Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 12 of 77
Found at i:1907986 original size:19 final size:19
Alignment explanation
Indices: 1907964--1908008 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
1907954 AGGAGAAGAA
*
1907964 AGAAAGGATAGGTAAAAGG
1 AGAAAGAATAGGTAAAAGG
1907983 AGAAAAGAATAGGTAAAAGG
1 AG-AAAGAATAGGTAAAAGG
1908003 A-AAAGA
1 AGAAAGA
1908009 CATGATAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 2 0.08
20 17 0.71
ACGTcount: A:0.60, C:0.00, G:0.31, T:0.09
Consensus pattern (19 bp):
AGAAAGAATAGGTAAAAGG
Found at i:1907994 original size:20 final size:20
Alignment explanation
Indices: 1907966--1908003 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1907956 GAGAAGAAAG
*
1907966 AAAGGATAGGTAAAAGGAGA
1 AAAGAATAGGTAAAAGGAGA
1907986 AAAGAATAGGTAAAAGGA
1 AAAGAATAGGTAAAAGGA
1908004 AAAGACATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.32, T:0.11
Consensus pattern (20 bp):
AAAGAATAGGTAAAAGGAGA
Found at i:1909657 original size:22 final size:23
Alignment explanation
Indices: 1909609--1909658 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
1909599 TTTTGTATAA
*
1909609 TTTTAAATTAAGATATGCATGTG
1 TTTTAAATTAAGATAAGCATGTG
* *
1909632 TTTTAAATTGAGATAAG-ATGTT
1 TTTTAAATTAAGATAAGCATGTG
1909654 TTTTA
1 TTTTA
1909659 TTTTAAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (23 bp):
TTTTAAATTAAGATAAGCATGTG
Found at i:1911711 original size:3 final size:3
Alignment explanation
Indices: 1911703--1911749 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
1911693 TCACTTTACC
1911703 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1911750 CGATCCTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1915402 original size:62 final size:63
Alignment explanation
Indices: 1915267--1915455 Score: 371
Period size: 63 Copynumber: 3.0 Consensus size: 63
1915257 TTATATTAGC
1915267 GATGAG-AAAAAAAAATCAAAATTGGGTTCAAAATTAATGGCTTGAATTATGTTGGGCTATGT
1 GATGAGAAAAAAAAAATCAAAATTGGGTTCAAAATTAATGGCTTGAATTATGTTGGGCTATGT
1915329 GATGAGAAAAAAAAAATCAAAATTGGGTTCAAAATTAATGGCTTGAATTATGTTGGGCTATGT
1 GATGAGAAAAAAAAAATCAAAATTGGGTTCAAAATTAATGGCTTGAATTATGTTGGGCTATGT
1915392 GATGAGAAAAAAAAAATCAAAATTGGGTTCAAAATTAATGGCTTGAATTATGTTGGGCTATGT
1 GATGAGAAAAAAAAAATCAAAATTGGGTTCAAAATTAATGGCTTGAATTATGTTGGGCTATGT
1915455 G
1 G
1915456 GCGGTGTATC
Statistics
Matches: 126, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
62 6 0.05
63 120 0.95
ACGTcount: A:0.41, C:0.06, G:0.23, T:0.30
Consensus pattern (63 bp):
GATGAGAAAAAAAAAATCAAAATTGGGTTCAAAATTAATGGCTTGAATTATGTTGGGCTATGT
Found at i:1916067 original size:2 final size:2
Alignment explanation
Indices: 1916060--1916102 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
1916050 ACAAATCCAT
* * * *
1916060 AC AC AC AC AC AA AT AT AC AC AA AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1916102 A
1 A
1916103 TATATATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.56, C:0.40, G:0.00, T:0.05
Consensus pattern (2 bp):
AC
Found at i:1917875 original size:14 final size:14
Alignment explanation
Indices: 1917858--1917891 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
1917848 TTTATTTTTC
1917858 TTATTTTGTT-TATT
1 TTATTTTGTTAT-TT
1917872 TTATTTTGTTATTT
1 TTATTTTGTTATTT
1917886 TTATTT
1 TTATTT
1917892 ACTCTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 18 0.95
15 1 0.05
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (14 bp):
TTATTTTGTTATTT
Found at i:1917887 original size:23 final size:24
Alignment explanation
Indices: 1917835--1917912 Score: 70
Period size: 23 Copynumber: 3.2 Consensus size: 24
1917825 TTCGCTTCAT
1917835 TTTTTGTTTTGATTTTATTTTTCTTA
1 TTTTTG-TTT-ATTTTATTTTTCTTA
*
1917861 -TTTTGTTTATTTTA-TTTTGTTA
1 TTTTTGTTTATTTTATTTTTCTTA
* * *
1917883 TTTTTATTTACTCTTATTATTTCCTA
1 TTTTTGTTTA-TTTTATT-TTTCTTA
1917909 TTTT
1 TTTT
1917913 AAATAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
22 7 0.16
23 14 0.33
24 7 0.16
25 6 0.14
26 9 0.21
ACGTcount: A:0.14, C:0.06, G:0.05, T:0.74
Consensus pattern (24 bp):
TTTTTGTTTATTTTATTTTTCTTA
Found at i:1922026 original size:17 final size:16
Alignment explanation
Indices: 1921987--1922031 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
1921977 GAAAAGGTGT
1921987 GCAAAAAAAA-AAAAA
1 GCAAAAAAAAGAAAAA
*
1922002 GAAGAAAAAAAGCAAAAA
1 GCA-AAAAAAAG-AAAAA
1922020 GCAAAAAAAAGA
1 GCAAAAAAAAGA
1922032 CAGAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 2 0.08
16 8 0.32
17 8 0.32
18 7 0.28
ACGTcount: A:0.80, C:0.07, G:0.13, T:0.00
Consensus pattern (16 bp):
GCAAAAAAAAGAAAAA
Found at i:1922026 original size:29 final size:28
Alignment explanation
Indices: 1921993--1922065 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
1921983 GTGTGCAAAA
1921993 AAAAAAAAAGAAGAAAAAAAGCAA-AAAGC
1 AAAAAAAAAGAAGAAAAAAA-CAAGAAA-C
*
1922022 -AAAAAAAAGACAGAAAAAAATAAGAAAC
1 AAAAAAAAAGA-AGAAAAAAACAAGAAAC
1922050 AAAAAAAATA-AAGAAA
1 AAAAAAAA-AGAAGAAA
1922066 GAGAGGCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
28 18 0.46
29 20 0.51
30 1 0.03
ACGTcount: A:0.81, C:0.05, G:0.11, T:0.03
Consensus pattern (28 bp):
AAAAAAAAAGAAGAAAAAAACAAGAAAC
Found at i:1922064 original size:28 final size:29
Alignment explanation
Indices: 1921992--1922065 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
1921982 GGTGTGCAAA
1921992 AAAAAAAAAAGAAGAAAAAAAGCAAAAAGC
1 AAAAAAAAAA-AAGAAAAAAAGCAAAAAGC
* * *
1922022 AAAAAAAAGACAGAAAAAAA-TAAGAAA-C
1 AAAAAAAAAAAAGAAAAAAAGCAA-AAAGC
*
1922050 AAAAAAAATAAAGAAA
1 AAAAAAAAAAAAGAAA
1922066 GAGAGGCAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
28 17 0.45
29 12 0.32
30 9 0.24
ACGTcount: A:0.81, C:0.05, G:0.11, T:0.03
Consensus pattern (29 bp):
AAAAAAAAAAAAGAAAAAAAGCAAAAAGC
Found at i:1923166 original size:69 final size:69
Alignment explanation
Indices: 1923052--1923269 Score: 283
Period size: 69 Copynumber: 3.2 Consensus size: 69
1923042 TATTTTTCTA
* * * * *
1923052 ACCTTTGCGAAACTTAAAATCTTATGAATATTTGTTTCTTACGAATCTAAAAATCCTTGTGAACC
1 ACCTTTGCAAAACTTAAAATCTTATGAATCTTTCTTTCTTACGAATCTAAAAGTCCTTGCGAACC
1923117 TTGC
66 TTGC
* * *
1923121 ACCTTTGCAAAACTTGAAATCTTATGAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTGCAAACC
1 ACCTTTGCAAAACTTAAAATCTTATGAATCTTTCTTTCTTACGAATCTAAAAGTCCTTGCGAACC
1923186 TTGC
66 TTGC
* ** * * * * *
1923190 ATCTTTGTGAAACTTAAAATCTTACGAATCTTTCTTTCTTACAAATCTGAAAGTCCTTACGAACT
1 ACCTTTGCAAAACTTAAAATCTTATGAATCTTTCTTTCTTACGAATCTAAAAGTCCTTGCGAACC
1923255 TTGC
66 TTGC
*
1923259 ATCTTTGCAAA
1 ACCTTTGCAAA
1923270 TCTAGAACCT
Statistics
Matches: 128, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 128 1.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.38
Consensus pattern (69 bp):
ACCTTTGCAAAACTTAAAATCTTATGAATCTTTCTTTCTTACGAATCTAAAAGTCCTTGCGAACC
TTGC
Found at i:1923366 original size:69 final size:69
Alignment explanation
Indices: 1923239--1923367 Score: 172
Period size: 69 Copynumber: 1.9 Consensus size: 69
1923229 TACAAATCTG
* * *
1923239 AAAGTCCTTACGAACTTTGCATCTTTGCAAATCTAGAACCTTTGCAAAACTTAGAATATTATGAA
1 AAAGTCCTTACGAACTTTGAACCTTTGCAAATCTAGAACCTTTGCAAAACTTAAAATATTATGAA
1923304 TATA
66 TATA
* * *
1923308 AAAGTTCTTACGAAC-TTGAAACCTTTGCGAATCTAGAACCTTTG-AAAAGTTTAAAATATT
1 AAAGTCCTTACGAACTTTG-AACCTTTGCAAATCTAGAACCTTTGCAAAA-CTTAAAATATT
1923368 GCGAATCTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
68 7 0.13
69 45 0.87
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33
Consensus pattern (69 bp):
AAAGTCCTTACGAACTTTGAACCTTTGCAAATCTAGAACCTTTGCAAAACTTAAAATATTATGAA
TATA
Found at i:1923781 original size:120 final size:119
Alignment explanation
Indices: 1923585--1924087 Score: 358
Period size: 120 Copynumber: 4.2 Consensus size: 119
1923575 ATTTTGGTCG
* * *
1923585 CTTCATTTTTAACTCGTTGA-TTTGTCTTAGTCACCCGATCTTGACTCAATCCAGATCATTTCTT
1 CTTCATTTTTGACTCG-TGATTTTGTCTTA-TCACCCGATCTTGGCTCAATCTAGATCATTTCTT
** * *
1923649 ATGACTTGTGGTTTCATTTCGATCATTTATTTTTAA-CTTTGACT-TAGTCTTAGTCA
64 ATGACTCATGGTTTCATTTCGATCATTTATTTTTAATC-TCGACTCGAGTC-TAGTCA
* * *
1923705 TTTCATTTTTGACTTGTGCTTTTGTCTTGATCACCCGATCTTGGCTCAATCTAGATCATTTCTTA
1 CTTCATTTTTGACTCGTGATTTTGTCTT-ATCACCCGATCTTGGCTCAATCTAGATCATTTCTTA
* * *
1923770 TGACTCATGG-TTC-TGTTCAAGTCATTTATTTTTTATCTCGACTCGATTCTAGTCA
65 TGACTCATGGTTTCAT-TTCGA-TCATTTATTTTTAATCTCGACTCGAGTCTAGTCA
* ** * * * * * * *
1923825 CTTCATTTTTGACTCGTGATTTCGTCCCAATCACACGATCTTAGCTTAGTTTAAATCATTTTTTA
1 CTTCATTTTTGACTCGTGATTTTGT-CTTATCACCCGATCTTGGCTCAATCTAGATCATTTCTTA
* * * * * * * **
1923890 TGACTCATAGTTTCATTCCGGTAATTTATTTTTGATCTCAACTCG-GTCTTGGTTG
65 TGACTCATGGTTTCATTTCGATCATTTATTTTTAATCTCGACTCGAGTC-TAGTCA
* * * * * * * * * *
1923945 TTTCATCTTTGACTCGT-AGTTTCGTCCCTATCATCCGATCTTAGCTTAGTCCAGATTATTTCTT
1 CTTCATTTTTGACTCGTGA-TTTTGT-CTTATCACCCGATCTTGGCTCAATCTAGATCATTTCTT
* * * * * * * **
1924009 ATAACTCGTGGTTTTATCTT-GATCATTTATTTTCAACCTTGACTCG-GTCTTGGTTG
64 ATGACTCATGGTTTCAT-TTCGATCATTTATTTTTAATCTCGACTCGAGTC-TAGTCA
*
1924065 CTTCATCTTTGACTCGTGATTTT
1 CTTCATTTTTGACTCGTGATTTT
1924088 ATCCCGATCA
Statistics
Matches: 309, Mismatches: 61, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
118 1 0.00
119 12 0.04
120 282 0.91
121 13 0.04
122 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (119 bp):
CTTCATTTTTGACTCGTGATTTTGTCTTATCACCCGATCTTGGCTCAATCTAGATCATTTCTTAT
GACTCATGGTTTCATTTCGATCATTTATTTTTAATCTCGACTCGAGTCTAGTCA
Found at i:1924357 original size:13 final size:14
Alignment explanation
Indices: 1924327--1924375 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
1924317 CTTGTTTTCC
*
1924327 AAAAAAT-AAAATTA
1 AAAAAATCAAAA-GA
1924341 AAAAAATCAAAAGA
1 AAAAAATCAAAAGA
1924355 AAAAAATCAAAAGA
1 AAAAAATCAAAAGA
1924369 AAGAAAA
1 AA-AAAA
1924376 AATGTGGTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
14 24 0.75
15 8 0.25
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.10
Consensus pattern (14 bp):
AAAAAATCAAAAGA
Found at i:1927687 original size:17 final size:17
Alignment explanation
Indices: 1927651--1927685 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
1927641 TTTTGTGATC
*
1927651 AAGGTTAGACAGGAAAA
1 AAGGGTAGACAGGAAAA
1927668 AAGGGTAGA-AGGAAAA
1 AAGGGTAGACAGGAAAA
1927684 AA
1 AA
1927686 AGATGAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.57, C:0.03, G:0.31, T:0.09
Consensus pattern (17 bp):
AAGGGTAGACAGGAAAA
Found at i:1929173 original size:3 final size:3
Alignment explanation
Indices: 1929165--1929198 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1929155 ACTTATCATC
1929165 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1929199 ATTGTTTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1930780 original size:18 final size:19
Alignment explanation
Indices: 1930733--1930782 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
1930723 TAAATTATAA
1930733 AATAATAACATA-AATTCT
1 AATAATAACATATAATTCT
* *
1930751 AATAA-AATATATAATTTT
1 AATAATAACATATAATTCT
1930769 AA-AATAACATATAA
1 AATAATAACATATAA
1930783 GCAAAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 7 0.26
18 20 0.74
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (19 bp):
AATAATAACATATAATTCT
Found at i:1933464 original size:328 final size:333
Alignment explanation
Indices: 1932861--1933469 Score: 898
Period size: 328 Copynumber: 1.8 Consensus size: 333
1932851 ATGAAACAAG
*
1932861 AAAATTAAAAAGAAGTGATAGAGTTTGAATGTTAGAGAGAGAAAGAGAAAAAAGAGTGAATTGTT
1 AAAATTAAAAAGAAGTGAGAGAGTTTGAATGTTAGAGAGAGAAAGAGAAAAAAGAGTGAATTGTT
*
1932926 AGAGAAGAAGAAGAAGAAAAAAATAAAAAAAAATAATATTTGAAAATAATGGAAAAAGTCACAAT
66 AGAGAAGAAAAAGAAGAAAAAAATAAAAAAAAATAATATTTGAAAATAATGGAAAAAGTCACAAT
*
1932991 TTTGTACAAAAAATAATAAAAACTAATCATAGAATAGTTAAATATTACATTTTAAACCTCATGCC
131 TTTGTACAAAAAATAATAAAAACTAATCATAGAATAGTTAAATATTACATTTTAAACCTCAGGCC
* * * * * *
1933056 ATTTTAAATTTGTTTTCAAACATAAGATGATTTTATGTAATTTACCCATAAAAGAATATATAAGC
196 ACTTTAAATCTGTCTTCAAACACAAGATGATTTTATGTAATTTACCCATAAAACAAAATATAAGC
*
1933121 ACAAGAATAATAACTTTGAAAAGAGATAGAGTTAGAGCATTAAACACCAAAATTTATTGAGGTTC
261 ACAACAATAATAAC-TTGAAAAGAGATAGAGTTAGAGCATTAAACACCAAAATTTATTGAGGTTC
1933186 GATAGCAAA
325 GATAGCAAA
* * *
1933195 AAAATTAGAGAGAAGTGAGAGAGTTTGAATGTTAGTGAGAGAAAGAG-AAAAA-AGTGAATTGTT
1 AAAATTAAAAAGAAGTGAGAGAGTTTGAATGTTAGAGAGAGAAAGAGAAAAAAGAGTGAATTGTT
** *
1933258 -G-G-AGAAAAAGAAGGCAAAAAT-AAAGAAAATAATATTTGAAAATAAT-GAAAAAGTCACAAT
66 AGAGAAGAAAAAGAAGAAAAAAATAAAAAAAAATAATATTTGAAAATAATGGAAAAAGTCACAAT
* *
1933318 TTTGGATA-AAAAAATAAT-AAAACTAATCATAGAATAGTTAAGTATTATATTTTAAACCTCAAG
131 TTT-G-TACAAAAAATAATAAAAACTAATCATAGAATAGTTAAATATTACATTTTAAACCTC-A-
* * *
1933381 GGCCACTTTAAATCTG-CTT-AAACCACAAGATGGTTTTTTGTAATTTACTCATAAAACAAAATA
192 GGCCACTTTAAATCTGTCTTCAAA-CACAAGATGATTTTATGTAATTTACCCATAAAACAAAATA
1933444 TAAGCACAACAATAATAACTTGAAAA
256 TAAGCACAACAATAATAACTTGAAAA
1933470 ATAAAGAGAT
Statistics
Matches: 249, Mismatches: 21, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
327 67 0.27
328 90 0.36
329 31 0.12
330 1 0.00
331 1 0.00
332 11 0.04
333 5 0.02
334 43 0.17
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (333 bp):
AAAATTAAAAAGAAGTGAGAGAGTTTGAATGTTAGAGAGAGAAAGAGAAAAAAGAGTGAATTGTT
AGAGAAGAAAAAGAAGAAAAAAATAAAAAAAAATAATATTTGAAAATAATGGAAAAAGTCACAAT
TTTGTACAAAAAATAATAAAAACTAATCATAGAATAGTTAAATATTACATTTTAAACCTCAGGCC
ACTTTAAATCTGTCTTCAAACACAAGATGATTTTATGTAATTTACCCATAAAACAAAATATAAGC
ACAACAATAATAACTTGAAAAGAGATAGAGTTAGAGCATTAAACACCAAAATTTATTGAGGTTCG
ATAGCAAA
Found at i:1935881 original size:30 final size:30
Alignment explanation
Indices: 1935823--1935881 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
1935813 ATTTTTTTTA
*
1935823 TTTTTTTCTTCTTCTTTTCTAACAATTCAC
1 TTTTTTTCTTCTTCTTCTCTAACAATTCAC
1935853 TTTTTTTC-TCTTTCTCTCTCTAAC-ATTCA
1 TTTTTTTCTTC-TTCT-TCTCTAACAATTCA
1935882 AACTCTATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 17 0.65
31 7 0.27
ACGTcount: A:0.15, C:0.25, G:0.00, T:0.59
Consensus pattern (30 bp):
TTTTTTTCTTCTTCTTCTCTAACAATTCAC
Found at i:1935930 original size:328 final size:328
Alignment explanation
Indices: 1935274--1935910 Score: 933
Period size: 328 Copynumber: 1.9 Consensus size: 328
1935264 TAAACTTCAA
* * * *
1935274 TGTTTAATGCTCCAACTTTATCTCTTTATTTTTCAAGTTATTATTGTTGTGCTTATATTTTGTTT
1 TGTTTAATGCTCCAACTCTATCTC--T-TTTTTCAAGTTATTATTCTTGTGCTTATATATTCTTT
* * * * *
1935339 TATGAGTAAATTACAAAAAACCATCTTGTGGTTTAAGCAGATTTAAAGTGGCCTTGAGGTTTAAA
63 TATGAGTAAATTACAAAAAACCATCTTATGCTTTAAACAAATTTAAAGTGGCCATGAGGTTTAAA
*
1935404 ATGTAATACTTAACTATTCTATGATTAGTTTTATTATTTTTTATCCAAAATTGTGACTTTTCATT
128 ATGTAATACTTAACTATTCTATGATTAGTTTTATTATTTTTTATACAAAATTGTGACTTTTCATT
1935469 ATTTTCAAATATTATTTTCTTTTATTTTTGCCTTCTTTTTCTCCAACAATTCACTTTTTTTCTCT
193 ATTTTCAAATATTATTTTCTTTTATTTTTGCCTTCTTTTTCTCCAACAATTCACTTTTTTTCTCT
* *
1935534 TTCTCTCACTAACATTCAAACTCTCTCACTTCTCTCTAATTTTTTTGCTATCGAACCTCAATAAA
258 TTCTCTCACTAACATTCAAACTCTATCACTTCTCTCTAATTTTCTTGCTATCGAACCTCAATAAA
1935599 TTTTGG
323 TTTTGG
*
1935605 TGTTTAATGCTCTAACTCTATCTC-TTTTTCAAAGTTATTATTCTTGTGCTTATATATTCTTTTA
1 TGTTTAATGCTCCAACTCTATCTCTTTTTTC-AAGTTATTATTCTTGTGCTTATATATTCTTTTA
* * *
1935669 TGGGTAAATTACATAAAATCATCTTATGCTTTGAAACAAAATTTAAA-TGG-CATGAGGTTTAAA
65 TGAGTAAATTACAAAAAACCATCTTATGCTTT-AAAC-AAATTTAAAGTGGCCATGAGGTTTAAA
* *
1935732 ATGTAATATTTAACTATTCTATGATTAGTTTTTATTATTTTTTGTACAAAATTGTGACTTTTTCC
128 ATGTAATACTTAACTATTCTATGATTAG-TTTTATTATTTTTTATACAAAATTGTGAC-TTTT-C
** *
1935797 ATTATTTTCAAATATTATTTT-TTTTATTTTTTTCTTCTTCTTT-TCTAACAATTCACTTTTTTT
190 ATTATTTTCAAATATTATTTTCTTTTATTTTTGCCTTCTT-TTTCTCCAACAATTCACTTTTTTT
* * *
1935860 CTCTTTCTCTCTCTAACATTCAAACTCTATCACTTCTTTTTAATTTTCTTG
254 CTCTTTCTCTCACTAACATTCAAACTCTATCACTTCTCTCTAATTTTCTTG
1935911 TTTCATTGAC
Statistics
Matches: 275, Mismatches: 24, Indels: 15
0.88 0.08 0.05
Matches are distributed among these distances:
327 6 0.02
328 96 0.35
329 33 0.12
330 93 0.34
331 47 0.17
ACGTcount: A:0.26, C:0.15, G:0.08, T:0.50
Consensus pattern (328 bp):
TGTTTAATGCTCCAACTCTATCTCTTTTTTCAAGTTATTATTCTTGTGCTTATATATTCTTTTAT
GAGTAAATTACAAAAAACCATCTTATGCTTTAAACAAATTTAAAGTGGCCATGAGGTTTAAAATG
TAATACTTAACTATTCTATGATTAGTTTTATTATTTTTTATACAAAATTGTGACTTTTCATTATT
TTCAAATATTATTTTCTTTTATTTTTGCCTTCTTTTTCTCCAACAATTCACTTTTTTTCTCTTTC
TCTCACTAACATTCAAACTCTATCACTTCTCTCTAATTTTCTTGCTATCGAACCTCAATAAATTT
TGG
Found at i:1939550 original size:3 final size:3
Alignment explanation
Indices: 1939542--1939575 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
1939532 CCAAAACATT
1939542 ATA ATA ATA ATA ATA ATAA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
1939576 TAAGATGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1939565 original size:16 final size:16
Alignment explanation
Indices: 1939544--1939575 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1939534 AAAACATTAT
1939544 AATAATAATAATAATA
1 AATAATAATAATAATA
1939560 AATAATAATAATAATA
1 AATAATAATAATAATA
1939576 TAAGATGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:1941039 original size:16 final size:17
Alignment explanation
Indices: 1941020--1941054 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
1941010 CTTTTCATCT
*
1941020 TTTTTTCCT-TCTACCC
1 TTTTTTCCTGTCTAACC
1941036 TTTTTTCCTGTCTAACC
1 TTTTTTCCTGTCTAACC
1941053 TT
1 TT
1941055 GATCACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.09, C:0.31, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTTTTCCTGTCTAACC
Found at i:1944328 original size:13 final size:14
Alignment explanation
Indices: 1944308--1944343 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1944298 CTTTCTTCTG
**
1944308 ATTTTTTTCCTTTT
1 ATTTTTTTAATTTT
1944322 ATTTTTTTAATTTT
1 ATTTTTTTAATTTT
1944336 ATTTTTTT
1 ATTTTTTT
1944344 GAAAAACAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.81
Consensus pattern (14 bp):
ATTTTTTTAATTTT
Found at i:1945014 original size:240 final size:240
Alignment explanation
Indices: 1944647--1945081 Score: 534
Period size: 240 Copynumber: 1.8 Consensus size: 240
1944637 TTATCGAGAT
* * *
1944647 AAAACCACGAGTCATAAGAAATAATCTAGACTAAGCCAAGATCGGATGATAGGGATGAAACCACG
1 AAAACCACGAGTCATAAGAAATAATCTAGACTAAGCCAAGATCGGATGATAGAGATAAAACCACA
* * * * * * * * *
1944712 AGTTAAAGATGAAGCGACTAAGATCGAGTTGAGGTCAAAAATAAATTACCGGAATGAAACCACGA
66 AGTAAAAAATGAAGCGACTAAGACCAAGTCGAGGTCAAAAATAAATGACCGAAATAAAACCACAA
* * * * *
1944777 GTCATAAGAAATGATTTAGACTGAGCTAAGATCGGGTGATTAGG-ACGAAATCACGAGTCAAAAA
131 GTCATAAGAAATGATCTAGACTGAACCAAGATCGGGTGACT-GGAACAAAATCACGAGTCAAAAA
1944841 TAAAGTGACTAGAACTGAGTCGAGATCAAAAATAAATGACTAAAAC
195 TAAAGTGACTAGAACTGAGTCGAGATCAAAAATAAATGACTAAAAC
* * * * **
1944887 AAAACCATGAGTTATAAGAAATGATCTAGACTGAGCCAAGATC-GAGTGATCA-AGATAAAAGTA
1 AAAACCACGAGTCATAAGAAATAATCTAGACTAAGCCAAGATCGGA-TGAT-AGAGATAAAACCA
* * * ** *
1944950 TAAGTAAAAAATGAAGCGACTAGGACCAAGTCGATGTTGAAAATAAATGATCGAAATAAAACCAC
64 CAAGTAAAAAATGAAGCGACTAAGACCAAGTCGAGGTCAAAAATAAATGACCGAAATAAAACCAC
* * *
1945015 AAGTCATAAGAAATGATCTGGATTGAACCAAGATCGGGTGACTGGAACAAAATCACGAGTTAAAA
129 AAGTCATAAGAAATGATCTAGACTGAACCAAGATCGGGTGACTGGAACAAAATCACGAGTCAAAA
1945080 AT
194 AT
1945082 GAAGCGATCA
Statistics
Matches: 160, Mismatches: 32, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
239 4 0.03
240 155 0.97
241 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.19
Consensus pattern (240 bp):
AAAACCACGAGTCATAAGAAATAATCTAGACTAAGCCAAGATCGGATGATAGAGATAAAACCACA
AGTAAAAAATGAAGCGACTAAGACCAAGTCGAGGTCAAAAATAAATGACCGAAATAAAACCACAA
GTCATAAGAAATGATCTAGACTGAACCAAGATCGGGTGACTGGAACAAAATCACGAGTCAAAAAT
AAAGTGACTAGAACTGAGTCGAGATCAAAAATAAATGACTAAAAC
Found at i:1945080 original size:120 final size:121
Alignment explanation
Indices: 1944584--1945119 Score: 435
Period size: 120 Copynumber: 4.5 Consensus size: 121
1944574 GATTGGGATG
* * * * ** ** * *
1944584 AAATCACGAGTCAAAGATAAAGCAACTACGACCGAGTTAAGGTTGAAAATAAATTATCGAGATAA
1 AAATCACGAGTCAAAAATGAAGCGACTAGGACCGAGTCGAGGTCAAAAATAAATGATCGAAATAA
* * * **
1944649 AACCACGAGTCATAAGAAATAATCTAGACT-AAGCCAAGATCGGATGA-TAGGGATG
66 AACCACGAGTCATAAGAAATGATCTAGACTGAA-CCAAGATCGGGTGACTAGGAACA
* * * * * * * * * *
1944704 AAACCACGAGTTAAAGATGAAGCGACTAAGATCGAGTTGAGGTCAAAAATAAATTACCGGAATGA
1 AAATCACGAGTCAAAAATGAAGCGACTAGGACCGAGTCGAGGTCAAAAATAAATGATCGAAATAA
* * * * *
1944769 AACCACGAGTCATAAGAAATGATTTAGACTGAGCTAAGATCGGGTGATTAGG-ACG
66 AACCACGAGTCATAAGAAATGATCTAGACTGAACCAAGATCGGGTGACTAGGAACA
* * * * * * *
1944824 AAATCACGAGTCAAAAATAAAGTGACTAGAACTGAGTCGAGATCAAAAATAAATGA-CTAAAACA
1 AAATCACGAGTCAAAAATGAAGCGACTAGGACCGAGTCGAGGTCAAAAATAAATGATC-GAAATA
* * * * *
1944888 AAACCATGAGTTATAAGAAATGATCTAGACTGAGCCAAGATCGAGTGA-TCAAGATA-A
65 AAACCACGAGTCATAAGAAATGATCTAGACTGAACCAAGATCGGGTGACT-AGGA-ACA
* ** * * * **
1944945 AAGT-ATAAGTAAAAAATGAAGCGACTAGGACCAAGTCGATGTTGAAAATAAATGATCGAAATAA
1 AAATCACGAGTCAAAAATGAAGCGACTAGGACCGAGTCGAGGTCAAAAATAAATGATCGAAATAA
* * *
1945009 AACCACAAGTCATAAGAAATGATCTGGATTGAACCAAGATCGGGTGACT-GGAACA
66 AACCACGAGTCATAAGAAATGATCTAGACTGAACCAAGATCGGGTGACTAGGAACA
* * * *
1945064 AAATCACGAGTTAAAAATGAAGCGA-TCAGAATCGAATCGAGGT-AGAAAATAAATGA
1 AAATCACGAGTCAAAAATGAAGCGACT-AGGACCGAGTCGAGGTCA-AAAATAAATGA
1945120 CCGAGAAGAT
Statistics
Matches: 329, Mismatches: 75, Indels: 24
0.77 0.18 0.06
Matches are distributed among these distances:
118 1 0.00
119 9 0.03
120 308 0.94
121 10 0.03
122 1 0.00
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (121 bp):
AAATCACGAGTCAAAAATGAAGCGACTAGGACCGAGTCGAGGTCAAAAATAAATGATCGAAATAA
AACCACGAGTCATAAGAAATGATCTAGACTGAACCAAGATCGGGTGACTAGGAACA
Found at i:1945297 original size:17 final size:17
Alignment explanation
Indices: 1945277--1945316 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
1945267 GCAAGGTTTT
1945277 CAGATTTGCAGGAATGG
1 CAGATTTGCAGGAATGG
1945294 CAGATTTGCAGGAATGG
1 CAGATTTGCAGGAATGG
*
1945311 AAGATT
1 CAGATT
1945317 CGCAAGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.33, T:0.25
Consensus pattern (17 bp):
CAGATTTGCAGGAATGG
Found at i:1945599 original size:69 final size:69
Alignment explanation
Indices: 1945438--1945633 Score: 279
Period size: 69 Copynumber: 2.8 Consensus size: 69
1945428 CAAAGTTCGT
* * * **
1945438 AAGGACTTTCAAATTTGTAAGAAAGAAAGATTCATAAGATTTCAAGTTTCACAAAGGTGCAAGGT
1 AAGGACTTTCAGATTCGTAAGAAAGAAATATTCATAAGATTTCAAGTTTTGCAAAGGTGCAAGGT
1945503 TCAC
66 TCAC
1945507 AAGGACTTTCAGATTC-TCAAGAAAGAAATATTCATAAGATTTCAAGTTTTGCAAAGGTGCAAGG
1 AAGGACTTTCAGATTCGT-AAGAAAGAAATATTCATAAGATTTCAAGTTTTGCAAAGGTGCAAGG
1945571 TTCAC
65 TTCAC
* * **
1945576 AAGGACTTTCAGATTCGTGAGAAAAAAATATTTGTAAGA-TTCTAAGTTTTGCAAAGGT
1 AAGGACTTTCAGATTCGTAAGAAAGAAATATTCATAAGATTTC-AAGTTTTGCAAAGGT
1945634 TAGAAAAATA
Statistics
Matches: 115, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
68 4 0.03
69 110 0.96
70 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (69 bp):
AAGGACTTTCAGATTCGTAAGAAAGAAATATTCATAAGATTTCAAGTTTTGCAAAGGTGCAAGGT
TCAC
Found at i:1946643 original size:22 final size:20
Alignment explanation
Indices: 1946618--1946675 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 20
1946608 TTTGCCTCTC
*
1946618 TTTTTTATTTTTTGTTTCTTCT
1 TTTTTTATTTTTT-TTT-TACT
1946640 TTTTTTATGTCTTTTTTTTACT
1 TTTTTTAT-T-TTTTTTTTACT
1946662 TTTTTTATTTTTTT
1 TTTTTTATTTTTTT
1946676 AATTTTGAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.15
21 1 0.03
22 19 0.58
23 4 0.12
24 4 0.12
ACGTcount: A:0.07, C:0.07, G:0.03, T:0.83
Consensus pattern (20 bp):
TTTTTTATTTTTTTTTTACT
Found at i:1946652 original size:12 final size:11
Alignment explanation
Indices: 1946618--1946675 Score: 59
Period size: 10 Copynumber: 5.4 Consensus size: 11
1946608 TTTGCCTCTC
1946618 TTTTTTATT-T
1 TTTTTTATTCT
*
1946628 TTTGTTTCTTCT
1 TTT-TTTATTCT
1946640 TTTTTTATGTCT
1 TTTTTTAT-TCT
*
1946652 TTTTTT-TACT
1 TTTTTTATTCT
1946662 TTTTTTATT-T
1 TTTTTTATTCT
1946672 TTTT
1 TTTT
1946676 AATTTTGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 16 0.40
11 11 0.28
12 13 0.32
ACGTcount: A:0.07, C:0.07, G:0.03, T:0.83
Consensus pattern (11 bp):
TTTTTTATTCT
Found at i:1956925 original size:3 final size:3
Alignment explanation
Indices: 1956917--1956975 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
1956907 AAAAGGATCG
1956917 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1956965 AAT AAT AAT AA
1 AAT AAT AAT AA
1956976 AAACGAATGA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1959406 original size:20 final size:23
Alignment explanation
Indices: 1959362--1959409 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
1959352 GTTACACTTT
*
1959362 TTTACTTCTTGCTATCTTTTCTC
1 TTTATTTCTTGCTATCTTTTCTC
1959385 TTTATTTCTTGCT-T-TTTT-TC
1 TTTATTTCTTGCTATCTTTTCTC
1959405 TTTAT
1 TTTAT
1959410 ATTCAAGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 4 0.17
22 1 0.04
23 12 0.50
ACGTcount: A:0.08, C:0.19, G:0.04, T:0.69
Consensus pattern (23 bp):
TTTATTTCTTGCTATCTTTTCTC
Found at i:1960701 original size:20 final size:20
Alignment explanation
Indices: 1960666--1960703 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1960656 TGTCTTTTCC
*
1960666 TTTTACCTATTATTTCTTCA
1 TTTTACCTATCATTTCTTCA
*
1960686 TTTTACCTATCCTTTCTT
1 TTTTACCTATCATTTCTT
1960704 TTTTCTCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTACCTATCATTTCTTCA
Found at i:1962013 original size:14 final size:14
Alignment explanation
Indices: 1961994--1962047 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
1961984 TTGCAGGTTT
*
1961994 GGGTTTTGATTTAA
1 GGGTTTGGATTTAA
1962008 GGGTTTGGATTT-A
1 GGGTTTGGATTTAA
*
1962021 GGGATTTGGGTTT--
1 GGG-TTTGGATTTAA
*
1962034 TGGTTTGGATTTAA
1 GGGTTTGGATTTAA
1962048 ATTTATGAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 8 0.24
13 6 0.18
14 19 0.58
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (14 bp):
GGGTTTGGATTTAA
Found at i:1963518 original size:13 final size:13
Alignment explanation
Indices: 1963488--1963530 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
1963478 GGATTGGGGA
*
1963488 TGGT-GGTGACAG
1 TGGTGGGTGGCAG
*
1963500 -GGTGGGTGGTAG
1 TGGTGGGTGGCAG
1963512 TGGTGGGTGGCAG
1 TGGTGGGTGGCAG
1963525 TGGTGG
1 TGGTGG
1963531 CGTGTAAGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 3 0.12
12 6 0.23
13 17 0.65
ACGTcount: A:0.09, C:0.05, G:0.60, T:0.26
Consensus pattern (13 bp):
TGGTGGGTGGCAG
Found at i:1963925 original size:36 final size:36
Alignment explanation
Indices: 1963881--1963982 Score: 118
Period size: 36 Copynumber: 2.9 Consensus size: 36
1963871 TAAAAATGTG
* *
1963881 AGTC-GAAAAAT-AAGGACGACTGGGATTAAACTGCA
1 AGTCAGAAAAATAAAAG-CGACTGGGATTAAACTACA
* * *
1963916 AGTGAGAAAAATAAAAGTGACTAGGATTAAACTACA
1 AGTCAGAAAAATAAAAGCGACTGGGATTAAACTACA
* *
1963952 AGTCAGGAAAATAAAAGCGACTGAGATTAAA
1 AGTCAGAAAAATAAAAGCGACTGGGATTAAA
1963983 TCGCGAGTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
35 3 0.05
36 49 0.89
37 3 0.05
ACGTcount: A:0.49, C:0.11, G:0.23, T:0.18
Consensus pattern (36 bp):
AGTCAGAAAAATAAAAGCGACTGGGATTAAACTACA
Found at i:1964119 original size:110 final size:109
Alignment explanation
Indices: 1963950--1964795 Score: 702
Period size: 110 Copynumber: 7.7 Consensus size: 109
1963940 GATTAAACTA
* * * * * * * * * *
1963950 CAAGTCAGGAAAATAAAAGCGACTGAGATTAAATCGCGAGTTAGGAAACTATAGAAATGACCAGG
1 CAAGTCAGAAAAATAAAAGTGACCGGGATTAAACCACAAGTCAGGTAACTATAGAAATGACCGGG
* * * *
1964015 ACTAAACCACAAGTCAGAGATTAACGATGA-TCGGGGCTGAACCG
66 ATTAAACCACGAGTCAAAGATTAACGATGACT-GGGACTGAACCG
** * * **
1964059 CAAGTCAGAAAGAATAAAAGTGACCAAGATTAAACCACAAGTCAGAG-AGCTATAGGAATGATTG
1 CAAGTCAGAAA-AATAAAAGTGACCGGGATTAAACCACAAGTCAG-GTAACTATAGAAATGACCG
* * * * * * *
1964123 GGACTAAACCACAAGTGAGAGATTAACGATGACCGAGACTGAATCG
64 GGATTAAACCACGAGTCAAAGATTAACGATGACTGGGACTGAACCG
* * * * * *
1964169 TAGGTCAAAAAAAATAAGAA-TGATCGGGACTAAACCACAAGTCAGGTAACTACTAGAAATGA-T
1 CAAGTC-AGAAAAATAA-AAGTGACCGGGATTAAACCACAAGTCAGGTAACTA-TAGAAATGACC
* * * *
1964232 TGAAGTTGAACCACGAGTCAAAGATTAACGATGACTGGGACTGAACAG
63 GGGA-TTAAACCACGAGTCAAAGATTAACGATGACTGGGACTGAACCG
* * * * *
1964280 CAAGTCAAAAAAAATAAGAA-TGATCGGGACTAAACCACAAGTCAGGTAACTAATAAAAATGATC
1 CAAGTC-AGAAAAATAA-AAGTGACCGGGATTAAACCACAAGTCAGGTAACT-ATAGAAATGACC
* *
1964344 GGGATTGAACCACGAGTCAAAGATTAATGATGACTGGGACTGAACCG
63 GGGATTAAACCACGAGTCAAAGATTAACGATGACTGGGACTGAACCG
* * * * ** *
1964391 CAAGTCAGAAAAATAAAAGAGACTGAGATTAGACCGTAAGTCAGGTAACTAACAGAAATGACCGG
1 CAAGTCAGAAAAATAAAAGTGACCGGGATTAAACCACAAGTCAGGTAACT-ATAGAAATGACCGG
* * * * *
1964456 GATTGAACCACGAGTCAAAGATTAACGACGACTAGGACTGAATCA
65 GATTAAACCACGAGTCAAAGATTAACGATGACTGGGACTGAACCG
* * * * * *
1964501 TAAGTTAGAAAAATAAAAGTGACTGGGATTAAACCGCAAGTC-GGGAAGCTATAGGAATGACCGG
1 CAAGTCAGAAAAATAAAAGTGACCGGGATTAAACCACAAGTCAGGTAA-CTATAGAAATGACCGG
* * * * * * *
1964565 GTTTAAACCATGAGTTAGAGATTAACAATGATTGGGATTGAACCG
65 GATTAAACCACGAGTCAAAGATTAACGATGACTGGGACTGAACCG
** ** * *
1964610 CAAGTCAGAAAAAATAAAAGTGACTAGGATTAAACCGTAAGTC-GGGAAC-ATA-AGAATGATCG
1 CAAGTCAG-AAAAATAAAAGTGACCGGGATTAAACCACAAGTCAGGTAACTATAGA-AATGACCG
* * * * *
1964672 AGATTAAACCATGAGTCAAAGATTAATGACGACTGGGACTGAACGG
64 GGATTAAACCACGAGTCAAAGATTAACGATGACTGGGACTGAACCG
* * ** * * *
1964718 CAAGTTAGAAAAATAAAAGTGACTGGGATTAAACTGCAAGTCAGGTAACTAATAAAAATGATCGA
1 CAAGTCAGAAAAATAAAAGTGACCGGGATTAAACCACAAGTCAGGTAACT-ATAGAAATGACCGG
*
1964783 GATTGAACCACGA
65 GATTAAACCACGA
1964796 ATCGAGAGAA
Statistics
Matches: 612, Mismatches: 107, Indels: 35
0.81 0.14 0.05
Matches are distributed among these distances:
107 31 0.05
108 58 0.09
109 69 0.11
110 297 0.49
111 154 0.25
112 3 0.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.18
Consensus pattern (109 bp):
CAAGTCAGAAAAATAAAAGTGACCGGGATTAAACCACAAGTCAGGTAACTATAGAAATGACCGGG
ATTAAACCACGAGTCAAAGATTAACGATGACTGGGACTGAACCG
Found at i:1964397 original size:35 final size:35
Alignment explanation
Indices: 1964238--1964406 Score: 94
Period size: 35 Copynumber: 4.6 Consensus size: 35
1964228 TGATTGAAGT
* * *
1964238 TGAACCACGAGTCAAAGATTAACGATGA-CTGGGAC
1 TGAACCACAAGTCAAAGAATAATGATGATC-GGGAC
*
1964273 TGAA-CAGCAAGTCAAA-AAAAATAAGAATGATCGGGAC
1 TGAACCA-CAAGTCAAAGAATAAT--G-ATGATCGGGAC
* * ** *
1964310 TAAACCACAAGTCAGGTAACTAATAAAAATGATCGGGAT
1 TGAACCACAAGTCA---AA-GAATAATGATGATCGGGAC
* *
1964349 TGAACCACGAGTCAAAGATTAATGATGA-CTGGGAC
1 TGAACCACAAGTCAAAGAATAATGATGATC-GGGAC
* *
1964384 TGAACCGCAAGTCAGAAAAATAA
1 TGAACCACAAGTCA-AAGAATAA
1964407 AAGAGACTGA
Statistics
Matches: 101, Mismatches: 20, Indels: 25
0.69 0.14 0.17
Matches are distributed among these distances:
34 6 0.06
35 36 0.36
36 9 0.09
37 19 0.19
38 3 0.03
39 22 0.22
40 2 0.02
42 4 0.04
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (35 bp):
TGAACCACAAGTCAAAGAATAATGATGATCGGGAC
Found at i:1964405 original size:221 final size:218
Alignment explanation
Indices: 1963950--1964804 Score: 723
Period size: 221 Copynumber: 3.9 Consensus size: 218
1963940 GATTAAACTA
* * * * ** * * *
1963950 CAAGTCAGGAAAATAAAAGCGACTGAGATTAAATCGCGAGTTAGGAAACTA-TAGAAATGA-CCA
1 CAAGTCAGAAAAATAAAA-TGACTGGGATTAAACCGTAAGTCAGGTAACTACTAGAAATGATCGA
* * * * * * * * *
1964013 GGACTAAACCACAAGTCAGAGATTAACGATGA-TCGGGGCTGAACCGCAAGTCAGAAAGAATAAA
65 -GATTGAACCACGAGTCAAAGATTAACGACGACT-GGGACTGAACAGCAAGT-AAAAAAAATAAA
*** * ** * * * *
1964077 AGTGACCAAGATTAAACCACAAGTCAGAG-AGCTATAGGAATGATTGGGACTAAACCACAAGTGA
127 AGTGACTGGGATTAAACCACAAGTCAG-GTAACTATAAAAATGATCGGGATTAAACCACGAGTCA
* * *
1964141 GAGATTAACGATGACCGAGACTGAATCG
191 GAGATTAACGATGACTGGGACTGAACCG
* * * * ** *
1964169 TAGGTCAAAAAAAATAAGAATGA-TCGGGACTAAACCACAAGTCAGGTAACTACTAGAAATGATT
1 CAAGTC-AGAAAAATAA-AATGACT-GGGATTAAACCGTAAGTCAGGTAACTACTAGAAATGATC
*
1964233 GA-AGTTGAACCACGAGTCAAAGATTAACGATGACTGGGACTGAACAGCAAGTCAAAAAAAATAA
63 GAGA-TTGAACCACGAGTCAAAGATTAACGACGACTGGGACTGAACAGCAAGT-AAAAAAAATAA
* *
1964297 GAA-TGA-TCGGGACTAAACCACAAGTCAGGTAACTAATAAAAATGATCGGGATTGAACCACGAG
126 -AAGTGACT-GGGATTAAACCACAAGTCAGGTAACT-ATAAAAATGATCGGGATTAAACCACGAG
* *
1964360 TCAAAGATTAATGATGACTGGGACTGAACCG
188 TCAGAGATTAACGATGACTGGGACTGAACCG
* * * *
1964391 CAAGTCAGAAAAATAAAAGAGACTGAGATTAGACCGTAAGTCAGGTAACTAAC-AGAAATGACCG
1 CAAGTCAGAAAAATAAAA-TGACTGGGATTAAACCGTAAGTCAGGTAACT-ACTAGAAATGATCG
* * * * *
1964455 GGATTGAACCACGAGTCAAAGATTAACGACGACTAGGACTGAATCA-TAAGTTAGAAAAATAAAA
64 AGATTGAACCACGAGTCAAAGATTAACGACGACTGGGACTGAA-CAGCAAGTAAAAAAAATAAAA
* * ** * * * *
1964519 GTGACTGGGATTAAACCGCAAGTC-GGGAAGCTATAGGAATGACCGGGTTTAAACCATGAGTTAG
128 GTGACTGGGATTAAACCACAAGTCAGGTAA-CTATAAAAATGATCGGGATTAAACCACGAGTCAG
* * *
1964583 AGATTAACAATGATTGGGATTGAACCG
192 AGATTAACGATGACTGGGACTGAACCG
* *
1964610 CAAGTCAGAAAAAATAAAAGTGACTAGGATTAAACCGTAAGTC-GGGAAC-A-TA-AGAATGATC
1 CAAGTCAG-AAAAATAAAA-TGACTGGGATTAAACCGTAAGTCAGGTAACTACTAGA-AATGATC
* * * * * *
1964671 GAGATTAAACCATGAGTCAAAGATTAATGACGACTGGGACTGAACGGCAAGTTAGAAAAATAAAA
63 GAGATTGAACCACGAGTCAAAGATTAACGACGACTGGGACTGAACAGCAAGTAAAAAAAATAAAA
** * * *
1964736 GTGACTGGGATTAAACTGCAAGTCAGGTAACTAATAAAAATGATCGAGATTGAACCACGAATCGA
128 GTGACTGGGATTAAACCACAAGTCAGGTAACT-ATAAAAATGATCGGGATTAAACCACGAGTC-A
1964801 GAGA
191 GAGA
1964805 ATAAATATAA
Statistics
Matches: 515, Mismatches: 95, Indels: 52
0.78 0.14 0.08
Matches are distributed among these distances:
216 2 0.00
217 89 0.17
218 25 0.05
219 76 0.15
220 94 0.18
221 168 0.33
222 61 0.12
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.18
Consensus pattern (218 bp):
CAAGTCAGAAAAATAAAATGACTGGGATTAAACCGTAAGTCAGGTAACTACTAGAAATGATCGAG
ATTGAACCACGAGTCAAAGATTAACGACGACTGGGACTGAACAGCAAGTAAAAAAAATAAAAGTG
ACTGGGATTAAACCACAAGTCAGGTAACTATAAAAATGATCGGGATTAAACCACGAGTCAGAGAT
TAACGATGACTGGGACTGAACCG
Found at i:1979510 original size:22 final size:20
Alignment explanation
Indices: 1979460--1979512 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
1979450 ATTTTGAAGA
1979460 TTTGGATTTTAGGATTTTGGG
1 TTTGG-TTTTAGGATTTTGGG
*
1979481 -TTGAGTTTTGAGGGTTTTAGGG
1 TTTG-GTTTT-AGGATTTT-GGG
1979503 TTTGGTTTTA
1 TTTGGTTTTA
1979513 AGGTTTAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
20 7 0.26
21 9 0.33
22 8 0.30
23 3 0.11
ACGTcount: A:0.13, C:0.00, G:0.34, T:0.53
Consensus pattern (20 bp):
TTTGGTTTTAGGATTTTGGG
Found at i:1979571 original size:30 final size:30
Alignment explanation
Indices: 1979537--1979600 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
1979527 TTAAGGCTTG
*
1979537 GATTTTAGGGTATGGA-AGGTTTAGGATTTT
1 GATTTTAGAGTATGGAGA-GTTTAGGATTTT
* * *
1979567 GATTTTAGAGTTTGGAGATTTTAGGGTTTT
1 GATTTTAGAGTATGGAGAGTTTAGGATTTT
1979597 GATT
1 GATT
1979601 CTAAAATTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (30 bp):
GATTTTAGAGTATGGAGAGTTTAGGATTTT
Found at i:1979697 original size:38 final size:38
Alignment explanation
Indices: 1979632--1979707 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
1979622 TTTGATTTAA
* ** *
1979632 GGGTTTGGATTTTAAGGATTTTGGGTTTTGGGGTTTTG
1 GGGTTTGGATTTAAAGGATTAAGGGTTTTAGGGTTTTG
1979670 GGGTTTGGATTTAAAGG-TTAAGAGGTTTTAGGGTTTTG
1 GGGTTTGGATTTAAAGGATTAAG-GGTTTTAGGGTTTTG
1979708 AAATTTCAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 3 0.09
38 30 0.91
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.46
Consensus pattern (38 bp):
GGGTTTGGATTTAAAGGATTAAGGGTTTTAGGGTTTTG
Found at i:1980755 original size:17 final size:19
Alignment explanation
Indices: 1980720--1980756 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
1980710 GGTTTGAATA
1980720 TTTCTGTTTCTTCTCTTTT
1 TTTCTGTTTCTTCTCTTTT
1980739 TTTCT-TTT-TTCT-TTTT
1 TTTCTGTTTCTTCTCTTTT
1980755 TT
1 TT
1980757 GTAAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.33
17 4 0.22
18 3 0.17
19 5 0.28
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (19 bp):
TTTCTGTTTCTTCTCTTTT
Found at i:1981987 original size:39 final size:36
Alignment explanation
Indices: 1981888--1982025 Score: 91
Period size: 39 Copynumber: 3.7 Consensus size: 36
1981878 AAAGATTAAT
* *
1981888 GATGACTGAGACTGAACTGCAAGTTAAAAAAAATAA
1 GATGACTGGGACTGAACCGCAAGTTAAAAAAAATAA
** * * * **
1981924 GAATGACCAGGACTAAATCACAAGTTAGATAACTAATAA
1 G-ATGACTGGGACTGAACCGCAAGTTA-A-AAAAAATAA
* *
1981963 CGATGACTGGGACTGAACCGCAAGTCAAAAAAATAAAA
1 -GATGACTGGGACTGAACCGCAAGTTAAAAAAA-ATAA
* *
1982001 GA-GACTGAGA-TTAGACCGCAAGTTA
1 GATGACTGGGACTGA-ACCGCAAGTTA
1982026 GGTAACTAAC
Statistics
Matches: 75, Mismatches: 21, Indels: 12
0.69 0.19 0.11
Matches are distributed among these distances:
35 2 0.03
36 18 0.24
37 23 0.31
38 5 0.07
39 26 0.35
40 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.18
Consensus pattern (36 bp):
GATGACTGGGACTGAACCGCAAGTTAAAAAAAATAA
Found at i:1981989 original size:111 final size:111
Alignment explanation
Indices: 1981742--1981991 Score: 286
Period size: 111 Copynumber: 2.3 Consensus size: 111
1981732 AAAGCTACAG
* * * * * *
1981742 AATGATCGAGACTAAACCACAAGTGAGAGATTAACGATGACCGAGACTAAACCGTAGGTCAAAAA
1 AATGATCGGGACTGAACCACAAGTCAAAGATTAACGATGACCGAGACTAAACCGCAAGTCAAAAA
* * *
1981807 AAATAAGAATGATCGGGACTAAACCACAAGTCAGGTAACTAATAAA
66 AAATAAGAATGACCAGGACTAAACCACAAGTCAGATAACTAATAAA
* ** * * * * *
1981853 AATGATCGGGATTGAACCATGAGTCAAAGATTAATGATGACTGAGACTGAACTGCAAGTTAAAAA
1 AATGATCGGGACTGAACCACAAGTCAAAGATTAACGATGACCGAGACTAAACCGCAAGTCAAAAA
* * *
1981918 AAATAAGAATGACCAGGACTAAATCACAAGTTAGATAACTAATAAC
66 AAATAAGAATGACCAGGACTAAACCACAAGTCAGATAACTAATAAA
* *
1981964 GATGA-CTGGGACTGAACCGCAAGTCAAA
1 AATGATC-GGGACTGAACCACAAGTCAAA
1981992 AAAATAAAAG
Statistics
Matches: 113, Mismatches: 25, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
110 1 0.01
111 112 0.99
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.18
Consensus pattern (111 bp):
AATGATCGGGACTGAACCACAAGTCAAAGATTAACGATGACCGAGACTAAACCGCAAGTCAAAAA
AAATAAGAATGACCAGGACTAAACCACAAGTCAGATAACTAATAAA
Found at i:1982320 original size:108 final size:109
Alignment explanation
Indices: 1981958--1982396 Score: 327
Period size: 110 Copynumber: 4.0 Consensus size: 109
1981948 TTAGATAACT
* * * * * *
1981958 AATAACGATGACTGGGACTGAACCGCAAGTCAAAAAAATAAAAGA-GACT-GAGATTAGACCGCA
1 AATAACGACGACTGAGACTGAACCGTAAGTTAGAAAAATAAAA-ATGACTAG-GATTAAACCGCA
* * * * * ** *
1982021 AGTTAGGTAA-CTAACAAAAATGATCGGGATTGAACCACGAGTCA-AA
64 AGTCAAG-AAGCT-ATAAGAATGACCGAAATTAAACCACGAGTCAGAA
* * * * * *
1982067 GATTAACGACGACTAAGACTGAACCGCAAGTTAGAAAAATAAAAGTGACTGGGATTAAACCGTAA
1 -AATAACGACGACTGAGACTGAACCGTAAGTTAGAAAAATAAAAATGACTAGGATTAAACCGCAA
* * *** *
1982132 GTCAAGAAGCTATAGGAATGATCGGGTTTAAACCACGAGTCAGAG
65 GTCAAGAAGCTATAAGAATGACCGAAATTAAACCACGAGTCAGAA
* * ** * * * * *
1982177 ATTAACAATAATTGGGATTGAACCGTAAGTCAGAAAAAATAAAAATGACTAGGATTAAACCGCAG
1 AATAACGACGACTGAGACTGAACCGTAAGTTAG-AAAAATAAAAATGACTAGGATTAAACCGCAA
* **
1982242 GTCGAGAA-C-ATAAGAATGACCGAAATTAAACCTTGAGTC-GAAA
65 GTCAAGAAGCTATAAGAATGACCGAAATTAAACCACGAGTCAG-AA
* *
1982285 AATAACGACGACTGAGACTGAATCGTAAGTTAGAAAAATAAAAATGACTAGGATTAAACCGTAAG
1 AATAACGACGACTGAGACTGAACCGTAAGTTAGAAAAATAAAAATGACTAGGATTAAACCGCAAG
* * ** * *
1982350 TC-AGATAACTAATAAAAATGACCGGGATTAAACCACGAATCAAAA
66 TCAAGA-AGCT-ATAAGAATGACCGAAATTAAACCACGAGTCAGAA
1982395 AA
1 AA
1982397 ATAAATATAA
Statistics
Matches: 261, Mismatches: 57, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
106 3 0.01
107 34 0.13
108 49 0.19
109 53 0.20
110 121 0.46
111 1 0.00
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.19
Consensus pattern (109 bp):
AATAACGACGACTGAGACTGAACCGTAAGTTAGAAAAATAAAAATGACTAGGATTAAACCGCAAG
TCAAGAAGCTATAAGAATGACCGAAATTAAACCACGAGTCAGAA
Found at i:1982348 original size:36 final size:36
Alignment explanation
Indices: 1982191--1982383 Score: 106
Period size: 36 Copynumber: 5.3 Consensus size: 36
1982181 ACAATAATTG
* *
1982191 GGATTGAACCGTAAGTCAGAAAAAATAAAAATGACTA
1 GGATTAAACCGTAAGTTAG-AAAAATAAAAATGACTA
* * * * * *
1982228 GGATTAAACCG-CAGGTCGAGAACATAAGAATGAC-C
1 GGATTAAACCGTAAGTTAGA-AAAATAAAAATGACTA
* * * * ** *
1982263 GAAATTAAACCTTGAG-TCGAAAAATAACGACGACT-
1 G-GATTAAACCGTAAGTTAGAAAAATAAAAATGACTA
* * *
1982298 GAGACTGAATCGTAAGTTAGAAAAATAAAAATGACTA
1 G-GATTAAACCGTAAGTTAGAAAAATAAAAATGACTA
* **
1982335 GGATTAAACCGTAAGTCAGATAACTAATAAAAATGACCG
1 GGATTAAACCGTAAGTTAGA-AA--AATAAAAATGACTA
1982374 GGATTAAACC
1 GGATTAAACC
1982384 ACGAATCAAA
Statistics
Matches: 116, Mismatches: 31, Indels: 16
0.71 0.19 0.10
Matches are distributed among these distances:
35 22 0.19
36 57 0.49
37 15 0.13
39 22 0.19
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.19
Consensus pattern (36 bp):
GGATTAAACCGTAAGTTAGAAAAATAAAAATGACTA
Found at i:1983461 original size:17 final size:16
Alignment explanation
Indices: 1983436--1983475 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 16
1983426 GATGCACATC
1983436 TTTTTTTTTTATTTGT
1 TTTTTTTTTTATTTGT
1983452 TTTGTTTTTTTATTTGT
1 TTT-TTTTTTTATTTGT
1983469 TTTTTTT
1 TTTTTTT
1983476 AAGCAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.05, C:0.00, G:0.07, T:0.88
Consensus pattern (16 bp):
TTTTTTTTTTATTTGT
Found at i:1985648 original size:17 final size:16
Alignment explanation
Indices: 1985609--1985653 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
1985599 TAAATATATT
*
1985609 AATAGAT-AACAAAAA
1 AATAGATAAATAAAAA
*
1985624 ATTAGATAAATAAAAGA
1 AATAGATAAATAAAA-A
1985641 AATAGATAAATAA
1 AATAGATAAATAA
1985654 TAATAATAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 6 0.24
16 6 0.24
17 13 0.52
ACGTcount: A:0.69, C:0.02, G:0.09, T:0.20
Consensus pattern (16 bp):
AATAGATAAATAAAAA
Found at i:1985659 original size:23 final size:22
Alignment explanation
Indices: 1985632--1985712 Score: 58
Period size: 23 Copynumber: 3.5 Consensus size: 22
1985622 AAATTAGATA
1985632 AATAAAAGAAATAGATAAATAAT
1 AATAAAA-AAATAGATAAATAAT
* **
1985655 AATAATAACAGCAGATAAATAAT
1 AATAA-AAAAATAGATAAATAAT
*
1985678 AA-AAATATTAATAGATAAA-AAT
1 AATAAA-A-AAATAGATAAATAAT
*
1985700 AAAAATAAAAATA
1 AATAA-AAAAATA
1985713 TATATATTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
21 1 0.02
22 12 0.26
23 30 0.65
24 3 0.07
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.22
Consensus pattern (22 bp):
AATAAAAAAATAGATAAATAAT
Found at i:1985661 original size:17 final size:16
Alignment explanation
Indices: 1985596--1985661 Score: 55
Period size: 17 Copynumber: 4.1 Consensus size: 16
1985586 CAAAATAAAA
* *
1985596 AGATAAATATATTAAT
1 AGATAAATAAAATAAT
*
1985612 AGATAACA-AAAA-ATT
1 AGATAA-ATAAAATAAT
*
1985627 AGATAAATAAAAGAAAT
1 AGATAAATAAAA-TAAT
1985644 AGATAAATAATAATAAT
1 AGATAAATAA-AATAAT
1985661 A
1 A
1985662 ACAGCAGATA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
14 1 0.03
15 12 0.30
16 8 0.20
17 17 0.43
18 2 0.05
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.26
Consensus pattern (16 bp):
AGATAAATAAAATAAT
Found at i:1985732 original size:28 final size:28
Alignment explanation
Indices: 1985669--1985740 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 28
1985659 ATAACAGCAG
1985669 ATAAATAATAAAAATATTAATAGATAAAA
1 ATAAA-AATAAAAATATTAATAGATAAAA
*
1985698 ATAAAAATAAAAATA-TATATA-TTAAATA
1 ATAAAAATAAAAATATTA-ATAGATAAA-A
*
1985726 ATGAAAATAAAAATA
1 ATAAAAATAAAAATA
1985741 AAAGCCCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 6 0.15
28 28 0.72
29 5 0.13
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (28 bp):
ATAAAAATAAAAATATTAATAGATAAAA
Found at i:1985738 original size:6 final size:6
Alignment explanation
Indices: 1985669--1985743 Score: 51
Period size: 6 Copynumber: 11.0 Consensus size: 6
1985659 ATAACAGCAG
1985669 ATAAATA ATAAAA ATATTAATA GATAAAA ATAAAA ATAAAA ATATATATA
1 ATAAA-A ATAAAA ATA--AA-A -ATAAAA ATAAAA ATAAAA ATA-A-A-A
* *
1985719 TTAAATA ATGAAA ATAAAA ATAAAA
1 ATAAA-A ATAAAA ATAAAA ATAAAA
1985744 GCCCATTGGA
Statistics
Matches: 57, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
6 31 0.54
7 13 0.23
8 6 0.11
9 4 0.07
10 3 0.05
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.27
Consensus pattern (6 bp):
ATAAAA
Found at i:1985920 original size:28 final size:26
Alignment explanation
Indices: 1985868--1985926 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
1985858 ACTCAACTTT
*
1985868 CTTTTTTTTTTGTCATTTCTTTTCCC
1 CTTTTTTTTTTGTAATTTCTTTTCCC
* * *
1985894 CTTTTTTTTTTTTAACTT-TTTTCTTC
1 CTTTTTTTTTTGTAATTTCTTTTC-CC
1985920 CTTTTTT
1 CTTTTTT
1985927 ATTAGATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 5 0.18
26 23 0.82
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.75
Consensus pattern (26 bp):
CTTTTTTTTTTGTAATTTCTTTTCCC
Found at i:1986748 original size:29 final size:32
Alignment explanation
Indices: 1986689--1986748 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
1986679 ATATGTATTA
*
1986689 TATTAATAAAATTATTATTTAATAACTTAATT
1 TATTAATAAAATTATTATTTAATAACATAATT
1986721 TATTAA-AAATATTA-TATTT-AT-ACATAAT
1 TATTAATAAA-ATTATTATTTAATAACATAAT
1986749 AAAAATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
29 6 0.23
30 2 0.08
31 8 0.31
32 10 0.38
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TATTAATAAAATTATTATTTAATAACATAATT
Found at i:1987280 original size:18 final size:17
Alignment explanation
Indices: 1987255--1987307 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
1987245 TAGCTTATTG
1987255 TTTCATTTTCTTCATTT
1 TTTCATTTTCTTCATTT
*
1987272 TTCTCATTTTTTTC-TTAT
1 TT-TCATTTTCTTCATT-T
**
1987290 TTTCCCTTTCTTCATTT
1 TTTCATTTTCTTCATTT
1987307 T
1 T
1987308 CTCTTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 14 0.48
18 15 0.52
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTCATTTTCTTCATTT
Found at i:1987308 original size:15 final size:14
Alignment explanation
Indices: 1987282--1987328 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
1987272 TTCTCATTTT
1987282 TTTCTTATTTTCCC
1 TTTCTTATTTTCCC
*
1987296 TTTCTTCATTTTCTC
1 TTTCTT-ATTTTCCC
1987311 TTT-TT-TTTTCCC
1 TTTCTTATTTTCCC
*
1987323 TCTCTT
1 TTTCTT
1987329 TTAATATTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 8 0.29
13 2 0.07
14 8 0.29
15 10 0.36
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTCTTATTTTCCC
Found at i:1987938 original size:23 final size:22
Alignment explanation
Indices: 1987873--1987939 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 22
1987863 TTTAATAGCT
*
1987873 TTTTTTTTATTTTTCAATTTTTTA
1 TTTTTTTTATTTTTC--TTTTTCA
*
1987897 TTTTGTTGTT-TTTTCCTTTTTCA
1 TTTT-TT-TTATTTTTCTTTTTCA
1987920 TTTTTTTTATTTTATCTTTT
1 TTTTTTTTATTTT-TCTTTT
1987940 ATTAGATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
21 2 0.06
22 6 0.17
23 15 0.42
24 4 0.11
25 7 0.19
26 2 0.06
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.79
Consensus pattern (22 bp):
TTTTTTTTATTTTTCTTTTTCA
Found at i:1987939 original size:15 final size:15
Alignment explanation
Indices: 1987874--1987932 Score: 55
Period size: 16 Copynumber: 3.8 Consensus size: 15
1987864 TTAATAGCTT
1987874 TTTTTTTATTTTTCA
1 TTTTTTTATTTTTCA
* **
1987889 ATTTTTTATTTTGTTG
1 TTTTTTTATTTT-TCA
**
1987905 TTTTTTCCTTTTTCA
1 TTTTTTTATTTTTCA
1987920 TTTTTTTTATTTT
1 -TTTTTTTATTTT
1987933 ATCTTTTATT
Statistics
Matches: 32, Mismatches: 10, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
15 12 0.38
16 20 0.62
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (15 bp):
TTTTTTTATTTTTCA
Found at i:1988804 original size:21 final size:18
Alignment explanation
Indices: 1988763--1988800 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
1988753 ATTGACATTC
1988763 TTAAATTATAATTATATA
1 TTAAATTATAATTATATA
*
1988781 TTAAATATATAATTACATA
1 TTAAAT-TATAATTATATA
1988800 T
1 T
1988801 ATTATGTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAATTATAATTATATA
Found at i:1989225 original size:25 final size:25
Alignment explanation
Indices: 1989189--1989240 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
1989179 ATAAAAGAAT
1989189 AAGACTACTTGTCTCTTGAAGTTAA
1 AAGACTACTTGTCTCTTGAAGTTAA
*
1989214 AAGACTATTTGTCTCTTGAAGTTAA
1 AAGACTACTTGTCTCTTGAAGTTAA
1989239 AA
1 AA
1989241 AATTATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (25 bp):
AAGACTACTTGTCTCTTGAAGTTAA
Found at i:1989319 original size:3 final size:3
Alignment explanation
Indices: 1989311--1989339 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1989301 ATTTTGTCCA
1989311 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1989340 CAAAAAGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1990377 original size:12 final size:12
Alignment explanation
Indices: 1990360--1990385 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1990350 AAAGGTATAA
1990360 TTTTAAAAAAAT
1 TTTTAAAAAAAT
1990372 TTTTAAAAAAAT
1 TTTTAAAAAAAT
1990384 TT
1 TT
1990386 GAATTGAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTTAAAAAAAT
Found at i:2000235 original size:22 final size:22
Alignment explanation
Indices: 2000191--2000235 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
2000181 TTATCCTAAT
* *
2000191 TTAAATTTAAAATTAATATAAA
1 TTAAATTTAAAATTAAAAAAAA
2000213 TTAAATTT-AAATTATAAAAAAA
1 TTAAATTTAAAATTA-AAAAAAA
2000235 T
1 T
2000236 ATAATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTAAATTTAAAATTAAAAAAAA
Found at i:2002101 original size:36 final size:37
Alignment explanation
Indices: 2002032--2002102 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 37
2002022 CTCTTCTTTA
*
2002032 GTCCGTAACATTCTCTCCCACCCAAACTTGTGACGAG
1 GTCCGTAACATTCTCTCCCACCCAAACTCGTGACGAG
* * *
2002069 GTCCGTAACATT-TTTTCCACCCAATCTCGTGACG
1 GTCCGTAACATTCTCTCCCACCCAAACTCGTGACG
2002103 TCCTTGTCAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 18 0.60
37 12 0.40
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.28
Consensus pattern (37 bp):
GTCCGTAACATTCTCTCCCACCCAAACTCGTGACGAG
Found at i:2008422 original size:35 final size:35
Alignment explanation
Indices: 2008374--2008444 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
2008364 CCATCATCCA
*
2008374 ACATATATGTCAAAGCA-AGTATATATATTAAGCAC
1 ACATATATATCAAAGCATAG-ATATATATTAAGCAC
* * *
2008409 ACATATGTATCAAAGCATAGATTTATTTTAAGCAC
1 ACATATATATCAAAGCATAGATATATATTAAGCAC
2008444 A
1 A
2008445 TGTATTCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 29 0.94
36 2 0.06
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (35 bp):
ACATATATATCAAAGCATAGATATATATTAAGCAC
Found at i:2009461 original size:41 final size:41
Alignment explanation
Indices: 2009416--2009507 Score: 166
Period size: 41 Copynumber: 2.2 Consensus size: 41
2009406 AGCTTTAAAC
*
2009416 TTTTGATACTCTTGAGTTCTTGAGAAAATAAAAATATGGAT
1 TTTTGATACTCTTGAGTTCTTGAGAAAATAAAAATATGAAT
*
2009457 TTTTGATACTCTTGAGTTTTTGAGAAAATAAAAATATGAAT
1 TTTTGATACTCTTGAGTTCTTGAGAAAATAAAAATATGAAT
2009498 TTTTGATACT
1 TTTTGATACT
2009508 TTGTTTCTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (41 bp):
TTTTGATACTCTTGAGTTCTTGAGAAAATAAAAATATGAAT
Found at i:2012317 original size:21 final size:22
Alignment explanation
Indices: 2012283--2012342 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 22
2012273 TTTTATTTTT
2012283 TATATATAATAAT-AATAATAATAAA
1 TATATA-AATAATAAAT-AT-A-AAA
2012308 TATATAAAT-ATAAATATAAAA
1 TATATAAATAATAAATATAAAA
*
2012329 GATATAAA-AATAAA
1 TATATAAATAATAAA
2012343 AAATAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
21 15 0.47
22 1 0.03
23 4 0.12
24 6 0.19
25 6 0.19
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (22 bp):
TATATAAATAATAAATATAAAA
Found at i:2017166 original size:24 final size:26
Alignment explanation
Indices: 2017119--2017170 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 26
2017109 GCTTTGATAT
2017119 TGTGTAAAAAAACTAAGAAATAAAAC
1 TGTGTAAAAAAACTAAGAAATAAAAC
*
2017145 TGTGT-AAAAAACTAA-AAGTAAAAC
1 TGTGTAAAAAAACTAAGAAATAAAAC
2017169 TG
1 TG
2017171 AATGTATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 10 0.40
25 10 0.40
26 5 0.20
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (26 bp):
TGTGTAAAAAAACTAAGAAATAAAAC
Found at i:2017351 original size:22 final size:22
Alignment explanation
Indices: 2017315--2017356 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2017305 TTTTTGTCCT
**
2017315 TAATTCTAGGGATACAAATACC
1 TAATTCTAGAAATACAAATACC
*
2017337 TAATTCTAGAAATACGAATA
1 TAATTCTAGAAATACAAATA
2017357 TAAATATATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (22 bp):
TAATTCTAGAAATACAAATACC
Found at i:2023514 original size:13 final size:13
Alignment explanation
Indices: 2023487--2023539 Score: 63
Period size: 13 Copynumber: 4.0 Consensus size: 13
2023477 TTATTTTTTT
2023487 TCCTTTCTTCCTTC
1 TCCTTTC-TCCTTC
*
2023501 TCC-TTCTCTTTTC
1 TCCTTTCTC-CTTC
2023514 TCCTTTCTCCTTC
1 TCCTTTCTCCTTC
*
2023527 TCTTTTCTCCTTC
1 TCCTTTCTCCTTC
2023540 ATCATCTCTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
12 2 0.06
13 24 0.71
14 8 0.24
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (13 bp):
TCCTTTCTCCTTC
Found at i:2023521 original size:20 final size:20
Alignment explanation
Indices: 2023498--2023538 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2023488 CCTTTCTTCC
2023498 TTCTCCTTCTCTTTTCTCCT
1 TTCTCCTTCTCTTTTCTCCT
2023518 TTCTCCTTCTCTTTTCTCCT
1 TTCTCCTTCTCTTTTCTCCT
2023538 T
1 T
2023539 CATCATCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (20 bp):
TTCTCCTTCTCTTTTCTCCT
Found at i:2025224 original size:20 final size:21
Alignment explanation
Indices: 2025201--2025253 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
2025191 AACTAAGGTC
*
2025201 AAATTTAGTC-CACAAAGTCA
1 AAATTTAGTCAAACAAAGTCA
*
2025221 AAA-TTAGTCAAACAAAGTTA
1 AAATTTAGTCAAACAAAGTCA
*
2025241 AAATTGA-TCAAAC
1 AAATTTAGTCAAAC
2025254 TCTATAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 6 0.21
20 20 0.71
21 2 0.07
ACGTcount: A:0.51, C:0.15, G:0.09, T:0.25
Consensus pattern (21 bp):
AAATTTAGTCAAACAAAGTCA
Found at i:2029814 original size:145 final size:145
Alignment explanation
Indices: 2029550--2029824 Score: 338
Period size: 145 Copynumber: 1.9 Consensus size: 145
2029540 TGATTTTAAA
* * *
2029550 ACACTAAAAATTATGAAATATTACAAAATTGATATCTGAAAAGTTTCATGAAAATCCAAGCTCAA
1 ACACTAAAAATCATGAAATATTACAAAATTAAGATCTGAAAAGTTTCATGAAAATCCAAGCTCAA
* * **
2029615 GAAAGTCAAATTACAAAAATATACTTGTAAGGGTATTTTGATAATTTTGCACTTTCTAGGGTACT
66 GAAAGTCAAATTACAAAAATACACTTATAAGGGTATTTTGATAATTTCACACTTTCTAGGGTACT
2029680 GGTGTAATTTCAATT
131 GGTGTAATTTCAATT
* ** **
2029695 ACACTAAAAGTCATGAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAATCCAAGCT-TG
1 ACACTAAAAATCATGAAATATTACAAAATTAAGATCTGAAAAGTTTCATGAAAATCCAAGCTCAA
* * * * * * * *
2029759 GAAAGGAT-AAATTACGAAAATGCCCTTATAGGGGTATTTTGGTAATTTCATACTTTTTTGGGTA
66 GAAA-G-TCAAATTACAAAAATACACTTATAAGGGTATTTTGATAATTTCACACTTTCTAGGGTA
2029823 CT
129 CT
2029825 AATGTGATTT
Statistics
Matches: 108, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
144 4 0.04
145 103 0.95
146 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (145 bp):
ACACTAAAAATCATGAAATATTACAAAATTAAGATCTGAAAAGTTTCATGAAAATCCAAGCTCAA
GAAAGTCAAATTACAAAAATACACTTATAAGGGTATTTTGATAATTTCACACTTTCTAGGGTACT
GGTGTAATTTCAATT
Found at i:2029835 original size:145 final size:145
Alignment explanation
Indices: 2029542--2029854 Score: 337
Period size: 145 Copynumber: 2.2 Consensus size: 145
2029532 CATTTTTGTG
* * * * *
2029542 ATTTTAAA-ACACTAAAAATTATGAAATATTACAAAATTGATATCTGAAAAGTTTCATGAAAATC
1 ATTTCAAATACACTAAAAGTCATGAAATATTACAAAATTAAGATCTGAAAAGTTTCATGAAAATC
* * **
2029606 CAAGCTCAAGAAAGTCAAATTACAAAAATATACTTGTAAGGGTATTTTGATAATTTTGCACTTTC
66 CAAGCTCAAGAAAGTCAAATTACAAAAATACACTTATAAGGGTATTTTGATAATTTCACACTTTC
**
2029671 TAGGGTACTGGTGTA
131 TAGGGTACTAATGTA
* **
2029686 ATTTCAATTACACTAAAAGTCATGAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAATC
1 ATTTCAAATACACTAAAAGTCATGAAATATTACAAAATTAAGATCTGAAAAGTTTCATGAAAATC
** * * * * * *
2029751 CAAGCT-TGGAAAGGAT-AAATTACGAAAATGCCCTTATAGGGGTATTTTGGTAATTTCATACTT
66 CAAGCTCAAGAAA-G-TCAAATTACAAAAATACACTTATAAGGGTATTTTGATAATTTCACACTT
* * *
2029814 TTTTGGGTACTAATGTG
129 TCTAGGGTACTAATGTA
*
2029831 ATTTCAAATGCA-TCAAAAGTCATG
1 ATTTCAAATACACT-AAAAGTCATG
2029855 GGTATTTTGG
Statistics
Matches: 138, Mismatches: 27, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
144 11 0.08
145 126 0.91
146 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.34
Consensus pattern (145 bp):
ATTTCAAATACACTAAAAGTCATGAAATATTACAAAATTAAGATCTGAAAAGTTTCATGAAAATC
CAAGCTCAAGAAAGTCAAATTACAAAAATACACTTATAAGGGTATTTTGATAATTTCACACTTTC
TAGGGTACTAATGTA
Found at i:2029868 original size:64 final size:64
Alignment explanation
Indices: 2029790--2029918 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
2029780 GCCCTTATAG
2029790 GGGTATTTTGGTAATTTCATACTTTTTTGGGTACTAATGTGATTTCAAATGCATCAAAAGTCAT
1 GGGTATTTTGGTAATTTCATACTTTTTTGGGTACTAATGTGATTTCAAATGCATCAAAAGTCAT
2029854 GGGTATTTTGGTAATTTCATACTTTTTTGGGTACTAATGTGATTTCAAATGCATCAAAAGTCAT
1 GGGTATTTTGGTAATTTCATACTTTTTTGGGTACTAATGTGATTTCAAATGCATCAAAAGTCAT
2029918 G
1 G
2029919 AAATATTATG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (64 bp):
GGGTATTTTGGTAATTTCATACTTTTTTGGGTACTAATGTGATTTCAAATGCATCAAAAGTCAT
Found at i:2031397 original size:20 final size:20
Alignment explanation
Indices: 2031364--2031418 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
2031354 TTAAATCTAG
* * *
2031364 TCAAACTTGATCAAACTTAA
1 TCAAAATTGATCAAAATAAA
*
2031384 TCAAAATTGGTCAAAATAAA
1 TCAAAATTGATCAAAATAAA
2031404 TC-AAATTAGATCAAA
1 TCAAAATT-GATCAAA
2031419 CTCATGTCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 5 0.17
20 24 0.83
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.27
Consensus pattern (20 bp):
TCAAAATTGATCAAAATAAA
Found at i:2033445 original size:3 final size:3
Alignment explanation
Indices: 2033437--2033477 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
2033427 CAAAAATATT
2033437 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2033478 TTTAACAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2039202 original size:21 final size:20
Alignment explanation
Indices: 2039176--2039213 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2039166 ATATATATAT
2039176 TTTTTTATTTTGTTTTTTTCC
1 TTTTTT-TTTTGTTTTTTTCC
2039197 TTTTTTTTTT-TTTTTTT
1 TTTTTTTTTTGTTTTTTT
2039214 TGCCAATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 4 0.24
21 6 0.35
ACGTcount: A:0.03, C:0.05, G:0.03, T:0.89
Consensus pattern (20 bp):
TTTTTTTTTTGTTTTTTTCC
Found at i:2039203 original size:22 final size:20
Alignment explanation
Indices: 2039175--2039214 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2039165 AATATATATA
2039175 TTTTTTTATTTTGTTTTTTTCC
1 TTTTTTT-TTTT-TTTTTTTCC
2039197 TTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTT
2039215 GCCAATTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.03, C:0.05, G:0.03, T:0.90
Consensus pattern (20 bp):
TTTTTTTTTTTTTTTTTTCC
Found at i:2039711 original size:17 final size:19
Alignment explanation
Indices: 2039676--2039712 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2039666 ATAAATTTTA
2039676 AAAAAAATTAATAATATAT
1 AAAAAAATTAATAATATAT
* *
2039695 AAAAATATTAAAAATATA
1 AAAAAAATTAATAATATA
2039713 GTTTATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAAAAATTAATAATATAT
Found at i:2039792 original size:25 final size:24
Alignment explanation
Indices: 2039750--2039802 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
2039740 TATTTAATGA
* *
2039750 TAAAAATTATATAAAAAATTTTAT
1 TAAAAATTATATAAAAAAATATAT
**
2039774 TAAAAATATATATTTAAAAATATAT
1 TAAAAAT-TATATAAAAAAATATAT
2039799 TAAA
1 TAAA
2039803 TTTTATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
TAAAAATTATATAAAAAAATATAT
Found at i:2039796 original size:12 final size:13
Alignment explanation
Indices: 2039750--2039802 Score: 58
Period size: 12 Copynumber: 4.3 Consensus size: 13
2039740 TATTTAATGA
2039750 TAAAAAT-TATAT
1 TAAAAATATATAT
* *
2039762 AAAAAAT-TTTAT
1 TAAAAATATATAT
2039774 TAAAAATATATAT
1 TAAAAATATATAT
*
2039787 TTAAAA-ATATAT
1 TAAAAATATATAT
2039799 TAAA
1 TAAA
2039803 TTTTATTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 25 0.74
13 9 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAAATATATAT
Found at i:2039872 original size:27 final size:27
Alignment explanation
Indices: 2039787--2039872 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 27
2039777 AAATATATAT
*
2039787 TTAAAAATATATTAAATTTT-ATTTTT-
1 TTAAAAA-ATTTTAAATTTTAATTTTTA
** * *
2039813 TTTCAAAA-TTTACACTATTAATTTTATA
1 TTAAAAAATTTTA-AATTTTAATTTT-TA
*
2039841 ATAAAAAATTTTAAATTTTAATTTTTA
1 TTAAAAAATTTTAAATTTTAATTTTTA
2039868 TTAAA
1 TTAAA
2039873 TTATTTTTAA
Statistics
Matches: 44, Mismatches: 11, Indels: 9
0.69 0.17 0.14
Matches are distributed among these distances:
24 3 0.07
25 5 0.11
26 10 0.23
27 7 0.16
28 15 0.34
29 4 0.09
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (27 bp):
TTAAAAAATTTTAAATTTTAATTTTTA
Found at i:2040085 original size:61 final size:61
Alignment explanation
Indices: 2040010--2040131 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
2040000 GGAAGGATAA
*
2040010 ATGGGTAATCCATATTTTTGAAAATCTTGCAATTTGTTTATCTAATTGTCTATGATATTTG
1 ATGGGTAATCCATATTTTTGAAAATCTTGCAATGTGTTTATCTAATTGTCTATGATATTTG
2040071 ATGGGTAATCCATATTTTTGAAAATCTTGCAATGTGTTTATCTAATTGTCTATGATATTTG
1 ATGGGTAATCCATATTTTTGAAAATCTTGCAATGTGTTTATCTAATTGTCTATGATATTTG
2040132 TTTTAACTAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.47
Consensus pattern (61 bp):
ATGGGTAATCCATATTTTTGAAAATCTTGCAATGTGTTTATCTAATTGTCTATGATATTTG
Found at i:2045142 original size:3 final size:3
Alignment explanation
Indices: 2045134--2045196 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
2045124 GTTTTTGAGA
2045134 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2045182 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
2045197 GGTAAAGCAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2046166 original size:22 final size:23
Alignment explanation
Indices: 2046122--2046167 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
2046112 AATTTCAATG
* **
2046122 TTTTAAATGTTATGTTATGAAAT
1 TTTTAAATGTAATGTTAAAAAAT
2046145 TTTTAAATG-AATGTTAAAAAAT
1 TTTTAAATGTAATGTTAAAAAAT
2046167 T
1 T
2046168 ATTTTATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (23 bp):
TTTTAAATGTAATGTTAAAAAAT
Found at i:2049955 original size:14 final size:14
Alignment explanation
Indices: 2049936--2049987 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
2049926 AATTCATTTT
*
2049936 TTAAAAAAATTAAA
1 TTAAAAAAATAAAA
2049950 TTAAAAAAATAAAA
1 TTAAAAAAATAAAA
* *
2049964 -TAACAAAA-AAAC
1 TTAAAAAAATAAAA
*
2049976 TTAAATAAATAA
1 TTAAAAAAATAA
2049988 TAAAAAATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 3 0.10
13 13 0.42
14 15 0.48
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (14 bp):
TTAAAAAAATAAAA
Found at i:2050257 original size:22 final size:22
Alignment explanation
Indices: 2050229--2050282 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
2050219 AATTAAGGAT
*
2050229 TGCAACTGCACCCCACT-AAAGG
1 TGCAACTGAACCCCACTGAAA-G
*
2050251 TGTAACTGAACCCCACTGAAAG
1 TGCAACTGAACCCCACTGAAAG
2050273 TGCAACTGAA
1 TGCAACTGAA
2050283 TCCAAATGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 25 0.89
23 3 0.11
ACGTcount: A:0.35, C:0.30, G:0.19, T:0.17
Consensus pattern (22 bp):
TGCAACTGAACCCCACTGAAAG
Found at i:2050659 original size:20 final size:18
Alignment explanation
Indices: 2050630--2050667 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
2050620 CTTATCGAGC
2050630 TTTTTTATTTTAATATATA
1 TTTTTTATTTTAAT-TATA
2050649 TTTTATTATTTTAATTATA
1 TTTT-TTATTTTAATTATA
2050668 AATTACAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTTATTTTAATTATA
Found at i:2061232 original size:13 final size:13
Alignment explanation
Indices: 2061214--2061244 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2061204 TTTTATTAAA
2061214 TTTATTAAAATTT
1 TTTATTAAAATTT
*
2061227 TTTATTAATATTT
1 TTTATTAAAATTT
2061240 TTTAT
1 TTTAT
2061245 ATTATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTATTAAAATTT
Found at i:2074489 original size:120 final size:121
Alignment explanation
Indices: 2074207--2074536 Score: 464
Period size: 120 Copynumber: 2.7 Consensus size: 121
2074197 AAAAACATAT
* * * * *
2074207 AAGGAAGTCAAGCTAATCAACAAAATAATGGACAGCTTACTATACACGTGAAACTTATCCTTTTT
1 AAGGAAGTCAAGCTAATCAAC-AAA-AATGGGCAGCTTGCAATACACGTGAATCTCATCCTTTTT
* * * * * **
2074272 AGCATTCAAAATCCAGCCCCGACGGTTTTCAATTTTCGACTATAAGCTTCTTACATGC
64 AACATTCAAAGTCCAGCCCCTATGGTTTTCAACTTTCGACTATAAGCTTCCGACATGC
* *
2074330 AAGGAAGTCAAGCTAATCAACAAAAACGGGCAGCGTGCAATACACGTGAATCTCATCCTTTTTAA
1 AAGGAAGTCAAGCTAATCAACAAAAATGGGCAGCTTGCAATACACGTGAATCTCATCCTTTTTAA
* * *
2074395 CATTGAAAGTCCAGGCCCTATGGTTTTCAACTTTCGGCTAT-AGCTTCCGACATGC
66 CATTCAAAGTCCAGCCCCTATGGTTTTCAACTTTCGACTATAAGCTTCCGACATGC
* *
2074450 AAGGAAGTCAAGCTAATGAACAAAAATGGGCAGCTTGCAATACACGTGAATCTCACCCTTTTTAA
1 AAGGAAGTCAAGCTAATCAACAAAAATGGGCAGCTTGCAATACACGTGAATCTCATCCTTTTTAA
2074515 CATTCAAAGTCCAGCCCCTATG
66 CATTCAAAGTCCAGCCCCTATG
2074537 ACCTATATTT
Statistics
Matches: 184, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
120 93 0.51
121 67 0.36
122 3 0.02
123 21 0.11
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (121 bp):
AAGGAAGTCAAGCTAATCAACAAAAATGGGCAGCTTGCAATACACGTGAATCTCATCCTTTTTAA
CATTCAAAGTCCAGCCCCTATGGTTTTCAACTTTCGACTATAAGCTTCCGACATGC
Found at i:2076119 original size:31 final size:31
Alignment explanation
Indices: 2076084--2076144 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
2076074 AATCAAGGCG
2076084 TAAATTTTCAGAATTGATCTGGGTTCTTATA
1 TAAATTTTCAGAATTGATCTGGGTTCTTATA
2076115 TAAATTTTCAGAATTGATCTGGGTTCTTAT
1 TAAATTTTCAGAATTGATCTGGGTTCTTAT
2076145 CATTTTAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (31 bp):
TAAATTTTCAGAATTGATCTGGGTTCTTATA
Found at i:2076585 original size:44 final size:44
Alignment explanation
Indices: 2076494--2077084 Score: 606
Period size: 44 Copynumber: 13.5 Consensus size: 44
2076484 TTAAGGCTCT
* * * * ** *
2076494 TCTAAACAGAGGCTCAA-AGCTTTTGAAAAGTAAATGAGGCTCT
1 TCTAAATAGAGGCACAACAACTTTTGAAAAGTAAATAAAACTCC
*
2076537 TCTAAATAGAGGCACGACAACTTTTGAAAAGTAAATAAAACAT-C
1 TCTAAATAGAGGCACAACAACTTTTGAAAAGTAAATAAAAC-TCC
**
2076581 TCTAAATAGAGGCATGACAACTTTTGAAAAGTAAATAAAACTCC
1 TCTAAATAGAGGCACAACAACTTTTGAAAAGTAAATAAAACTCC
* * * *
2076625 TCTAAATGGAGGCGCAACAACTTTTTAAAGGTAAATAAAACTCC
1 TCTAAATAGAGGCACAACAACTTTTGAAAAGTAAATAAAACTCC
* * * *
2076669 TCTAAATAAAGGCACGACAACTTTTGAAAA--AAAAAAAACTTC
1 TCTAAATAGAGGCACAACAACTTTTGAAAAGTAAATAAAACTCC
* **
2076711 TATAAACTA-AGGCATGACAACTTTTGAAAAGTAAATAAAACTCC
1 TCTAAA-TAGAGGCACAACAACTTTTGAAAAGTAAATAAAACTCC
* *
2076755 TCTAAATAGAGGCACAACAACATTTGAAAGGTAAATAAAACTCC
1 TCTAAATAGAGGCACAACAACTTTTGAAAAGTAAATAAAACTCC
* * * * * *
2076799 TTTAAATAGAGGAACAATAAC-TTTCAAAAGAAAAATAAAGCTCC
1 TCTAAATAGAGGCACAACAACTTTTGAAAAG-TAAATAAAACTCC
** * ** ** * * *
2076843 TCTAAGCAAAGATATGATAACTTTTGAAAAGTAAATAGAACTGC
1 TCTAAATAGAGGCACAACAACTTTTGAAAAGTAAATAAAACTCC
* *
2076887 TCTAAACAGAGGCACGACAACTTTTGAAAAGTAAATAAAACT-C
1 TCTAAATAGAGGCACAACAACTTTTGAAAAGTAAATAAAACTCC
*
2076930 TTTAAATAGAGGCACAACAACTTTT-AAAAGGTAAATAAAACTCC
1 TCTAAATAGAGGCACAACAACTTTTGAAAA-GTAAATAAAACTCC
** * * *
2076974 TCTAAGCAGAAGCACAACAACTTTTGAAAGGTAAATAAAGCTCC
1 TCTAAATAGAGGCACAACAACTTTTGAAAAGTAAATAAAACTCC
* * *
2077018 TCTAAACAGAGG-AGCAACAACTTTTTAAAAGTAAATAAAACTTC
1 TCTAAATAGAGGCA-CAACAACTTTTGAAAAGTAAATAAAACTCC
* *
2077062 TTTAAATAGAGGCACAATAACTT
1 TCTAAATAGAGGCACAACAACTT
2077085 ATCATAAAAT
Statistics
Matches: 457, Mismatches: 77, Indels: 27
0.81 0.14 0.05
Matches are distributed among these distances:
42 39 0.09
43 62 0.14
44 343 0.75
45 13 0.03
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (44 bp):
TCTAAATAGAGGCACAACAACTTTTGAAAAGTAAATAAAACTCC
Found at i:2076845 original size:174 final size:174
Alignment explanation
Indices: 2076539--2077076 Score: 672
Period size: 174 Copynumber: 3.1 Consensus size: 174
2076529 GAGGCTCTTC
**
2076539 TAAA-TAGAGGCACGACAACTTTTGAAAAGTAAATAAAACATCTCTAAATAGAGGCATGACAACT
1 TAAACTAGAGGCACGACAACTTTTGAAAAGTAAATAAAAC-TCTCTAAATAGAGGCACAACAACT
* * * * *
2076603 TTTGAAAAGTAAATAAAACTCCTCTAAATGGAGGCGCAACAACTTTTTAAAGGTAAATAAAACTC
65 TTTGAAAGGTAAATAAAACTCCTCTAAATAGAGGCACAACAACTTTTAAAAGGTAAATAAAGCTC
* *
2076668 CTCTAAATAAAGGCACGACAACTTTTGAAAA-AAAAAAAACTTCTA
130 CTCTAAACAAAGG-ACGACAACTTTTGAAAAGAAATAAAACTTCTA
* *
2076713 TAAACTA-AGGCATGACAACTTTTGAAAAGTAAATAAAACTCCTCTAAATAGAGGCACAACAACA
1 TAAACTAGAGGCACGACAACTTTTGAAAAGTAAATAAAACT-CTCTAAATAGAGGCACAACAACT
* * * * **
2076777 TTTGAAAGGTAAATAAAACTCCTTTAAATAGAGGAACAATAACTTTCAAAAGAAAAATAAAGCTC
65 TTTGAAAGGTAAATAAAACTCCTCTAAATAGAGGCACAACAACTTTTAAAAGGTAAATAAAGCTC
* * * * * * *
2076842 CTCTAAGCAAAGATATGATAACTTTTGAAAAGTAAATAGAACTGCTC
130 CTCTAAACAAAG-GACGACAACTTTTGAAAAG-AAATAAAACTTCTA
*
2076889 TAAAC-AGAGGCACGACAACTTTTGAAAAGTAAATAAAACTCTTTAAATAGAGGCACAACAACTT
1 TAAACTAGAGGCACGACAACTTTTGAAAAGTAAATAAAACTCTCTAAATAGAGGCACAACAACTT
* ** * *
2076953 TTAAAAGGTAAATAAAACTCCTCTAAGCAGAAGCACAACAACTTTTGAAAGGTAAATAAAGCTCC
66 TTGAAAGGTAAATAAAACTCCTCTAAATAGAGGCACAACAACTTTTAAAAGGTAAATAAAGCTCC
* * * *
2077018 TCTAAACAGAGGAGCAACAACTTTTTAAAAGTAAATAAAACTTCTT
131 TCTAAACAAAGGA-CGACAACTTTTGAAAAG-AAATAAAACTTCTA
2077064 TAAA-TAGAGGCAC
1 TAAACTAGAGGCAC
2077077 AATAACTTAT
Statistics
Matches: 308, Mismatches: 48, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
173 1 0.00
174 135 0.44
175 125 0.41
176 47 0.15
ACGTcount: A:0.47, C:0.16, G:0.13, T:0.23
Consensus pattern (174 bp):
TAAACTAGAGGCACGACAACTTTTGAAAAGTAAATAAAACTCTCTAAATAGAGGCACAACAACTT
TTGAAAGGTAAATAAAACTCCTCTAAATAGAGGCACAACAACTTTTAAAAGGTAAATAAAGCTCC
TCTAAACAAAGGACGACAACTTTTGAAAAGAAATAAAACTTCTA
Found at i:2076892 original size:218 final size:216
Alignment explanation
Indices: 2076496--2077059 Score: 609
Period size: 218 Copynumber: 2.6 Consensus size: 216
2076486 AAGGCTCTTC
* * * * ** * *
2076496 TAAACAGAGGCTCAA-AGCTTTTGAAAAGTAAATGAGGCTCTTCTAAATAGAGGCACGACAACTT
1 TAAATAGAGGCACAACAACTTTTGAAAAGTAAATAAAACTCCTCTAAATAGAGGCACAACAACTT
* * ** * *
2076560 TTGAAAAGTAAATAAAACAT-CTCTAAATAGAGGCATGACAACTTTTGAAAAGTAAATAAAACTC
66 TTGAAAGGTAAATAAAAC-TCCTCTAAATAGAGGAACAACAAC-TTTCAAAAGAAAATAAAACTC
** * * * *
2076624 CTCTAAATGGAGGCGCAACAACTTTTTAAAGGTAAATAAAACTCCTCTAAATAAAGGCACGACAA
129 CTCTAAAAAGAGACG-AACAACTTTTGAAAAGTAAATAAAACTCCTCTAAACAAAGGCACGACAA
2076689 CTTTTGAAAA-AAAAAAAACTTCTA
193 CTTTTGAAAAGAAAAAAAAC-TCTA
** *
2076713 TAAACTA-AGGCATGACAACTTTTGAAAAGTAAATAAAACTCCTCTAAATAGAGGCACAACAACA
1 TAAA-TAGAGGCACAACAACTTTTGAAAAGTAAATAAAACTCCTCTAAATAGAGGCACAACAACT
* * *
2076777 TTTGAAAGGTAAATAAAACTCCTTTAAATAGAGGAACAATAACTTTCAAAAGAAAAATAAAGCTC
65 TTTGAAAGGTAAATAAAACTCCTCTAAATAGAGGAACAACAACTTTCAAAAG-AAAATAAAACTC
* * * * * *
2076842 CTCTAAGCAAAGATATG-ATAACTTTTGAAAAGTAAATAGAACTGCTCTAAACAGAGGCACGACA
129 CTCTAA--AAAGAGACGAACAACTTTTGAAAAGTAAATAAAACTCCTCTAAACAAAGGCACGACA
* *
2076906 ACTTTTGAAAAGTAAATAAAACTCTT
192 ACTTTTGAAAAG-AAAAAAAACTCTA
** *
2076932 TAAATAGAGGCACAACAACTTTT-AAAAGGTAAATAAAACTCCTCTAAGCAGAAGCACAACAACT
1 TAAATAGAGGCACAACAACTTTTGAAAA-GTAAATAAAACTCCTCTAAATAGAGGCACAACAACT
* * * * *
2076996 TTTGAAAGGTAAATAAAGCTCCTCTAAACAGAGGAGCAACAACTTTTTAAAAGTAAATAAAACT
65 TTTGAAAGGTAAATAAAACTCCTCTAAATAGAGGAACAACAAC-TTTCAAAAGAAAATAAAACT
2077060 TCTTTAAATA
Statistics
Matches: 288, Mismatches: 48, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
217 18 0.06
218 150 0.52
219 100 0.35
220 20 0.07
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.23
Consensus pattern (216 bp):
TAAATAGAGGCACAACAACTTTTGAAAAGTAAATAAAACTCCTCTAAATAGAGGCACAACAACTT
TTGAAAGGTAAATAAAACTCCTCTAAATAGAGGAACAACAACTTTCAAAAGAAAATAAAACTCCT
CTAAAAAGAGACGAACAACTTTTGAAAAGTAAATAAAACTCCTCTAAACAAAGGCACGACAACTT
TTGAAAAGAAAAAAAACTCTA
Found at i:2077481 original size:18 final size:18
Alignment explanation
Indices: 2077456--2077505 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
2077446 TGATACGAAT
2077456 GCAAATGTCAATATGAAC
1 GCAAATGTCAATATGAAC
* ** *
2077474 GTAAATGTCAATGCGAAT
1 GCAAATGTCAATATGAAC
2077492 GCAAATGTCAATAT
1 GCAAATGTCAATAT
2077506 TTGATGCAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (18 bp):
GCAAATGTCAATATGAAC
Found at i:2077793 original size:41 final size:41
Alignment explanation
Indices: 2077747--2077837 Score: 107
Period size: 41 Copynumber: 2.2 Consensus size: 41
2077737 TGTAGATGTG
*
2077747 AATGCAAATGTCTTT-CTCATGATGT-GAATGCTAA-TGATGCA
1 AATGCAAATGT-TTTCCTCATGATATAG-ATGC-AAGTGATGCA
*
2077788 AATGCAAATGTTTTCCTTATGATATAGATGCAAGTGATGCA
1 AATGCAAATGTTTTCCTCATGATATAGATGCAAGTGATGCA
*
2077829 AATGTAAAT
1 AATGCAAAT
2077838 ACCTTTTTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
40 5 0.11
41 38 0.86
42 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (41 bp):
AATGCAAATGTTTTCCTCATGATATAGATGCAAGTGATGCA
Found at i:2077924 original size:15 final size:15
Alignment explanation
Indices: 2077900--2077938 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
2077890 TACACATATG
*
2077900 AATGCGAATACAAAT
1 AATGCAAATACAAAT
2077915 AATGCAAATACAAAT
1 AATGCAAATACAAAT
*
2077930 GATGCAAAT
1 AATGCAAAT
2077939 TTGAATATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.54, C:0.13, G:0.13, T:0.21
Consensus pattern (15 bp):
AATGCAAATACAAAT
Found at i:2077938 original size:148 final size:148
Alignment explanation
Indices: 2077779--2078046 Score: 340
Period size: 148 Copynumber: 1.8 Consensus size: 148
2077769 TGTGAATGCT
* * *
2077779 AATGATGCAAATGCAAATGTTTTCCTTATGATATAGATGCAAGTGATGCAAATGTAAATACCT-T
1 AATGATGCAAATGCAAAT-ATCTCCTTATGATATAGATGCAAGTGATGCAAATGCAAATACCTCT
* * * * *
2077843 TTTTGATGCAGATGCAAACAATGTAAATGTAAATGTTTTTCTCATGATACACATATGAATGCGAA
65 TTTTGATGCAAATACAAACAATGCAAATGCAAATGTCTTTCTCATGATACACATATGAATGCGAA
2077908 TACAAATAATGCAAATACA
130 TACAAATAATGCAAATACA
*** * * * * * *
2077927 AATGATGCAAATTTGAATATCTCTTTTTGATATATATGCTAGTGATGCAAATGCGAATGCCTCTT
1 AATGATGCAAATGCAAATATCTCCTTATGATATAGATGCAAGTGATGCAAATGCAAATACCTCTT
* * *
2077992 TTTGATGCAAATACAAGCGATGCAAATGCAAATGTCTTTCTCATGATGCACATAT
66 TTTGATGCAAATACAAACAATGCAAATGCAAATGTCTTTCTCATGATACACATAT
2078047 AAGTGTGAAT
Statistics
Matches: 99, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
147 35 0.35
148 64 0.65
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (148 bp):
AATGATGCAAATGCAAATATCTCCTTATGATATAGATGCAAGTGATGCAAATGCAAATACCTCTT
TTTGATGCAAATACAAACAATGCAAATGCAAATGTCTTTCTCATGATACACATATGAATGCGAAT
ACAAATAATGCAAATACA
Found at i:2078014 original size:40 final size:40
Alignment explanation
Indices: 2077916--2078025 Score: 112
Period size: 40 Copynumber: 2.8 Consensus size: 40
2077906 AATACAAATA
* ** **
2077916 ATGCAAATACAAATGATGCAAATTTGAATATCTCTTTTTG
1 ATGCAAATACAAGTGATGCAAATGCGAATGCCTCTTTTTG
** * * *
2077956 ATATATATGCTAGTGATGCAAATGCGAATGCCTCTTTTTG
1 ATGCAAATACAAGTGATGCAAATGCGAATGCCTCTTTTTG
* *
2077996 ATGCAAATACAAGCGATGCAAATGCAAATG
1 ATGCAAATACAAGTGATGCAAATGCGAATG
2078026 TCTTTCTCAT
Statistics
Matches: 53, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (40 bp):
ATGCAAATACAAGTGATGCAAATGCGAATGCCTCTTTTTG
Found at i:2078118 original size:94 final size:94
Alignment explanation
Indices: 2078005--2078180 Score: 253
Period size: 94 Copynumber: 1.9 Consensus size: 94
2077995 GATGCAAATA
* * * * *
2078005 CAAGCGATGCAAATGCAAATGTCTTTCTCATGATGCACATATAAGTGTGAATGTAAATGATGCAA
1 CAAGCGATACAAATGCAAATATCTTTCTCATGATACACACATAAGTGTGAATGCAAATGATGCAA
2078070 ATGTAAATATCCCTTTTGTGATGTAGATG
66 ATGTAAATATCCCTTTTGTGATGTAGATG
* * * *
2078099 CAAGTGATACAAATGCAAATATCTTTCTCGTGATACATACATAAGTGTGAATGCAAATGATGGAA
1 CAAGCGATACAAATGCAAATATCTTTCTCATGATACACACATAAGTGTGAATGCAAATGATGCAA
* *
2078164 ATGTGAATATCTCTTTT
66 ATGTAAATATCCCTTTT
2078181 TTATGATGCA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 71 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (94 bp):
CAAGCGATACAAATGCAAATATCTTTCTCATGATACACACATAAGTGTGAATGCAAATGATGCAA
ATGTAAATATCCCTTTTGTGATGTAGATG
Found at i:2078267 original size:229 final size:228
Alignment explanation
Indices: 2077925--2078343 Score: 567
Period size: 229 Copynumber: 1.8 Consensus size: 228
2077915 AATGCAAATA
* *
2077925 CAAATGATGCAAATTTGAATATCTCTTTTTGATATATATGCTAGTGATGCAAATGCGAATGCCTC
1 CAAATGATGCAAATGTGAATATCTCTTTTTGATAAATATGC-AGTGATGCAAATGCGAATGCCTC
* * *
2077990 TTTTTGATGCAAATACAAGCGATGCAAATGCAAATGTCTTTCTCATGATGCACATATAAGTGTGA
65 TTTTTGATGCAAATACAAGCGATACAAATACAAATGTCTTTCTCATGATGCACACATAAGTGTGA
* * * ** *
2078055 ATGTAAATGATGCAAATGTAAATAT-CCCTTTT-GTGATGTAGATGCAAGTGATACAAATGCAAA
130 ATGCAAATAATGAAAATGTAAATATCCCCTTTTCGTGATACAGATGCAAGCGATACAAATGCAAA
2078118 TATCTTTCTCGTGATACATACATAAGTGTGAATG
195 TATCTTTCTCGTGATACATACATAAGTGTGAATG
*
2078152 CAAATGATGGAAATGTGAATATCTCTTTTTTATGATGCAAATATG-AGTGATGCAAATGCGAATG
1 CAAATGATGCAAATGTGAATATCTC--TTTT-TGAT--AAATATGCAGTGATGCAAATGCGAATG
* * * * * *
2078216 TCTC-TTTTGATGCTAATGCAAGTGATACAAATACGAATGTCTTTCTCATGATGCACACCTAAGT
61 CCTCTTTTTGATGCAAATACAAGCGATACAAATACAAATGTCTTTCTCATGATGCACACATAAGT
* * *
2078280 GTGAATGCAAATAATGAAAATGTGAATGTCCCCTTTTCGTGATACAGATGCAAGCGATGCAAAT
126 GTGAATGCAAATAATGAAAATGTAAATATCCCCTTTTCGTGATACAGATGCAAGCGATACAAAT
2078344 ATGAATGCAA
Statistics
Matches: 164, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
227 23 0.14
229 80 0.49
230 33 0.20
231 22 0.13
232 6 0.04
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (228 bp):
CAAATGATGCAAATGTGAATATCTCTTTTTGATAAATATGCAGTGATGCAAATGCGAATGCCTCT
TTTTGATGCAAATACAAGCGATACAAATACAAATGTCTTTCTCATGATGCACACATAAGTGTGAA
TGCAAATAATGAAAATGTAAATATCCCCTTTTCGTGATACAGATGCAAGCGATACAAATGCAAAT
ATCTTTCTCGTGATACATACATAAGTGTGAATG
Found at i:2078339 original size:135 final size:135
Alignment explanation
Indices: 2078088--2078343 Score: 316
Period size: 135 Copynumber: 1.9 Consensus size: 135
2078078 ATCCCTTTTG
* * *
2078088 TGATGTAGATGCAAGTGATACAAATGCAAATATCTTTCTCGTGATACATACATAAGTGTGAATGC
1 TGATGTAGATGCAAGTGATACAAATACAAATATCTTTCTCATGATACACACATAAGTGTGAATGC
* * * * * * ** *
2078153 AAATGATGGAAATGTGAATATCTCTTTTTTATGATGCAAATATGAGTGATGCAAATGCGAATGTC
66 AAATAATGAAAATGTGAATATCCCCTTTTCATGATACAAATACAAGCGATGCAAATGCGAATGTC
2078218 TCTTT
131 TCTTT
* * * *
2078223 TGATGCTA-ATGCAAGTGATACAAATACGAATGTCTTTCTCATGATGCACACCTAAGTGTGAATG
1 TGATG-TAGATGCAAGTGATACAAATACAAATATCTTTCTCATGATACACACATAAGTGTGAATG
* * * *
2078287 CAAATAATGAAAATGTGAATGTCCCCTTTTCGTGATACAGATGCAAGCGATGCAAAT
65 CAAATAATGAAAATGTGAATATCCCCTTTTCATGATACAAATACAAGCGATGCAAAT
2078344 ATGAATGCAA
Statistics
Matches: 100, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
135 98 0.98
136 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (135 bp):
TGATGTAGATGCAAGTGATACAAATACAAATATCTTTCTCATGATACACACATAAGTGTGAATGC
AAATAATGAAAATGTGAATATCCCCTTTTCATGATACAAATACAAGCGATGCAAATGCGAATGTC
TCTTT
Found at i:2081955 original size:9 final size:9
Alignment explanation
Indices: 2081913--2081955 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
2081903 GTTATAACCA
2081913 TTTTTCATTT
1 TTTTTC-TTT
*
2081923 CTTTCTCTTT
1 -TTTTTCTTT
*
2081933 TTTTTCTCT
1 TTTTTCTTT
2081942 TTTTTCTTT
1 TTTTTCTTT
2081951 TTTTT
1 TTTTT
2081956 TAAGACATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 20 0.71
10 3 0.11
11 5 0.18
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:2087310 original size:28 final size:28
Alignment explanation
Indices: 2087238--2087310 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
2087228 TATTCAAAGG
***
2087238 ACATAAACAAATTTATTTAAAAGCTAAT
1 ACATAAACAAAGGAATTTAAAAGCTAAT
**
2087266 ACATAAACAAATTAATTTAAAAGCTAAT
1 ACATAAACAAAGGAATTTAAAAGCTAAT
**
2087294 ACATGCACAAAGGAATT
1 ACATAAACAAAGGAATT
2087311 AAACATTCAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.27
Consensus pattern (28 bp):
ACATAAACAAAGGAATTTAAAAGCTAAT
Found at i:2087312 original size:32 final size:28
Alignment explanation
Indices: 2087238--2087297 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
2087228 TATTCAAAGG
*
2087238 ACATAAACAAATTTATTTAAAAGCTAAT
1 ACATAAACAAATTAATTTAAAAGCTAAT
2087266 ACATAAACAAATTAATTTAAAAGCTAAT
1 ACATAAACAAATTAATTTAAAAGCTAAT
2087294 ACAT
1 ACAT
2087298 GCACAAAGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (28 bp):
ACATAAACAAATTAATTTAAAAGCTAAT
Found at i:2087902 original size:119 final size:121
Alignment explanation
Indices: 2087645--2087971 Score: 437
Period size: 119 Copynumber: 2.7 Consensus size: 121
2087635 ATCATATACA
* * ** * * *
2087645 GAAGTCAAGCTAATCAACAAAATAATGGACTGCTTACTGTACACGTGAAACTTATCCTTTTTAGG
1 GAAGTCAAGCTAATCAAC-AAA-AATGGGCAGCTTACAATACACGTGAATCTCATCCTTTTTA-A
* *
2087710 CATTCAAAATCTAGCCCCTATGGTTTTCAATTTTCAGCTATAAGCTTCTTACATGCAAG
63 CATTCAAAATCGAGCCCCTATGGTTTTCAATTTTCAGCTATAAGCTTCTTACAAGCAAG
2087769 GAAGTCAAGCTAATCAACAAAAATGGGTCA-CTTACAATACACGTGAATCTCATCCTTTTTAACA
1 GAAGTCAAGCTAATCAACAAAAATGGG-CAGCTTACAATACACGTGAATCTCATCCTTTTTAACA
* * *
2087833 TTCAAAGTCGAG-CTCTATGGTTTTCAACTTTT-GGCTAT-AGCTTCTTACAAGCAAG
65 TTCAAAATCGAGCCCCTATGGTTTTCAA-TTTTCAGCTATAAGCTTCTTACAAGCAAG
* *
2087888 GAAGTCGAGCTAATCAACAAAAATGGGCAGCTTGCAATACACGTGAATCTCATCCTTTTTAACAT
1 GAAGTCAAGCTAATCAACAAAAATGGGCAGCTTACAATACACGTGAATCTCATCCTTTTTAACAT
* *
2087953 TCAAATTCCAGCCCCTATG
66 TCAAAATCGAGCCCCTATG
2087972 ACCTATTTTT
Statistics
Matches: 182, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
118 2 0.01
119 85 0.47
120 25 0.14
121 16 0.09
122 32 0.18
123 4 0.02
124 18 0.10
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (121 bp):
GAAGTCAAGCTAATCAACAAAAATGGGCAGCTTACAATACACGTGAATCTCATCCTTTTTAACAT
TCAAAATCGAGCCCCTATGGTTTTCAATTTTCAGCTATAAGCTTCTTACAAGCAAG
Found at i:2099445 original size:18 final size:18
Alignment explanation
Indices: 2099424--2099462 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2099414 TCCTAATGAC
2099424 ATTGATGGTTTTAGTGAT
1 ATTGATGGTTTTAGTGAT
* * *
2099442 ATTGGTTGTTTTGGTGAT
1 ATTGATGGTTTTAGTGAT
2099460 ATT
1 ATT
2099463 TATTTTTTGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.28, T:0.54
Consensus pattern (18 bp):
ATTGATGGTTTTAGTGAT
Found at i:2114827 original size:17 final size:17
Alignment explanation
Indices: 2114801--2114834 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2114791 TGACATGTAA
2114801 AAGAAAAATTTTAAGAG
1 AAGAAAAATTTTAAGAG
*
2114818 AAGAAGAATTTTAAGAG
1 AAGAAAAATTTTAAGAG
2114835 GAAATGGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.24
Consensus pattern (17 bp):
AAGAAAAATTTTAAGAG
Found at i:2115369 original size:21 final size:21
Alignment explanation
Indices: 2115345--2115387 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
2115335 TTTGCTAGTG
2115345 TGATTGAATTAGGACTTTTTA
1 TGATTGAATTAGGACTTTTTA
*
2115366 TGATTGGATTAGGACTTTTTA
1 TGATTGAATTAGGACTTTTTA
2115387 T
1 T
2115388 CCTAACGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.49
Consensus pattern (21 bp):
TGATTGAATTAGGACTTTTTA
Found at i:2115439 original size:31 final size:31
Alignment explanation
Indices: 2115399--2115459 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
2115389 CTAACGAGTG
**
2115399 GTATCAGAGCTGTGGTGA-TCCTCAATAAGTA
1 GTATCAGAGCTGTAATGATTCCT-AATAAGTA
*
2115430 GTATTAGAGCTGTAATGATTCCTAATAAGT
1 GTATCAGAGCTGTAATGATTCCTAATAAGT
2115460 GATATCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (31 bp):
GTATCAGAGCTGTAATGATTCCTAATAAGTA
Found at i:2116328 original size:31 final size:31
Alignment explanation
Indices: 2116290--2116355 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
2116280 ATTTTAGCTT
* * *
2116290 AACAAATGGTATTAGAGCTGTCGTGATCCTC
1 AACAAATGATATCAAAGCTGTCGTGATCCTC
* *
2116321 AACAAATGATATCAAAGCTGTGGTGATCCTT
1 AACAAATGATATCAAAGCTGTCGTGATCCTC
2116352 AACA
1 AACA
2116356 TATTATTGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (31 bp):
AACAAATGATATCAAAGCTGTCGTGATCCTC
Found at i:2118100 original size:17 final size:16
Alignment explanation
Indices: 2118054--2118100 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
2118044 ACTAAAAATC
2118054 GAAAG-GAAAAAAAAG
1 GAAAGCGAAAAAAAAG
* *
2118069 GAAAGGGAAAGAAAAGG
1 GAAAGCGAAA-AAAAAG
*
2118086 GAAAGCTAAAAAAAA
1 GAAAGCGAAAAAAAA
2118101 AAGAAACAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 5 0.19
16 8 0.31
17 13 0.50
ACGTcount: A:0.68, C:0.02, G:0.28, T:0.02
Consensus pattern (16 bp):
GAAAGCGAAAAAAAAG
Found at i:2122963 original size:32 final size:32
Alignment explanation
Indices: 2122921--2122996 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 32
2122911 TTGCCATTTA
* * **
2122921 GTTTCCTTCTCCGGTGGTAGCACTTCGGTTAG
1 GTTTCTTTCTCCGCTGGTAGCACTTCAATTAG
* * *
2122953 GTTTCTTTCTCTGCTGGTAGCTCTTCAATTGG
1 GTTTCTTTCTCCGCTGGTAGCACTTCAATTAG
2122985 GTTTCTTTCTCC
1 GTTTCTTTCTCC
2122997 TTTCGGTCTC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.08, C:0.25, G:0.22, T:0.45
Consensus pattern (32 bp):
GTTTCTTTCTCCGCTGGTAGCACTTCAATTAG
Found at i:2125869 original size:24 final size:19
Alignment explanation
Indices: 2125822--2125862 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
2125812 AATTAATTTT
2125822 TAATTAATATTTGATTTAA
1 TAATTAATATTTGATTTAA
2125841 TAATTAATATTTGATTTAA
1 TAATTAATATTTGATTTAA
2125860 TAA
1 TAA
2125863 AAAAATTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TAATTAATATTTGATTTAA
Found at i:2131237 original size:15 final size:15
Alignment explanation
Indices: 2131214--2131243 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2131204 TCCTATATAA
2131214 TAAAAATATAATATC
1 TAAAAATATAATATC
*
2131229 TAAATATATAATATC
1 TAAAAATATAATATC
2131244 ACATTTACAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAAAATATAATATC
Found at i:2132423 original size:15 final size:15
Alignment explanation
Indices: 2132384--2132425 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 15
2132374 AATGAAACTA
2132384 GAAGAAA-AATGGAG
1 GAAGAAAGAATGGAG
2132398 GACAGTAAAAGAATGGAG
1 GA-AG--AAAGAATGGAG
2132416 GAAGAAAGAA
1 GAAGAAAGAA
2132426 ATAGGGTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 2 0.08
15 8 0.33
17 5 0.21
18 9 0.38
ACGTcount: A:0.57, C:0.02, G:0.33, T:0.07
Consensus pattern (15 bp):
GAAGAAAGAATGGAG
Found at i:2132456 original size:21 final size:21
Alignment explanation
Indices: 2132410--2132456 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2132400 CAGTAAAAGA
* *
2132410 ATGGAGGAAGAAAGAAATAGG
1 ATGGAGGAAGAAAGAAAGAAG
* *
2132431 GTGGAGGAAGATAGAAAGAAG
1 ATGGAGGAAGAAAGAAAGAAG
2132452 ATGGA
1 ATGGA
2132457 CATGATGCTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.40, T:0.11
Consensus pattern (21 bp):
ATGGAGGAAGAAAGAAAGAAG
Done.