACTGGTCCTTCGAGGTGACACCATGACATTGA
744 TATCAAGGTAAAATGTAAAAAGGAATGATATCGACTGGTCCTTCGAGGTGACACCATGACATTGA
19492049 TATTTAAGTTCCATAAAGCAACACCTAACGACGGTTAACAGGCTCTATGGGGTGACATCGCGATG
809 TATTTAAGTTCCATAAAGCAACACCTAACGACGGTTAACAGGCTCTATGGGGTGACATCGCGATG
19492114 GCAGTAAAGTC
874 GCAGTAAAGTC
19492125 CTTCGTGACA
Statistics
Matches: 851, Mismatches: 15, Indels: 55
0.92 0.02 0.06
Matches are distributed among these distances:
871 428 0.50
873 2 0.00
874 2 0.00
878 2 0.00
879 3 0.00
882 3 0.00
883 2 0.00
889 1 0.00
892 1 0.00
893 1 0.00
894 2 0.00
896 2 0.00
898 2 0.00
899 1 0.00
900 1 0.00
905 1 0.00
913 1 0.00
916 1 0.00
917 1 0.00
920 1 0.00
923 1 0.00
925 1 0.00
926 391 0.46
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (889 bp):
TAGAGTCTGCTAGGACATTAAACATGGGGATTACAAGTGTAAAACTGTAGCTCCACTATGGCAAC
CAATAGAGTCCGTCAGGACATTAAAAATGAGTTATAATGAGTAAGATCATAACTCGGGTATGGCA
ACATATGGAGTTCGTCGAGACAATAAATGTGCGTAGTCCGCAAGGACAATAATCAGGGGATAGTC
CGCCAGGACAATAAAAATGGGGTAGTCATGATAATAGGTATATGAAAACGAAGTTAAAGGTTTTG
AAACCAGTTTAGGGGTTTTGCATGTTTCTGGAAAATTAAGTTTTAAGCTGAGAATGTTGAGTGTA
ACTCATGGTTTTGGTTATAGTCATTAGCTTTCAAAAGAATGAAAGCTCTGGCATTCAAAAAAACT
AAACTGATAAGGCAAAAAAGAATCAGGTGAGTGTGTCGGCATATGAAAGGGTGATAATGTATATG
TATCTGTGGAATGAGTACTGAAGGATTGGGAGATTGGGAAATGAGAATTTTTGTTAGATACCTCC
ATACAGAGTTGTTGTGTGCAATCCATGATGTATAAAGCTCTGAGCCTTTAAGGAGGGGACACTTT
GGTGTTCGAGCATCAAGGTATAAGAATGCTAAAATAGAGGAAAGAGCGAATGAATAGGAGAATGA
AATTTCGTTACGATACCACCATATAGTTTTGCTAAATACAAACCGTGATGTGTGAAGCTCCGAGC
ATTGTGAGGTGGCATTTCGGTGTTCGAGTATCAAGGTAAAATGTAAAAAGGAATGATATCGACTG
GTCCTTCGAGGTGACACCATGACATTGATATTTAAGTTCCATAAAGCAACACCTAACGACGGTTA
ACAGGCTCTATGGGGTGACATCGCGATGGCAGTAAAGTCACCAA
Found at i:19492387 original size:67 final size:67
Alignment explanation
Indices: 19492202--19492453 Score: 223
Period size: 67 Copynumber: 3.8 Consensus size: 67
19492192 CCGTTGGGAT
* * * * * * *
19492202 AGTAAACACAGGGTATGTTGTGTAAGATCATGGCTCGA-CTGTGG-TGACATAAACAGTCCAT-C
1 AGTAAACACAGGGTATGTTGTGTAAGACCATAGCTC-ATCTATGGAAG-CATAGAGAGTCCATGG
19492264 AGGAC
64 A-GAC
* * *
19492269 AGTAAACACAGGGTATGTTGTCTAAGACCATAGCTCGA-CTATAGCAA-CATAGAGAGTCCGTCG
1 AGTAAACACAGGGTATGTTGTGTAAGACCATAGCTC-ATCTAT-GGAAGCATAGAGAGTCCAT-G
19492332 GA-AC
63 GAGAC
* * * *
19492336 AGTAAACACGGGGTATGATGTGTAAGACCATAGCTCATTTATGGAAGCATAGAGAGTCCATTGAG
1 AGTAAACACAGGGTATGTTGTGTAAGACCATAGCTCATCTATGGAAGCATAGAGAGTCCATGGAG
19492401 AC
66 AC
* * * *
19492403 AG-AAA-ACATGGGTCTGTTCTGTAAGACCATGGCTCATCTATGGTAGCATAG
1 AGTAAACACA-GGGTATGTTGTGTAAGACCATAGCTCATCTATGGAAGCATAG
19492454 TGAATTCGTT
Statistics
Matches: 153, Mismatches: 24, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
65 2 0.01
66 45 0.29
67 104 0.68
68 1 0.01
69 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (67 bp):
AGTAAACACAGGGTATGTTGTGTAAGACCATAGCTCATCTATGGAAGCATAGAGAGTCCATGGAG
AC
Found at i:19492475 original size:66 final size:66
Alignment explanation
Indices: 19492356--19492496 Score: 165
Period size: 66 Copynumber: 2.1 Consensus size: 66
19492346 GGGTATGATG
* * * * * *
19492356 TGTAAGACCATAGCTCATTTATGGAAGCATAGAGAGTCCATTGAGACAGAAAACATGGGTCTGTT
1 TGTAAGACCATAGCTCATCTATGGAAGCATAGAGAATCCATTGAGACAAAAAACATAGGTATATT
*
19492421 C
66 A
* * * * * *
19492422 TGTAAGACCATGGCTCATCTATGGTAGCATAGTGAATTCGTTGGGACAAAAAACATAGGTATATT
1 TGTAAGACCATAGCTCATCTATGGAAGCATAGAGAATCCATTGAGACAAAAAACATAGGTATATT
19492487 A
66 A
19492488 TGTAAGACC
1 TGTAAGACC
19492497 GAAGCTCGAT
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (66 bp):
TGTAAGACCATAGCTCATCTATGGAAGCATAGAGAATCCATTGAGACAAAAAACATAGGTATATT
A
Found at i:19494308 original size:71 final size:70
Alignment explanation
Indices: 19494154--19494314 Score: 198
Period size: 71 Copynumber: 2.3 Consensus size: 70
19494144 TTATCAACTC
* * *
19494154 TTAGAACCGAATGTATATTCACTATAAACATGAATAGCCGAATGCTTATATACATATATGCTTAA
1 TTAGAACCAAATGTATATACACTATAAACATGAATAGCCGAATCCTTATATACATATA-GCTTAA
*
19494219 CATATA
65 CAAATA
** * * *
19494225 TTAGCTCAAAATGTATATACACTTTGAACATGAATAGCCGAATCCATATATATACATATA-CTTA
1 TTAGAACCAAATGTATATACACTATAAACATGAATAGCCGAATCC-T-TATATACATATAGCTTA
19494289 ACAAATA
64 ACAAATA
*
19494296 TTATAACCAAATGTATATA
1 TTAGAACCAAATGTATATA
19494315 TGTATTTATC
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
71 62 0.83
72 1 0.01
73 12 0.16
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (70 bp):
TTAGAACCAAATGTATATACACTATAAACATGAATAGCCGAATCCTTATATACATATAGCTTAAC
AAATA
Found at i:19494369 original size:35 final size:35
Alignment explanation
Indices: 19494297--19494376 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
19494287 TAACAAATAT
* * * *
19494297 TATAACCAAATGTATATATGTATTTATCACCTGCA
1 TATAACCAAATGCATATATGTACTTAACACCTACA
* **
19494332 TATATCCAAATGCATATATGTACTTAACATGTACA
1 TATAACCAAATGCATATATGTACTTAACACCTACA
*
19494367 TATAATCAAA
1 TATAACCAAA
19494377 CCTATACAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.35
Consensus pattern (35 bp):
TATAACCAAATGCATATATGTACTTAACACCTACA
Found at i:19494810 original size:41 final size:41
Alignment explanation
Indices: 19494765--19494952 Score: 315
Period size: 41 Copynumber: 4.6 Consensus size: 41
19494755 ACCAACAATT
* *
19494765 AGCCTGTTAGACGTAAAGTCTGAAATATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
* *
19494806 AGCCTGCTAGACATAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
*
19494847 AGCCTGCTAGACGTAAAGT-TCGAAATATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCT-GAAACATTTCACCGGCATCA
19494888 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
19494929 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
19494953 TCATCTTACT
Statistics
Matches: 137, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
40 1 0.01
41 135 0.99
42 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:19504068 original size:20 final size:20
Alignment explanation
Indices: 19504043--19504088 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
19504033 TTGTTAAGTT
*
19504043 AAAAGAAGATAAAGTAAAGG
1 AAAAGAAGAGAAAGTAAAGG
*
19504063 AAAAGAAGAGAAAGTAAATG
1 AAAAGAAGAGAAAGTAAAGG
19504083 AAAAGA
1 AAAAGA
19504089 GAAGTGAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (20 bp):
AAAAGAAGAGAAAGTAAAGG
Found at i:19507425 original size:76 final size:76
Alignment explanation
Indices: 19507306--19507663 Score: 371
Period size: 76 Copynumber: 4.7 Consensus size: 76
19507296 CCAACGATAG
* * ** * ** * ** * *
19507306 GTGTGCCCTGCACTAGTCGGATAAACTGATAATGTTTTACGCCCAGTGCTAGTTGGATAAACCGA
1 GTGTGCCCAGCACTAGTTGGATAAACCAACAATGAGTTGCGCCCAACGCTAGTCGGATAAACTGA
19507371 CGATATCAAAT
66 CGATATCAAAT
* ** * *
19507382 GTGTGCCCAGCACTA-TTCAGATAAACTGACAATGAGTTGCGCCCAACGTTAGTCGGGTAAACTG
1 GTGTGCCCAGCACTAGTT-GGATAAACCAACAATGAGTTGCGCCCAACGCTAGTCGGATAAACTG
*
19507446 ACAATATCAAAT
65 ACGATATCAAAT
* ** * *
19507458 GTGTGCCCAGCGCTAGTTGGATGTACCAACAATGAGTTGTGCCCAACGCTAGTCGGGTAAA-TAG
1 GTGTGCCCAGCACTAGTTGGATAAACCAACAATGAGTTGCGCCCAACGCTAGTCGGATAAACT-G
*
19507522 ATGATATCAAAT
65 ACGATATCAAAT
*** *
19507534 GTGTGCCCAGCACTAGTTGGATGTTCCAATAATGAGTTGCGCCCAACGCTAGTC-GAGTAAACTG
1 GTGTGCCCAGCACTAGTTGGATAAACCAACAATGAGTTGCGCCCAACGCTAGTCGGA-TAAACTG
19507598 ACGATATCAAAT
65 ACGATATCAAAT
* ** * *
19507610 GTGTGCCCAACACTAGTTGGATGTACTAACAATGAGTTGCACCCAACGCTAGTC
1 GTGTGCCCAGCACTAGTTGGATAAACCAACAATGAGTTGCGCCCAACGCTAGTC
19507664 AAATAAACCG
Statistics
Matches: 242, Mismatches: 35, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
75 3 0.01
76 236 0.98
77 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (76 bp):
GTGTGCCCAGCACTAGTTGGATAAACCAACAATGAGTTGCGCCCAACGCTAGTCGGATAAACTGA
CGATATCAAAT
Found at i:19507671 original size:76 final size:76
Alignment explanation
Indices: 19507363--19507663 Score: 408
Period size: 76 Copynumber: 4.0 Consensus size: 76
19507353 GCTAGTTGGA
* * ** **
19507363 TAAACCGACGATATCAAATGTGTGCCCAGCACTA-TTCAGATAAACTGACAATGAGTTGCGCCCA
1 TAAACTGACGATATCAAATGTGTGCCCAGCACTAGTT-GGATGTACCAACAATGAGTTGCGCCCA
* *
19507427 ACGTTAGTCGGG
65 ACGCTAGTCGAG
* * *
19507439 TAAACTGACAATATCAAATGTGTGCCCAGCGCTAGTTGGATGTACCAACAATGAGTTGTGCCCAA
1 TAAACTGACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTACCAACAATGAGTTGCGCCCAA
*
19507504 CGCTAGTCGGG
66 CGCTAGTCGAG
* * *
19507515 TAAA-TAGATGATATCAAATGTGTGCCCAGCACTAGTTGGATGTTCCAATAATGAGTTGCGCCCA
1 TAAACT-GACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTACCAACAATGAGTTGCGCCCA
19507579 ACGCTAGTCGAG
65 ACGCTAGTCGAG
* * *
19507591 TAAACTGACGATATCAAATGTGTGCCCAACACTAGTTGGATGTACTAACAATGAGTTGCACCCAA
1 TAAACTGACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTACCAACAATGAGTTGCGCCCAA
19507656 CGCTAGTC
66 CGCTAGTC
19507664 AAATAAACCG
Statistics
Matches: 199, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
75 1 0.01
76 195 0.98
77 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (76 bp):
TAAACTGACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTACCAACAATGAGTTGCGCCCAA
CGCTAGTCGAG
Found at i:19508471 original size:40 final size:40
Alignment explanation
Indices: 19508417--19508512 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
19508407 CGTTAGGACA
** * * *
19508417 AAAACGCCGGTAAAAATCGAGCATTAGTAGCGCTTGTGAG
1 AAAACGCCACTAAAAATCGAGCATTAGTAGCGATTCTAAG
* * * *
19508457 AAAGCGCCACTAAAAATTGAGCTTTAGTGGCGATTCTAAG
1 AAAACGCCACTAAAAATCGAGCATTAGTAGCGATTCTAAG
*
19508497 AAAACGCTACTAAAAA
1 AAAACGCCACTAAAAA
19508513 AATGCATTAG
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.21
Consensus pattern (40 bp):
AAAACGCCACTAAAAATCGAGCATTAGTAGCGATTCTAAG
Found at i:19508784 original size:41 final size:41
Alignment explanation
Indices: 19508598--19508867 Score: 264
Period size: 41 Copynumber: 6.5 Consensus size: 41
19508588 GGGCTTTAAT
* * ** *
19508598 GGCGTTTTTATAT-TAGCGCCGCTAATGCT-GTGACTTTTAGT
1 GGCGTTTTTA-ATGAAGCGCCGCTAATGTTAG-GGTTTTTAGC
* *
19508639 GGCGTTTTTAA-GTATGCGCCGCTAATGGTAGGGTGTTTTAGC
1 GGCGTTTTTAATG-AAGCGCCGCTAATGTTAGGGT-TTTTAGC
* * * *
19508681 AGCATTTTTAATGAAGCGCCGCTAATGTTACGGTTTTTAGT
1 GGCGTTTTTAATGAAGCGCCGCTAATGTTAGGGTTTTTAGC
* *
19508722 GGTGTTTTT-TTGGGAAGCGCCGCTAATGTTAGGGTTTTTAGC
1 GGCGTTTTTAAT--GAAGCGCCGCTAATGTTAGGGTTTTTAGC
* *
19508764 GGCGTTTTTAATGAAGCGCCGCTAAAGTTAAGGTTTTTAGC
1 GGCGTTTTTAATGAAGCGCCGCTAATGTTAGGGTTTTTAGC
* *
19508805 GGCGTTTTTTGA-GAAGCGCCGCTAATGTTAGGGGTTTTAGC
1 GGCG-TTTTTAATGAAGCGCCGCTAATGTTAGGGTTTTTAGC
*
19508846 GGCGTTTTT-GTAGAAGCGCCGC
1 GGCGTTTTTAAT-GAAGCGCCGC
19508868 AAAAAACATT
Statistics
Matches: 191, Mismatches: 27, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
40 7 0.04
41 107 0.56
42 75 0.39
43 2 0.01
ACGTcount: A:0.19, C:0.15, G:0.30, T:0.37
Consensus pattern (41 bp):
GGCGTTTTTAATGAAGCGCCGCTAATGTTAGGGTTTTTAGC
Found at i:19509008 original size:23 final size:25
Alignment explanation
Indices: 19508963--19509009 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
19508953 AAAAAAAAAT
*
19508963 AACACATAGAAATAATTTGAAATAA
1 AACACATAGAAATAATTTAAAATAA
*
19508988 AACACATGGAAA-AA-TTAAAATA
1 AACACATAGAAATAATTTAAAATA
19509010 CTATTATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 2 0.10
25 11 0.55
ACGTcount: A:0.62, C:0.09, G:0.09, T:0.21
Consensus pattern (25 bp):
AACACATAGAAATAATTTAAAATAA
Found at i:19509939 original size:23 final size:23
Alignment explanation
Indices: 19509928--19509977 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
19509918 GTTCTTATAT
19509928 ATTTGTAAAATATATAATAATAA
1 ATTTGTAAAATATATAATAATAA
19509951 ATTTGTAAAATATATAATAATAA
1 ATTTGTAAAATATATAATAATAA
19509974 ATTT
1 ATTT
19509978 AATATATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (23 bp):
ATTTGTAAAATATATAATAATAA
Found at i:19510331 original size:25 final size:24
Alignment explanation
Indices: 19510286--19510332 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
19510276 TTTAAGATAT
* * *
19510286 TTTAAAGATGTATAGTTTATATTA
1 TTTAAAGATATATAATATATATTA
19510310 TTTAAGAGATATATAATATATAT
1 TTTAA-AGATATATAATATATAT
19510333 ATAGATCACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 5 0.26
25 14 0.74
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.47
Consensus pattern (24 bp):
TTTAAAGATATATAATATATATTA
Found at i:19511733 original size:24 final size:24
Alignment explanation
Indices: 19511706--19511763 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
19511696 AAGCTCATTT
19511706 TTCCCCTCAAAATTTTCCCCAAAA
1 TTCCCCTCAAAATTTTCCCCAAAA
* *
19511730 TTCCCCTCCAATTTTTCCCCAAAA
1 TTCCCCTCAAAATTTTCCCCAAAA
19511754 TTCCCC-CAAA
1 TTCCCCTCAAA
19511764 TCTAGAACCC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 3 0.10
24 28 0.90
ACGTcount: A:0.29, C:0.41, G:0.00, T:0.29
Consensus pattern (24 bp):
TTCCCCTCAAAATTTTCCCCAAAA
Found at i:19512158 original size:12 final size:12
Alignment explanation
Indices: 19512141--19512165 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19512131 AGTTTGAAAC
19512141 TGTTCATAATTT
1 TGTTCATAATTT
19512153 TGTTCATAATTT
1 TGTTCATAATTT
19512165 T
1 T
19512166 CACTATCCTG
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:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TGTTCATAATTT
Found at i:19512771 original size:25 final size:26
Alignment explanation
Indices: 19512737--19512794 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 26
19512727 CTCGTTGCAT
* *
19512737 AATAATTCTTACTCTAT-GCTTATCA
1 AATAATTCTTACTCTATAACTTATAA
19512762 AATAATTCTTACTCTATAACTTATAA
1 AATAATTCTTACTCTATAACTTATAA
19512788 AATAATT
1 AATAATT
19512795 AAATTCTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 17 0.57
26 13 0.43
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.43
Consensus pattern (26 bp):
AATAATTCTTACTCTATAACTTATAA
Found at i:19513584 original size:21 final size:21
Alignment explanation
Indices: 19513560--19513599 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19513550 ATTGTAAATG
* *
19513560 CTATTTTTTAAATATTAAAAC
1 CTATATTTTAAATAATAAAAC
*
19513581 CTATATTTTCAATAATAAA
1 CTATATTTTAAATAATAAA
19513600 TTTTATAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (21 bp):
CTATATTTTAAATAATAAAAC
Found at i:19513683 original size:68 final size:69
Alignment explanation
Indices: 19513522--19513731 Score: 359
Period size: 69 Copynumber: 3.1 Consensus size: 69
19513512 AAATTTTATT
* * *
19513522 AATAATAAATTTTATAATTTTAAAAATAATTGTAAATGCTATTTTTTAAATATTAAAACCTATAT
1 AATAATAAATTTTATAATTTTAAAAATAATTGTAAATGTTATTTTCTAAATATTAACACCTATAT
19513587 TTTC
66 TTTC
*
19513591 AATAATAAATTTTATAATTTTAAAATTAATTGTAAATGTTATTTTCTAAATATTAACACCTATAT
1 AATAATAAATTTTATAATTTTAAAAATAATTGTAAATGTTATTTTCTAAATATTAACACCTATAT
19513656 TTTC
66 TTTC
*
19513660 AATAA-AAATTTTACAATTTTAAAAATAATTGTAAATGTTATTTTCTAAATATTAACACCTATAT
1 AATAATAAATTTTATAATTTTAAAAATAATTGTAAATGTTATTTTCTAAATATTAACACCTATAT
*
19513724 TTTT
66 TTTC
19513728 AATA
1 AATA
19513732 TATCACCCCA
Statistics
Matches: 134, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
68 64 0.48
69 70 0.52
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (69 bp):
AATAATAAATTTTATAATTTTAAAAATAATTGTAAATGTTATTTTCTAAATATTAACACCTATAT
TTTC
Found at i:19514037 original size:28 final size:28
Alignment explanation
Indices: 19514004--19514385 Score: 106
Period size: 25 Copynumber: 13.2 Consensus size: 28
19513994 TCAATCATAT
*
19514004 CATAACTTATAT-ATAAACTTACATAATA
1 CATAACTTACATAAT-AACTTACATAATA
19514032 CATAACTTACATAATAACTTACATAACTTA
1 CATAACTTACATAATAACTTACATAA--TA
* * * *
19514062 TATAGAAACTTATAT-GTAAACTTGCATAACTTA
1 CAT---AACTTACATAAT-AACTTACATAA--TA
* *
19514095 TATAA-TAACATAATAACTTACATAATA
1 CATAACTTACATAATAACTTACATAATA
* * * * *
19514122 TATAGCCTACATAAATTGCATAACTCACAAAATA
1 CATAACTTACAT--A----ATAACTTACATAATA
*
19514156 CACAACTTACATAACTTAAATAACTTACATAATA
1 CATAACTTAC---A--T-AATAACTTACATAATA
19514190 CATAACTTA-AT--TAA-TTA-ATATTATA
1 CATAACTTACATAATAACTTACATA--ATA
*
19514215 CATAACTTAC---ATAACTTACA-ACTTA
1 CATAACTTACATAATAACTTACATA-ATA
* *
19514240 CATAACTTA-ATTAATTAATATTATACACAACTTA
1 CATAACTTACA-TAA-T-A-ACT-TACATAA--TA
*
19514274 CATAACATACATAATACATAACTTACATAATA
1 CATAACTTACATAA----TAACTTACATAATA
* *
19514306 CACAACTTAC---ATAGCTTACATAATA
1 CATAACTTACATAATAACTTACATAATA
*
19514331 CATAACTTAC---ATAACTTATATAATA
1 CATAACTTACATAATAACTTACATAATA
*
19514356 CATAACTTACATAAT---TTACGTAATA
1 CATAACTTACATAATAACTTACATAATA
19514381 CATAA
1 CATAA
19514386 TATATATCAT
Statistics
Matches: 273, Mismatches: 37, Indels: 91
0.68 0.09 0.23
Matches are distributed among these distances:
23 3 0.01
24 3 0.01
25 87 0.32
26 4 0.01
27 7 0.03
28 30 0.11
29 18 0.07
30 10 0.04
31 2 0.01
32 15 0.05
33 26 0.10
34 59 0.22
35 3 0.01
36 1 0.00
37 2 0.01
38 2 0.01
39 1 0.00
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (28 bp):
CATAACTTACATAATAACTTACATAATA
Found at i:19514044 original size:9 final size:9
Alignment explanation
Indices: 19514019--19514413 Score: 186
Period size: 9 Copynumber: 45.4 Consensus size: 9
19514009 CTTATATATA
19514019 AACTTACAT
1 AACTTACAT
19514028 AA--TACAT
1 AACTTACAT
19514035 AACTTACATAAT
1 AACTTAC---AT
19514047 AACTTACAT
1 AACTTACAT
*
19514056 AACTTATAT
1 AACTTACAT
*
19514065 AGAAACTTATATGT
1 ---AACTTACA--T
*
19514079 AAACTTGCAT
1 -AACTTACAT
*
19514089 AACTTATAT
1 AACTTACAT
*
19514098 AA-TAACATAAT
1 AACTTAC---AT
19514109 AACTTACAT
1 AACTTACAT
*
19514118 AA--TATAT
1 AACTTACAT
* *
19514125 AGCCTACAT
1 AACTTACAT
* *
19514134 AAATTGCAT
1 AACTTACAT
*
19514143 AACTCACA-
1 AACTTACAT
* *
19514151 AA-ATACAC
1 AACTTACAT
19514159 AACTTACAT
1 AACTTACAT
*
19514168 AACTTAAAT
1 AACTTACAT
19514177 AACTTACAT
1 AACTTACAT
19514186 AA--TACAT
1 AACTTACAT
19514193 AACTTA-ATT
1 AACTTACA-T
19514202 AA-TTA-AT
1 AACTTACAT
*
19514209 -ATTATACAT
1 AACT-TACAT
19514218 AACTTACAT
1 AACTTACAT
19514227 AACTTAC--
1 AACTTACAT
19514234 AACTTACAT
1 AACTTACAT
19514243 AACTTA-ATT
1 AACTTACA-T
19514252 AA-TTA-AT
1 AACTTACAT
* *
19514259 -ATTATACAC
1 AACT-TACAT
19514268 AACTTACAT
1 AACTTACAT
*
19514277 AACATACAT
1 AACTTACAT
19514286 AA--TACAT
1 AACTTACAT
19514293 AACTTACAT
1 AACTTACAT
*
19514302 AA--TACAC
1 AACTTACAT
19514309 AACTTACAT
1 AACTTACAT
*
19514318 AGCTTACAT
1 AACTTACAT
19514327 AA--TACAT
1 AACTTACAT
19514334 AACTTACAT
1 AACTTACAT
*
19514343 AACTTATAT
1 AACTTACAT
19514352 AA--TACAT
1 AACTTACAT
19514359 AACTTACAT
1 AACTTACAT
* *
19514368 AATTTACGT
1 AACTTACAT
19514377 AA--TACAT
1 AACTTACAT
*
19514384 AA--TATAT
1 AACTTACAT
* *
19514391 ATCATATCAT
1 AACTTA-CAT
19514401 AACTTACAT
1 AACTTACAT
19514410 AACT
1 AACT
19514414 CATATATACT
Statistics
Matches: 300, Mismatches: 43, Indels: 86
0.70 0.10 0.20
Matches are distributed among these distances:
6 2 0.01
7 70 0.23
8 20 0.07
9 165 0.55
10 11 0.04
11 4 0.01
12 27 0.09
14 1 0.00
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:19514054 original size:21 final size:21
Alignment explanation
Indices: 19514030--19514119 Score: 64
Period size: 21 Copynumber: 4.3 Consensus size: 21
19514020 ACTTACATAA
19514030 TACATAACTTACATAATAACT
1 TACATAACTTACATAATAACT
*
19514051 TACATAACTTATATAGA-AACT
1 TACATAACTTACATA-ATAACT
* *
19514072 TATATGTAAACTTGC---ATAACT
1 TACA--T-AACTTACATAATAACT
* *
19514093 TATATAA-TAACATAATAACT
1 TACATAACTTACATAATAACT
19514113 TACATAA
1 TACATAA
19514120 TATATAGCCT
Statistics
Matches: 54, Mismatches: 7, Indels: 17
0.69 0.09 0.22
Matches are distributed among these distances:
17 2 0.04
18 2 0.04
19 1 0.02
20 13 0.24
21 29 0.54
22 1 0.02
23 1 0.02
24 5 0.09
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.34
Consensus pattern (21 bp):
TACATAACTTACATAATAACT
Found at i:19514167 original size:34 final size:34
Alignment explanation
Indices: 19514129--19514207 Score: 88
Period size: 34 Copynumber: 2.4 Consensus size: 34
19514119 ATATATAGCC
**
19514129 TACATAAATTGCATAACTCACAAAATACACAACT
1 TACATAAATTAAATAACTCACAAAATACACAACT
* * * *
19514163 TACATAACTTAAATAACTTACATAATACATAACT
1 TACATAAATTAAATAACTCACAAAATACACAACT
*
19514197 TA-ATTAATTAA
1 TACATAAATTAA
19514208 TATTATACAT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
33 7 0.19
34 30 0.81
ACGTcount: A:0.51, C:0.18, G:0.01, T:0.30
Consensus pattern (34 bp):
TACATAAATTAAATAACTCACAAAATACACAACT
Found at i:19514191 original size:25 final size:24
Alignment explanation
Indices: 19514163--19514411 Score: 165
Period size: 25 Copynumber: 10.0 Consensus size: 24
19514153 ATACACAACT
*
19514163 TACATAACTTAAATAACTTACATAA
1 TACATAACTTACATAA-TTACATAA
19514188 TACATAACTTA-ATTAATTA-ATATTA
1 TACATAACTTACA-TAATTACATA--A
*
19514213 TACATAACTTACATAACTTACA-ACT
1 TACATAACTTACATAA-TTACATA-A
19514238 TACATAACTTA-ATTAATTA-ATATTA
1 TACATAACTTACA-TAATTACATA--A
* *
19514263 TACACAACTTACATAACATACATAA
1 TACATAACTTACATAA-TTACATAA
*
19514288 TACATAACTTACATAA-TACACAA
1 TACATAACTTACATAATTACATAA
*
19514311 CTTACATAGCTTACATAA-TACATAA
1 --TACATAACTTACATAATTACATAA
*
19514336 CTTACATAACTTATATAA-TACATAA
1 --TACATAACTTACATAATTACATAA
* *
19514361 CTTACATAATTTACGTAA-TACATAA
1 --TACATAACTTACATAATTACATAA
* * *
19514386 TATATATCATATCATAACTTACATAA
1 TACATAACTTA-CATAA-TTACATAA
19514412 CTCATATATA
Statistics
Matches: 187, Mismatches: 20, Indels: 33
0.78 0.08 0.14
Matches are distributed among these distances:
23 17 0.09
24 13 0.07
25 138 0.74
26 15 0.08
27 4 0.02
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.35
Consensus pattern (24 bp):
TACATAACTTACATAATTACATAA
Found at i:19514196 original size:16 final size:16
Alignment explanation
Indices: 19514107--19514370 Score: 150
Period size: 16 Copynumber: 15.9 Consensus size: 16
19514097 TAATAACATA
*
19514107 ATAACTTACATAATAT
1 ATAACTTACATAATAC
* * *
19514123 ATAGCCTACATAAATTGC
1 ATAACTTACAT-AA-TAC
* *
19514141 ATAACTCACAAAATAC
1 ATAACTTACATAATAC
* *
19514157 ACAACTTACATAACTTAA
1 ATAACTTACATAA--TAC
19514175 ATAACTTACATAATAC
1 ATAACTTACATAATAC
19514191 ATAACTTA-ATTAATTA-
1 ATAACTTACA-TAA-TAC
*
19514207 AT-ATTATACATAACTTAC
1 ATAACT-TACATAA--TAC
*
19514225 ATAACTTACA-ACTTAC
1 ATAACTTACATA-ATAC
19514241 ATAACTTA-ATTAATTA-
1 ATAACTTACA-TAA-TAC
* *
19514257 AT-ATTATACACAACTTAC
1 ATAACT-TACATAA--TAC
*
19514275 ATAACATACATAATAC
1 ATAACTTACATAATAC
19514291 ATAACTTACATAATAC
1 ATAACTTACATAATAC
* *
19514307 ACAACTTACATAGCTTAC
1 ATAACTTACATA--ATAC
19514325 ATAA--TACATAACTTAC
1 ATAACTTACATAA--TAC
*
19514341 ATAACTTATATAATAC
1 ATAACTTACATAATAC
19514357 ATAACTTACATAAT
1 ATAACTTACATAAT
19514371 TTACGTAATA
Statistics
Matches: 191, Mismatches: 31, Indels: 52
0.70 0.11 0.19
Matches are distributed among these distances:
15 6 0.03
16 116 0.61
17 18 0.09
18 48 0.25
19 3 0.02
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.33
Consensus pattern (16 bp):
ATAACTTACATAATAC
Found at i:19514380 original size:75 final size:72
Alignment explanation
Indices: 19514129--19514382 Score: 232
Period size: 75 Copynumber: 3.4 Consensus size: 72
19514119 ATATATAGCC
* * *
19514129 TACATAAATTGCATAACTCACAAAATACACAACTTACATAACTTAAATAACTTACATAA-TACAT
1 TACAT-AATTACATAACTTACATAATACACAACTTACATAACTT-AATAA-TTACATAATTACAT
19514193 AACTTAATTAA
63 AACTTAA-TAA
* * *
19514204 TTA-ATATTATACATAACTTACATAACT-TACAACTTACATAACTTAATTAATTA-ATATTATAC
1 -TACATAAT-TACATAACTTACATAA-TACACAACTTACATAACTTAA-TAATTACATAAT-TAC
*
19514266 ACAACTTACATAACA
61 ATAACTTA-AT-A-A
*
19514281 TACATAA-TACATAACTTACATAATACACAACTTACATAGCTTACATAA-TACATAACTTACATA
1 TACATAATTACATAACTTACATAATACACAACTTACATAACTTA-ATAATTACATAA-TTACATA
19514344 ACTTATATAA
64 ACTTA-ATAA
* *
19514354 TACATAACTTACATAATTTACGTAATACA
1 TACATAA-TTACATAACTTACATAATACA
19514383 TAATATATAT
Statistics
Matches: 148, Mismatches: 15, Indels: 31
0.76 0.08 0.16
Matches are distributed among these distances:
73 11 0.07
74 11 0.07
75 113 0.76
76 9 0.06
77 4 0.03
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.33
Consensus pattern (72 bp):
TACATAATTACATAACTTACATAATACACAACTTACATAACTTAATAATTACATAATTACATAAC
TTAATAA
Found at i:19514664 original size:21 final size:21
Alignment explanation
Indices: 19514639--19514688 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
19514629 CTACAGCTTA
*
19514639 AAGCAGAGGC-GACAGCGAGGG
1 AAGCAGAGGCAG-CAGCGAGAG
19514660 AAGCAGAGGCAGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
19514681 AAGCAGAG
1 AAGCAGAG
19514689 CAAAGTAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.38, C:0.18, G:0.44, T:0.00
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:19515072 original size:43 final size:43
Alignment explanation
Indices: 19515011--19515263 Score: 344
Period size: 43 Copynumber: 5.9 Consensus size: 43
19515001 CATTTTTAAA
* * * *
19515011 AAAAGCGCCACTAAAGGTCATGGCTTATAGCGGCTTTTGTGTG
1 AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTTGTGGG
* *
19515054 AAAAGCGCCGCTAAAGGTCATGGCCTATAGCAGCGTTTGTAGG
1 AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTTGTGGG
* * * *
19515097 AAAAGTGTCGCTAAAGGTCATGGCCTATAGTGGCGTTTTTGGG
1 AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTTGTGGG
* *
19515140 AAAAGTGCCGCTAAAGGTCATGACCTATAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTTGTGGG
* * *
19515183 AAAAGCGCCTCTAAAGGTCGTGGCCTATAGCAGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTTGTGGG
** *
19515226 AAAAGCGCCGCTAAAGGTTGTGGCCTATAGCGGTGTTT
1 AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTT
19515264 ATTTCTAAAA
Statistics
Matches: 185, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 185 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTTGTGGG
Found at i:19517747 original size:65 final size:67
Alignment explanation
Indices: 19517557--19517749 Score: 232
Period size: 65 Copynumber: 2.9 Consensus size: 67
19517547 AAAAGTATTT
* * *
19517557 TTAT-TTTTTACATCAATAATATACTTATTTACAATTTACGAAAAAATGAAAAAATTGTTGGTAT
1 TTATATTTTTACATCAATAATATACTTATTTACAATTTACAAAAAAATGAAAAAA---AT-GCAT
19517621 ATTGTA
62 ATTGTA
** * *
19517627 TTGGATTTTTACATCAACAATATACTTATTTATAATTTACGAAAAAAATG-AAAAAAT-CAT-TT
1 TTATATTTTTACATCAATAATATACTTATTTACAATTTAC-AAAAAAATGAAAAAAATGCATATT
19517689 GTA
65 GTA
**
19517692 TTATATTTTTACATCAATAATATACTTATTTACAATTTACCCAAAAATGAAAAAAATG
1 TTATATTTTTACATCAATAATATACTTATTTACAATTTACAAAAAAATGAAAAAAATG
19517750 AATTATTTTT
Statistics
Matches: 106, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
64 7 0.07
65 48 0.45
66 2 0.02
68 1 0.01
70 2 0.02
71 38 0.36
72 8 0.08
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (67 bp):
TTATATTTTTACATCAATAATATACTTATTTACAATTTACAAAAAAATGAAAAAAATGCATATTG
TA
Found at i:19523176 original size:26 final size:27
Alignment explanation
Indices: 19523134--19523205 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
19523124 TCTTATCCCT
* * *
19523134 ATTTTACCCCCAATAAAA-AATTAACG
1 ATTTTACCCCTAGTAAAATAATTAACA
**
19523160 ATTTTACCCCTAGTAAAATTTTTAACA
1 ATTTTACCCCTAGTAAAATAATTAACA
* *
19523187 ATTTTACCCTTGGTAAAAT
1 ATTTTACCCCTAGTAAAAT
19523206 TTCAAGAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 16 0.42
27 22 0.58
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.36
Consensus pattern (27 bp):
ATTTTACCCCTAGTAAAATAATTAACA
Found at i:19523192 original size:27 final size:27
Alignment explanation
Indices: 19523154--19523207 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
19523144 CAATAAAAAA
*
19523154 TTAACGATTTTACCCCTAGTAAAATTT
1 TTAACAATTTTACCCCTAGTAAAATTT
* *
19523181 TTAACAATTTTACCCTTGGTAAAATTT
1 TTAACAATTTTACCCCTAGTAAAATTT
19523208 CAAGAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (27 bp):
TTAACAATTTTACCCCTAGTAAAATTT
Found at i:19529169 original size:18 final size:18
Alignment explanation
Indices: 19529146--19529181 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
19529136 AAACCCTAGA
19529146 ATTCTTT-TGAATCTGATT
1 ATTCTTTGTG-ATCTGATT
19529164 ATTCTTTGTGATCTGATT
1 ATTCTTTGTGATCTGATT
19529182 TTTTTTCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.19, C:0.11, G:0.14, T:0.56
Consensus pattern (18 bp):
ATTCTTTGTGATCTGATT
Found at i:19536046 original size:18 final size:18
Alignment explanation
Indices: 19536023--19536058 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
19536013 AAACCCTAGG
19536023 ATTCTTT-TGAATCTGATT
1 ATTCTTTGTG-ATCTGATT
19536041 ATTCTTTGTGATCTGATT
1 ATTCTTTGTGATCTGATT
19536059 TTTTTTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.19, C:0.11, G:0.14, T:0.56
Consensus pattern (18 bp):
ATTCTTTGTGATCTGATT
Done.