Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 9057482
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 30 of 37
Found at i:7325403 original size:18 final size:18
Alignment explanation
Indices: 7325380--7325414 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7325370 AGGGATTATC
7325380 AGTGGTCATTCGGGACAT
1 AGTGGTCATTCGGGACAT
*
7325398 AGTGGTCCTTCGGGACA
1 AGTGGTCATTCGGGACA
7325415 AACTTCAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:7328961 original size:126 final size:125
Alignment explanation
Indices: 7328819--7329078 Score: 403
Period size: 126 Copynumber: 2.1 Consensus size: 125
7328809 AATAGTACTA
* * * * * *
7328819 GTTTTGTTATTGTTGTGCATAATAAAATCGGTAAAAATTACCGAAAATATCATTATTTCTACCGG
1 GTTTTGTTACTATTGTGCATAACAAAACCGATAAAAATTACCGAAAACATCATTATTTCTACCGG
* * * *
7328884 TTTTGTTATTTTTTTTGGCATTTTACCGGGTTTCTTAACAAAATCGGTAAAAACGTTACCG
66 TTTTGTTA-TTATTTTGGCATTTTACCGAGTTTCTTAACAAAACCGGTAAAAACGCTACCG
7328945 GTTTTGTTACTATTGTGCATAACAAAACCGATAAAAATTACCGAAAACATCATTATTTCTACCGG
1 GTTTTGTTACTATTGTGCATAACAAAACCGATAAAAATTACCGAAAACATCATTATTTCTACCGG
* *
7329010 TTTTGTTATTATTTTGGCATTTTATCGAGTTTCTTAACAAAACCGGTAAAAATGCTACCG
66 TTTTGTTATTATTTTGGCATTTTACCGAGTTTCTTAACAAAACCGGTAAAAACGCTACCG
7329070 GTTTTGTTA
1 GTTTTGTTA
7329079 TTTTTTTACC
Statistics
Matches: 122, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
125 55 0.45
126 67 0.55
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (125 bp):
GTTTTGTTACTATTGTGCATAACAAAACCGATAAAAATTACCGAAAACATCATTATTTCTACCGG
TTTTGTTATTATTTTGGCATTTTACCGAGTTTCTTAACAAAACCGGTAAAAACGCTACCG
Found at i:7329814 original size:199 final size:199
Alignment explanation
Indices: 7329412--7329935 Score: 666
Period size: 200 Copynumber: 2.6 Consensus size: 199
7329402 GTAAACATAT
*
7329412 GTGTCGATACATTT-TCTAAAAGTATTGAT-CCAAAAACATCGATACCAATAATTATAATATAAT
1 GTGTCGATACATTTAT-TAAAAGTATTGATCCCAAAAACATCGAAACCAATAATTATAATATAAT
* * *
7329475 AGGTAAATTTACAATGTAATCGGTATAAATATACCGATTTTATGATAGAATAGGTCAACATAATG
65 AGGTAAATTTACAATGT-TTCGGTATAAATATACCGATTTTATGAGAAAATAGGTCAACATAATG
* * *
7329540 TATCGACACAAATTTAAAAAGTGTCGATACATTTTGTCTAGAATGAATGTCAAACGAGGTGCACG
129 TATCGACACAAATTTAAAAAGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGAGGTGCACA
7329605 CATAAA
194 CATAAA
* * *
7329611 GTGTCGATACATTTATTAAAAGTATTAATCCCAAAAACATCGAAACCGATAATTACAATATAATA
1 GTGTCGATACATTTATTAAAAGTATTGATCCCAAAAACATCGAAACCAATAATTATAATATAATA
* * *
7329676 GGTAAATTTACAATGTTTCCGATAGAAATATACCGATTTTATGAGAAAATAGGTCTACATAATGT
66 GGTAAATTTACAATGTTT-CGGTATAAATATACCGATTTTATGAGAAAATAGGTCAACATAATGT
** *** * *
7329741 ATCGACAC-GTTTTAAGTTTGTGTCGATAC-TTTTTTCCAGAATGAATGCCCAACGAGGTGCACA
130 ATCGACACAAATTTAA-AAAGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGAGGTGCACA
7329804 CATAAA
194 CATAAA
* * * **
7329810 GTGTCGATACATTTA--AAATTGTATCGATCCCAAAAACATCGAAACTAATAATTATAACGTAAT
1 GTGTCGATACATTTATTAAA-AGTATTGATCCCAAAAACATCGAAACCAATAATTATAATATAAT
* * * * *
7329873 AGGCAAATTTTCAATGTTATCGGTATAAATATACCG-GTTTAGTTAGAAAATAGGTCAATATAA
65 AGGTAAATTTACAATGTT-TCGGTATAAATATACCGATTTTA-TGAGAAAATAGGTCAACATAA
7329936 ATACTACCTA
Statistics
Matches: 282, Mismatches: 36, Indels: 15
0.85 0.11 0.05
Matches are distributed among these distances:
197 7 0.02
198 84 0.30
199 83 0.29
200 108 0.38
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (199 bp):
GTGTCGATACATTTATTAAAAGTATTGATCCCAAAAACATCGAAACCAATAATTATAATATAATA
GGTAAATTTACAATGTTTCGGTATAAATATACCGATTTTATGAGAAAATAGGTCAACATAATGTA
TCGACACAAATTTAAAAAGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGAGGTGCACACA
TAAA
Found at i:7330022 original size:64 final size:64
Alignment explanation
Indices: 7329943--7330096 Score: 211
Period size: 64 Copynumber: 2.4 Consensus size: 64
7329933 TAAATACTAC
* * * *
7329943 CTATTATATTATATAAGCGTTGCCTAATATGTTATTGTACTTGATAATATTTTCGATTAAAT-G
1 CTATTTTATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGATTAAATAG
* * * *
7330006 CATATTTTATTATATAAGCGCTACTTAATATGTTATTTTACTTGATAATATTTCCGCTTAAATAT
1 C-TATTTTATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGATTAAATAG
*
7330071 CTATTTTATTATATAAGCGATACCTA
1 CTATTTTATTATATAAGCGCTACCTA
7330097 TTGCATTATA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
63 1 0.01
64 77 0.97
65 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (64 bp):
CTATTTTATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGATTAAATAG
Found at i:7333769 original size:2 final size:2
Alignment explanation
Indices: 7333762--7333814 Score: 76
Period size: 2 Copynumber: 28.0 Consensus size: 2
7333752 AAAAATAGAC
*
7333762 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7333803 A- AT A- AT AT AT AT
1 AT AT AT AT AT AT AT
7333815 TTTTTATAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
1 3 0.07
2 43 0.93
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7333828 original size:21 final size:20
Alignment explanation
Indices: 7333816--7333853 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
7333806 AATATATATT
7333816 TTTTATAATATAA-ATAAAA
1 TTTTATAATATAATATAAAA
*
7333835 TTTTATAATA-AATACAAAA
1 TTTTATAATATAATATAAAA
7333854 ATAACTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
TTTTATAATATAATATAAAA
Found at i:7337654 original size:48 final size:47
Alignment explanation
Indices: 7337559--7337656 Score: 117
Period size: 48 Copynumber: 2.1 Consensus size: 47
7337549 TAGTTAGGTG
* * **
7337559 ACCAAATTGGAACAAAAGTAATAATTGAGGTACTAAATGTTTAGTTT
1 ACCAAAATGGAACAAAAGCAATAATTGAGGTACTAAATGTCAAGTTT
* *
7337606 ACCAAAATGGAACAAAAAGCGATAATTGGGGTACTAAAT-TCAATGTTT
1 ACCAAAATGGAAC-AAAAGCAATAATTGAGGTACTAAATGTCAA-GTTT
7337654 ACC
1 ACC
7337657 CTAAATGATT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
47 14 0.33
48 29 0.67
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (47 bp):
ACCAAAATGGAACAAAAGCAATAATTGAGGTACTAAATGTCAAGTTT
Found at i:7343888 original size:11 final size:11
Alignment explanation
Indices: 7343870--7343907 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
7343860 TTGTTTCTCG
7343870 TTTCTTTTT-T
1 TTTCTTTTTCT
7343880 TTTCTTTTTCT
1 TTTCTTTTTCT
*
7343891 TTTTTTTTTCT
1 TTTCTTTTTCT
7343902 ATTTCT
1 -TTTCT
7343908 GTATCTTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 11 0.46
12 4 0.17
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTCTTTTTCT
Found at i:7343894 original size:17 final size:17
Alignment explanation
Indices: 7343870--7343907 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
7343860 TTGTTTCTCG
*
7343870 TTTC-TTTTTTTTTCTT
1 TTTCTTTTTTTTTTCTA
7343886 TTTCTTTTTTTTTTCTA
1 TTTCTTTTTTTTTTCTA
7343903 TTTCT
1 TTTCT
7343908 GTATCTTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTCTTTTTTTTTTCTA
Found at i:7344405 original size:35 final size:35
Alignment explanation
Indices: 7344354--7344423 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
7344344 TTGTATGTTT
* *
7344354 TTTTATTTAATGATAATAAT-ATATATAATAATATA
1 TTTTATTTAATAATAATAATAAT-TAAAATAATATA
7344389 TTTTATTTAATAATAATAATAATTAAAATAATATA
1 TTTTATTTAATAATAATAATAATTAAAATAATATA
7344424 ATGAAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 30 0.94
36 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (35 bp):
TTTTATTTAATAATAATAATAATTAAAATAATATA
Found at i:7344667 original size:76 final size:76
Alignment explanation
Indices: 7344541--7346398 Score: 3338
Period size: 76 Copynumber: 24.4 Consensus size: 76
7344531 GATTGAAATA
*
7344541 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
*
7344606 TCGAAGGCTTT
66 CCGAAGGCTTT
*
7344617 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGATC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
*
7344682 CCGAATGCTTT
66 CCGAAGGCTTT
* *
7344693 TTGAAAACATCATGCACTAAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
7344758 CCGAAGGCTTT
66 CCGAAGGCTTT
* ** *
7344769 TCGGAAACATCATGCACTGAAGGACTTACAGATGACCTTAAGGTTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
7344834 CCGAAGGCTTT
66 CCGAAGGCTTT
* * *
7344845 TTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
7344910 CCGAAGGCTTT
66 CCGAAGGCTTT
** *
7344921 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCTTAAGGTTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
7344986 CCGAAGGCTTT
66 CCGAAGGCTTT
7344997 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
**
7345062 CCGAATACTTT
66 CCGAAGGCTTT
* * *
7345073 TTGAAAACATCATGCACTAAAAGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
7345138 CCGAAGGCTTT
66 CCGAAGGCTTT
* ** *
7345149 TCGGAAACATCATGCACTGAAGGACTTACAGATGACCTTAAGGTTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
7345214 CCGAAGGCTTT
66 CCGAAGGCTTT
* * * *
7345225 TTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAATCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
7345290 CCGAAGGCTTT
66 CCGAAGGCTTT
** *
7345301 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCTTAAGGTTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
7345366 CCGAAGGCTTT
66 CCGAAGGCTTT
7345377 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
7345442 CCGAAGGCTTT
66 CCGAAGGCTTT
*
7345453 TTGGAAACCTCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
*
7345518 CCGAAGGTTTT
66 CCGAAGGCTTT
7345529 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
7345594 CCGAAGGCTTT
66 CCGAAGGCTTT
7345605 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
7345670 CCGAAGGCTTT
66 CCGAAGGCTTT
7345681 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
*
7345746 CCGAATGCTTT
66 CCGAAGGCTTT
** *
7345757 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCTTAAGGTTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
7345822 CCGAAGGCTTT
66 CCGAAGGCTTT
7345833 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
7345898 CCGAAGGCTTT
66 CCGAAGGCTTT
7345909 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
7345974 CCGAAGGCTTT
66 CCGAAGGCTTT
*
7345985 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
7346050 CCGAAGGCTTT
66 CCGAAGGCTTT
7346061 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
7346126 CCGAAGGCTTT
66 CCGAAGGCTTT
7346137 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
7346202 CCGAAGGCTTT
66 CCGAAGGCTTT
7346213 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
*
7346278 CTGAAGGCTTT
66 CCGAAGGCTTT
*
7346289 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
7346354 CCGAAGGCTTT
66 CCGAAGGCTTT
*
7346365 TTGGAAACATCATGCACTGAAGGGCTTACAGATG
1 TTGGAAACATCATGCACTGAAGGACTTACAGATG
7346399 TGAGAAATAG
Statistics
Matches: 1710, Mismatches: 72, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 1710 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (76 bp):
TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
CCGAAGGCTTT
Found at i:7347085 original size:22 final size:22
Alignment explanation
Indices: 7347060--7347114 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
7347050 CATAAAGCTT
* *
7347060 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAACCTA
7347082 TCATCTTTAAAAAGAGAACCTA
1 TCATCTTTAAAAAGAGAACCTA
7347104 TCATCTTTAAA
1 TCATCTTTAAA
7347115 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAACCTA
Found at i:7352163 original size:2 final size:2
Alignment explanation
Indices: 7352156--7352183 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7352146 ACAACAAAGG
7352156 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7352184 TAAAGGATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7368531 original size:21 final size:21
Alignment explanation
Indices: 7368498--7368542 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
7368488 AGTACGGAGA
*
7368498 ACGGCGGACGGCAAGCGATGG
1 ACGGCGGACGGCAAGCGACGG
* *
7368519 ACGGTGGATGGCAAGCGACGG
1 ACGGCGGACGGCAAGCGACGG
7368540 ACG
1 ACG
7368543 ACGATGTAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.47, T:0.07
Consensus pattern (21 bp):
ACGGCGGACGGCAAGCGACGG
Found at i:7373322 original size:26 final size:25
Alignment explanation
Indices: 7373286--7373335 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
7373276 AAAAGAAAAA
7373286 AAAAAGGTAAACGACTAGGACAAAG
1 AAAAAGGTAAACGACTAGGACAAAG
* *
7373311 AAAAAGGATAAACGGCTAGGGCAAA
1 AAAAAGG-TAAACGACTAGGACAAA
7373336 TCCTTTGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.54, C:0.12, G:0.26, T:0.08
Consensus pattern (25 bp):
AAAAAGGTAAACGACTAGGACAAAG
Found at i:7379309 original size:6 final size:6
Alignment explanation
Indices: 7379300--7379347 Score: 62
Period size: 6 Copynumber: 8.0 Consensus size: 6
7379290 AATTCTAAAT
* *
7379300 CTAATC CTAATC TTAATT CTAAAT- CTAATC CTAATC CTAATC CTAATC
1 CTAATC CTAATC CTAATC CT-AATC CTAATC CTAATC CTAATC CTAATC
7379348 TTACTTAGAG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
5 3 0.08
6 31 0.84
7 3 0.08
ACGTcount: A:0.35, C:0.27, G:0.00, T:0.38
Consensus pattern (6 bp):
CTAATC
Found at i:7379322 original size:24 final size:24
Alignment explanation
Indices: 7379290--7379345 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
7379280 ATTTTATACA
*
7379290 AATTCTAAATCTAATCCTAATCTT
1 AATTCTAAATCTAATCCTAATCCT
7379314 AATTCTAAATCTAATCCTAATCCT
1 AATTCTAAATCTAATCCTAATCCT
*
7379338 AATCCTAA
1 AATTCTAA
7379346 TCTTACTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.38
Consensus pattern (24 bp):
AATTCTAAATCTAATCCTAATCCT
Found at i:7381170 original size:17 final size:17
Alignment explanation
Indices: 7381119--7381180 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
7381109 TCTTTTGTTT
7381119 TAATCCAAA-GTATTTC
1 TAATCCAAAGGTATTTC
* *
7381135 TAATTATCAAAAAGTATTTC
1 T-A--ATCCAAAGGTATTTC
*
7381155 TACTCCAAAGGTATTTC
1 TAATCCAAAGGTATTTC
7381172 TAATCCAAA
1 TAATCCAAA
7381181 ATACACATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
16 1 0.03
17 21 0.57
19 7 0.19
20 8 0.22
ACGTcount: A:0.40, C:0.18, G:0.06, T:0.35
Consensus pattern (17 bp):
TAATCCAAAGGTATTTC
Found at i:7382506 original size:30 final size:30
Alignment explanation
Indices: 7382438--7382531 Score: 109
Period size: 30 Copynumber: 3.1 Consensus size: 30
7382428 GAATGACCTA
* * *
7382438 TCCAGAGGTCACAAAG-ACCCCGGTAACTA
1 TCCAGAGGTCACAAAGAACCTCGGAAACTG
*
7382467 TCCAGAGGTCATAAAGAACCTCGGAAACTG
1 TCCAGAGGTCACAAAGAACCTCGGAAACTG
* * *
7382497 TCCATAGGTCCCAAAGAACCTAGGTAAACTG
1 TCCAGAGGTCACAAAGAACCTCGG-AAACTG
7382528 TCCA
1 TCCA
7382532 TATGTTCTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 15 0.27
30 30 0.55
31 10 0.18
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.17
Consensus pattern (30 bp):
TCCAGAGGTCACAAAGAACCTCGGAAACTG
Found at i:7382529 original size:31 final size:31
Alignment explanation
Indices: 7382491--7382619 Score: 125
Period size: 31 Copynumber: 4.1 Consensus size: 31
7382481 AGAACCTCGG
* *
7382491 AAACTGTCCATAGGTCCCAAAGAACCTAGGT
1 AAACTGTCCATATGTCCCAAAGAACATAGGT
* ***
7382522 AAACTGTCCATATGTTCTTTAGAACATAGGT
1 AAACTGTCCATATGTCCCAAAGAACATAGGT
* * *
7382553 ATACTGTCCATATGTCTCGAAAG-ACATATGT
1 AAACTGTCCATATGTC-CCAAAGAACATAGGT
* **
7382584 AAAACTGTCCATATGTTCCGTAGAACATAGGT
1 -AAACTGTCCATATGTCCCAAAGAACATAGGT
7382616 AAAC
1 AAAC
7382620 CCTCGACTCT
Statistics
Matches: 77, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
31 53 0.69
32 24 0.31
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (31 bp):
AAACTGTCCATATGTCCCAAAGAACATAGGT
Found at i:7382990 original size:20 final size:20
Alignment explanation
Indices: 7382952--7382991 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
7382942 ATTCTTTAGC
* *
7382952 TTATATCTTATATCATATGT
1 TTATATCATATAACATATGT
*
7382972 TTATATCATATAACTTATGT
1 TTATATCATATAACATATGT
7382992 AATCACATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.53
Consensus pattern (20 bp):
TTATATCATATAACATATGT
Found at i:7383746 original size:63 final size:63
Alignment explanation
Indices: 7383677--7383837 Score: 193
Period size: 63 Copynumber: 2.6 Consensus size: 63
7383667 TCCCTAGACA
* * * *
7383677 GGTGCATCGATGCACT-ATCTATGCATCGGTGCATAAATCACATTCGATGTTTGTATTTT-AGG
1 GGTGCATCGATGCACTCCT-TATGCATCGATGCACAAATCACATTCGATGTTTCTATTTTAAGG
* * *
7383739 GGATGCATCGATGCACTCCTTATGCATCGATGCACCAATCGCATTCGATGTTTCTATTTTAATG
1 GG-TGCATCGATGCACTCCTTATGCATCGATGCACAAATCACATTCGATGTTTCTATTTTAAGG
* *
7383803 GGTGCATCGATGCACTTCC-TGTGCATCGATACACA
1 GGTGCATCGATGCAC-TCCTTATGCATCGATGCACA
7383838 CCGAACAATT
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
62 2 0.02
63 75 0.88
64 8 0.09
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (63 bp):
GGTGCATCGATGCACTCCTTATGCATCGATGCACAAATCACATTCGATGTTTCTATTTTAAGG
Found at i:7385245 original size:18 final size:18
Alignment explanation
Indices: 7385222--7385262 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
7385212 ATATCCCTAT
7385222 TTCTTATACAGAACTTTA
1 TTCTTATACAGAACTTTA
7385240 TTCTTATACAGAACTTTA
1 TTCTTATACAGAACTTTA
7385258 TTCTT
1 TTCTT
7385263 TATCATCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.49
Consensus pattern (18 bp):
TTCTTATACAGAACTTTA
Found at i:7386940 original size:2 final size:2
Alignment explanation
Indices: 7386935--7386972 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7386925 TCATATATTC
7386935 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7386973 TCACACATAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7387454 original size:63 final size:62
Alignment explanation
Indices: 7387339--7387462 Score: 160
Period size: 63 Copynumber: 2.0 Consensus size: 62
7387329 AACCTCGACA
* * **
7387339 ACTGTCCATAGGTCCCAAAGAACCTAGGTAATCTGTCCATATGTTCTTTAGAACATAGGTAT
1 ACTGTCCATAGGTCCCAAAGAACATAGGTAAACTGTCCATATGTTCCGTAGAACATAGGTAT
* * *
7387401 ACTGTCCATATGTCTCGAAAG-ACATAGGTAAAACTGTTCATATGTTCCGTAGAACATAGGTA
1 ACTGTCCATAGGTC-CCAAAGAACATAGGT-AAACTGTCCATATGTTCCGTAGAACATAGGTA
7387463 AACCCTCGCC
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
62 20 0.38
63 33 0.62
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (62 bp):
ACTGTCCATAGGTCCCAAAGAACATAGGTAAACTGTCCATATGTTCCGTAGAACATAGGTAT
Found at i:7387458 original size:32 final size:31
Alignment explanation
Indices: 7387338--7387465 Score: 116
Period size: 31 Copynumber: 4.1 Consensus size: 31
7387328 GAACCTCGAC
* * ** *
7387338 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
* **
7387369 ATCTGTCCATATGTTCTTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
* *
7387400 TACTGTCCATATG-TCTCG-AAAGACATAGGTAA
1 AACTGTCCATATGTTC-CGTAGA-ACATAGGT-A
*
7387432 AACTGTTCATATGTTCCGTAGAACATAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
7387463 AAC
1 AAC
7387466 CCTCGCCTCT
Statistics
Matches: 77, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
30 4 0.05
31 47 0.61
32 22 0.29
33 4 0.05
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGTAGAACATAGGTA
Found at i:7388517 original size:20 final size:18
Alignment explanation
Indices: 7388489--7388538 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
7388479 TTAATAGAAG
*
7388489 CATGCATCGATGAAATACCC
1 CATGTATCGATG-AA-ACCC
* *
7388509 CATGTATCGATGCACCCC
1 CATGTATCGATGAAACCC
7388527 CATGTATCGATG
1 CATGTATCGATG
7388539 TATCCCTAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 15 0.56
19 1 0.04
20 11 0.41
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (18 bp):
CATGTATCGATGAAACCC
Found at i:7388625 original size:63 final size:63
Alignment explanation
Indices: 7388550--7388711 Score: 179
Period size: 63 Copynumber: 2.6 Consensus size: 63
7388540 ATCCCTAGAC
* * *
7388550 GGGTGCATCGATGCACT-ATCTATGCATCGGTGCATAAATCCCATTCGATG-TTCGTATTTT-AG
1 GGGTGCATCGATGCACTCCT-TATGCATCGATGCACAAATCCCATTCGATGTTTC-TATTTTAAG
* * *
7388612 GGGATGCATCGATGCACTCCTTATGCATCGATGCACCAATCGCATTCGATGTTTCTATTTTAAT
1 GGG-TGCATCGATGCACTCCTTATGCATCGATGCACAAATCCCATTCGATGTTTCTATTTTAAG
* * *
7388676 GGGTGCTTCGATGCACTTCC-TGTGCATCGATACACA
1 GGGTGCATCGATGCAC-TCCTTATGCATCGATGCACA
7388712 CTGAACAATT
Statistics
Matches: 85, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
62 3 0.04
63 71 0.84
64 11 0.13
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (63 bp):
GGGTGCATCGATGCACTCCTTATGCATCGATGCACAAATCCCATTCGATGTTTCTATTTTAAG
Found at i:7390721 original size:51 final size:51
Alignment explanation
Indices: 7390661--7390776 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 51
7390651 TTAGCAGGAA
* * * *
7390661 AGCGCGCCCCCTGCACCGCGCTATACGATGATTTGGTGCCACGTGGAGTAT
1 AGCGCGCCCCCTGAACCGCGCTATACGATGACTGGGTGACACGTGGAGTAT
* * * *
7390712 AGCGCGCCCCCTGAACCGCGTTATACGCTGACTGGGTTACACGTGGGGTAT
1 AGCGCGCCCCCTGAACCGCGCTATACGATGACTGGGTGACACGTGGAGTAT
7390763 AGCGCGCCCCCTGA
1 AGCGCGCCCCCTGA
7390777 TATACGCTAT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.17, C:0.33, G:0.30, T:0.20
Consensus pattern (51 bp):
AGCGCGCCCCCTGAACCGCGCTATACGATGACTGGGTGACACGTGGAGTAT
Found at i:7392590 original size:35 final size:34
Alignment explanation
Indices: 7392505--7392591 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
7392495 ATTTGATATT
*
7392505 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
7392539 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
7392577 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
7392592 ACTAAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:7393227 original size:18 final size:18
Alignment explanation
Indices: 7393180--7393232 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
7393170 GCGATGGCGG
*
7393180 CATCATATATGACTGCGA
1 CATCATATATGGCTGCGA
7393198 CATCATATATGGCTGCGA
1 CATCATATATGGCTGCGA
*
7393216 CATCATATATGGTTGCG
1 CATCATATATGGCTGCG
7393233 GTGGCTGCTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (18 bp):
CATCATATATGGCTGCGA
Found at i:7394873 original size:111 final size:111
Alignment explanation
Indices: 7394738--7394959 Score: 390
Period size: 111 Copynumber: 2.0 Consensus size: 111
7394728 ATTACAAAAA
* *
7394738 TTAATTCTTAATATAATAATCATGCATTAAATGAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATATAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
* *
7394803 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGATAT
*
7394849 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATATAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
*
7394914 AATTAAAACGTTAAAATATTATCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGATAT
7394960 ATGATTTCCA
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 105 1.00
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATATAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:7395256 original size:50 final size:47
Alignment explanation
Indices: 7395202--7395356 Score: 132
Period size: 50 Copynumber: 3.1 Consensus size: 47
7395192 CCCCTGCACT
* *
7395202 GCGCTATACCCCACGTGTCAGAT-ATCCAGGTATAGCGCGGATCAGGGGGC
1 GCGCTATA-CCCACGTGCCAGATCA-CC--GTATAGCGCGGAGCAGGGGGC
* *
7395252 GCGCTATACCCACGTGACGCCAGATCACCGTATATCGCGGGGCAGGGGGC
1 GCGCTATACCCACGT---GCCAGATCACCGTATAGCGCGGAGCAGGGGGC
* * * * *
7395302 GCGCTATACCCACGTGGCGCCAAATCAGCATATAACGCGGTGCAGGGGGC
1 GCGCTATACCCACGT---GCCAGATCACCGTATAGCGCGGAGCAGGGGGC
7395352 GCGCT
1 GCGCT
7395357 TTCCTGCTAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
49 7 0.08
50 75 0.82
52 8 0.09
53 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.33, T:0.15
Consensus pattern (47 bp):
GCGCTATACCCACGTGCCAGATCACCGTATAGCGCGGAGCAGGGGGC
Found at i:7398117 original size:2 final size:2
Alignment explanation
Indices: 7398110--7398137 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7398100 GGTTTTATTG
7398110 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7398138 TTAAGTTCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7399081 original size:18 final size:18
Alignment explanation
Indices: 7399025--7399083 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
7399015 AAAGGTAAAA
*
7399025 AATTATAATA-ATTACGT
1 AATTATAATATTTTACGT
*
7399042 -A-TATTAATATTTTATTGT
1 AATTA-TAATATTTTA-CGT
7399060 AATTATAATATTTTACGT
1 AATTATAATATTTTACGT
7399078 AATTAT
1 AATTAT
7399084 GATAAATATC
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
15 2 0.06
16 6 0.18
17 3 0.09
18 10 0.29
19 11 0.32
20 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (18 bp):
AATTATAATATTTTACGT
Found at i:7404453 original size:20 final size:20
Alignment explanation
Indices: 7404412--7404453 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
7404402 TATCTTATCT
*
7404412 CTTTTATTTTATTCATTATA
1 CTTTTATTTTATTAATTATA
*
7404432 CTTTTAATTTTTTTAATT-TA
1 CTTTT-ATTTTATTAATTATA
7404452 CT
1 CT
7404454 CACTAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.67
Consensus pattern (20 bp):
CTTTTATTTTATTAATTATA
Found at i:7404760 original size:28 final size:27
Alignment explanation
Indices: 7404707--7404764 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
7404697 TTTTTTATTA
*
7404707 TTATTATTATTTCTCTAATATGATAAAT
1 TTATTAATATTTCTCTAATATGAT-AAT
7404735 TTATTAATATTTCGTTCTAA-AT-ATAAT
1 TTATTAATATTTC--TCTAATATGATAAT
7404762 TTA
1 TTA
7404765 AAATAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 6 0.22
28 14 0.52
29 2 0.07
30 5 0.19
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.53
Consensus pattern (27 bp):
TTATTAATATTTCTCTAATATGATAAT
Found at i:7405333 original size:20 final size:21
Alignment explanation
Indices: 7405310--7405360 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
7405300 GCATATAATT
7405310 AAATATATTAAAATATTA-AA
1 AAATATATTAAAATATTATAA
* * *
7405330 AAATATAATATAATATTATTA
1 AAATATATTAAAATATTATAA
7405351 AAAT-TATTAA
1 AAATATATTAA
7405361 TAAATGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AAATATATTAAAATATTATAA
Found at i:7405338 original size:30 final size:30
Alignment explanation
Indices: 7405302--7405395 Score: 86
Period size: 30 Copynumber: 3.1 Consensus size: 30
7405292 TTTGGGGAGC
7405302 ATATAATTAAATATATTAAAATATTAAAAA
1 ATATAATTAAATATATTAAAATATTAAAAA
*
7405332 ATATAA-TATAATATTATTAAAATTATTAATAA
1 ATATAATTA-AATA-TATTAAAA-TATTAAAAA
* * * *
7405364 ATGTATTTTAATA-ATTAATAT-TTAAAATA
1 ATATAATTAAATATATTAAAATATTAAAA-A
7405393 ATA
1 ATA
7405396 ATAAAAATAG
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
28 5 0.10
29 6 0.12
30 16 0.31
31 8 0.15
32 16 0.31
33 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (30 bp):
ATATAATTAAATATATTAAAATATTAAAAA
Found at i:7405376 original size:32 final size:30
Alignment explanation
Indices: 7405302--7405420 Score: 86
Period size: 32 Copynumber: 3.9 Consensus size: 30
7405292 TTTGGGGAGC
7405302 ATATAAT-TAAATATATTAAAATATTAAAAA
1 ATATAATAT-AATATATTAAAATATTAAAAA
*
7405332 ATATAATATAATATTATTAAAATTATTAATAA
1 ATATAATATAATA-TATTAAAA-TATTAAAAA
* * * *
7405364 ATGTATTTTAATA-ATTAATAT-TTAAAATA
1 ATATAATATAATATATTAAAATATTAAAA-A
* *
7405393 ATAATAAAAATAGTATATT--AATATTAAA
1 AT-AT-AATATAATATATTAAAATATTAAA
7405421 TCTATAAATT
Statistics
Matches: 69, Mismatches: 12, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
28 5 0.07
29 4 0.06
30 20 0.29
31 19 0.28
32 21 0.30
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (30 bp):
ATATAATATAATATATTAAAATATTAAAAA
Found at i:7411117 original size:21 final size:20
Alignment explanation
Indices: 7411091--7411188 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
7411081 ATCAGTTTCC
7411091 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTG
* * **
7411112 AAAATCGCGATGCGATAGT-
1 AAAATCGCAACGCGATTTTG
** *
7411131 ACAAATTCGCATTGCGATTTTA
1 A-AAA-TCGCAACGCGATTTTG
* *
7411153 AATAATCGCAACGCGAATATG
1 AA-AATCGCAACGCGATTTTG
7411174 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
7411189 ACACATAAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
19 1 0.02
20 17 0.28
21 39 0.65
22 3 0.05
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTG
Found at i:7411181 original size:20 final size:20
Alignment explanation
Indices: 7411156--7411349 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
7411146 GATTTTAAAT
* *
7411156 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
7411176 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
7411196 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
7411216 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
7411236 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
7411256 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
7411276 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
7411296 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
7411317 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
7411337 AATCGCAACGCGA
1 AATCGCAACGCGA
7411350 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:7411201 original size:40 final size:39
Alignment explanation
Indices: 7411156--7411349 Score: 199
Period size: 40 Copynumber: 4.8 Consensus size: 39
7411146 GATTTTAAAT
* ** *
7411156 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CATA
* * *
7411196 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
** * * *
7411236 AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
* ** *
7411276 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT-A
7411317 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
7411350 TATTTAAAGC
Statistics
Matches: 128, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.73
41 33 0.26
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (39 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACCATA
Found at i:7411239 original size:60 final size:60
Alignment explanation
Indices: 7411156--7411348 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
7411146 GATTTTAAAT
* ** * *
7411156 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
7411216 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
7411276 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
7411337 AATCGCAACGCG
1 AATCGCAACGCG
7411349 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:7411772 original size:33 final size:33
Alignment explanation
Indices: 7411730--7411800 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
7411720 TTCACTTAGA
7411730 TTTCATTTCGCGTTAAGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTAAGATTCTCTCGTTGCGAT
***
7411763 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTAAGATTCTCTCGTTGCGAT
7411796 TTTCA
1 TTTCA
7411801 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTAAGATTCTCTCGTTGCGAT
Found at i:7411940 original size:14 final size:14
Alignment explanation
Indices: 7411921--7411974 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
7411911 AGAATGACTG
7411921 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
7411935 TCGCAACGCGAAATGAAA
1 TCGCAA--CGAGA-G-AA
7411953 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
7411967 TCGCAACG
1 TCGCAACG
7411975 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 8 0.24
17 1 0.03
18 8 0.24
ACGTcount: A:0.41, C:0.24, G:0.26, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:7411956 original size:18 final size:16
Alignment explanation
Indices: 7411931--7411979 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
7411921 TCGCAACGAG
7411931 AGAATCGCAACGCGAA
1 AGAATCGCAACGCGAA
*
7411947 ATGAAATCGCAA--CGAG
1 A-G-AATCGCAACGCGAA
7411963 AGAATCGCAACGCGAA
1 AGAATCGCAACGCGAA
7411979 A
1 A
7411980 CCAAAATCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 8 0.30
15 1 0.04
16 9 0.33
17 1 0.04
18 8 0.30
ACGTcount: A:0.45, C:0.22, G:0.24, T:0.08
Consensus pattern (16 bp):
AGAATCGCAACGCGAA
Found at i:7412008 original size:19 final size:19
Alignment explanation
Indices: 7411986--7412083 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
7411976 GAAACCAAAA
*
7411986 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
7412005 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
7412019 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
7412038 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
7412052 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
7412071 TCGCGTTGCGATT
1 TCGCGTTGCGATT
7412084 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:7412027 original size:14 final size:14
Alignment explanation
Indices: 7412008--7412097 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
7411998 TTTCATTTCG
7412008 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
7412022 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
7412041 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
7412055 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
7412072 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
7412088 CGTTGCGATT
1 CGTTGCGATT
7412098 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:7412033 original size:33 final size:33
Alignment explanation
Indices: 7411991--7412105 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
7411981 CAAAATCGCA
7411991 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
7412024 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
7412057 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
7412090 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
7412106 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:7413983 original size:92 final size:93
Alignment explanation
Indices: 7413778--7414156 Score: 717
Period size: 92 Copynumber: 4.1 Consensus size: 93
7413768 TAGATTGCTT
*
7413778 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
7413843 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
7413871 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAATTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
7413935 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
7413963 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTCTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
7414027 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
7414055 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
7414120 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
7414148 AGTAAATTT
1 AGTAAATTT
7414157 ATCCATTCAA
Statistics
Matches: 280, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
92 181 0.65
93 99 0.35
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:7414240 original size:19 final size:19
Alignment explanation
Indices: 7414200--7414328 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
7414190 TAGTTTACTT
* *
7414200 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
7414220 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
7414239 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
7414258 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
7414272 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
* *
7414291 TCGCAA--C--TA-CAAGA
1 TCGCAACGCGAAACCAAAA
7414305 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
7414324 TCGCA
1 TCGCA
7414329 TTGCGATTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 19 0.22
15 2 0.02
16 3 0.03
17 3 0.03
18 2 0.02
19 46 0.52
20 13 0.15
ACGTcount: A:0.46, C:0.29, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:7414279 original size:33 final size:32
Alignment explanation
Indices: 7414236--7414328 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
7414226 CGCGAAACCA
**
7414236 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
*
7414268 AGAATCGCAACGCGAAACCAAAATCGCAACTAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
7414301 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
7414329 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
32 2 0.04
33 54 0.96
ACGTcount: A:0.46, C:0.28, G:0.17, T:0.09
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:7414326 original size:52 final size:52
Alignment explanation
Indices: 7414200--7414328 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 52
7414190 TAGTTTACTT
** *
7414200 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACACGAAA
* * *
7414252 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACTAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAAC-ACGAA-A
*
7414305 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
7414329 TTGCGATTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 41 0.67
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.16, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACACGAAA
Found at i:7414346 original size:19 final size:19
Alignment explanation
Indices: 7414324--7414458 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
7414314 GAAACCAAAA
*
7414324 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
7414343 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
7414359 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
7414376 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
7414392 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
7414409 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
7414428 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
7414448 TCGTGTTGCGA
1 TCGCGTTGCGA
7414459 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:7414365 original size:14 final size:14
Alignment explanation
Indices: 7414346--7414402 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
7414336 TTTCATTTCG
7414346 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
7414360 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
7414377 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
7414393 CGTTGCGATT
1 CGTTGCGATT
7414403 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:7414371 original size:33 final size:33
Alignment explanation
Indices: 7414329--7414421 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
7414319 CAAAATCGCA
*
7414329 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
7414362 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
7414395 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
7414422 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:7416376 original size:14 final size:14
Alignment explanation
Indices: 7416357--7416392 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
7416347 ATTGTTTAAT
7416357 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
7416371 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
7416385 TGATTTGT
1 TGATTTGT
7416393 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:7416567 original size:20 final size:19
Alignment explanation
Indices: 7416499--7416581 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
7416489 AAAAATGACT
7416499 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
7416518 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
7416532 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
7416551 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
7416571 ATCGCAATGCG
1 ATCGCAATGCG
7416582 TTTATAATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 21 0.38
20 19 0.34
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:7416634 original size:19 final size:19
Alignment explanation
Indices: 7416610--7416883 Score: 354
Period size: 19 Copynumber: 15.4 Consensus size: 19
7416600 GATTATCTCG
7416610 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7416629 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7416648 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
7416662 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7416681 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
7416700 TTGCGATTTCCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7416719 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7416738 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
7416757 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
7416771 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7416790 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
7416809 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
7416823 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
7416843 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
7416857 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
7416876 TTGCGATT
1 TTGCGATT
7416884 GTATTTTCCG
Statistics
Matches: 226, Mismatches: 8, Indels: 42
0.82 0.03 0.15
Matches are distributed among these distances:
14 29 0.13
16 24 0.11
17 21 0.09
18 3 0.01
19 137 0.61
20 12 0.05
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:7416650 original size:52 final size:52
Alignment explanation
Indices: 7416588--7416855 Score: 455
Period size: 52 Copynumber: 5.0 Consensus size: 52
7416578 TGCGTTTATA
*
7416588 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
7416640 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
7416692 ATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA-TT-C-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
7416749 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
7416801 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
7416854 AT
1 AT
7416856 GTTGGGATTT
Statistics
Matches: 207, Mismatches: 3, Indels: 11
0.94 0.01 0.05
Matches are distributed among these distances:
52 131 0.63
53 19 0.09
54 5 0.02
55 6 0.03
56 2 0.01
57 44 0.21
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:7416739 original size:109 final size:105
Alignment explanation
Indices: 7416588--7416855 Score: 459
Period size: 109 Copynumber: 2.5 Consensus size: 105
7416578 TGCGTTTATA
7416588 ATTTCGCATTGCGATT-ATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
1 ATTTCGCATTGCGATTCATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
*
7416652 GATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
66 GATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
7416692 ATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 ATTTCGCATTGCGA-TT-CATCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
7416757 TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
62 TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
7416801 ATTTCGCATTGCGATTC-TCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCAT
1 ATTTCGCATTGCGATTCATCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCAT
7416856 GTTGGGATTT
Statistics
Matches: 155, Mismatches: 3, Indels: 11
0.92 0.02 0.07
Matches are distributed among these distances:
104 29 0.19
105 19 0.12
106 4 0.03
107 6 0.04
108 2 0.01
109 95 0.61
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (105 bp):
ATTTCGCATTGCGATTCATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
GATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:7417187 original size:14 final size:14
Alignment explanation
Indices: 7417168--7417203 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
7417158 ATTGTTTAAT
7417168 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
7417182 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
7417196 TGATTTGT
1 TGATTTGT
7417204 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:7417378 original size:20 final size:19
Alignment explanation
Indices: 7417310--7417392 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
7417300 AAAAATGACT
7417310 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
7417329 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
7417343 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
7417362 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
7417382 ATCGCAATGCG
1 ATCGCAATGCG
7417393 TTTATAATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 21 0.38
20 19 0.34
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:7417445 original size:19 final size:19
Alignment explanation
Indices: 7417421--7417675 Score: 325
Period size: 19 Copynumber: 14.4 Consensus size: 19
7417411 GATTATCTCG
7417421 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7417440 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7417459 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
7417473 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7417492 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7417511 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7417530 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
7417549 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
7417563 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7417582 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
7417601 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
7417615 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
7417635 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
7417649 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
7417668 TTGCGATT
1 TTGCGATT
7417676 GTATTTTCCG
Statistics
Matches: 209, Mismatches: 6, Indels: 42
0.81 0.02 0.16
Matches are distributed among these distances:
14 29 0.14
16 24 0.11
17 21 0.10
18 3 0.01
19 120 0.57
20 12 0.06
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:7417461 original size:52 final size:52
Alignment explanation
Indices: 7417399--7417608 Score: 255
Period size: 52 Copynumber: 3.9 Consensus size: 52
7417389 TGCGTTTATA
7417399 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
7417451 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
7417503 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTCATTTCGCATTGCGATT-T-TC
* * * * *
7417562 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCATTGCGATT
1 ATTTCGCA-TTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATT
7417609 CTCTCGTTGC
Statistics
Matches: 141, Mismatches: 9, Indels: 16
0.85 0.05 0.10
Matches are distributed among these distances:
52 91 0.65
54 4 0.03
55 5 0.04
56 2 0.01
57 27 0.19
58 3 0.02
59 9 0.06
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:7417526 original size:90 final size:90
Alignment explanation
Indices: 7417399--7417675 Score: 398
Period size: 90 Copynumber: 3.2 Consensus size: 90
7417389 TGCGTTTATA
*
7417399 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
7417459 TTGCGATTCTTTCGTTGCGATTTTC
66 TTGCGATTCTTTCGTTGCGATTTTC
7417484 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
*
7417549 TTGCGATTCTCTCGTTGCGATTTTC
66 TTGCGATTCTTTCGTTGCGATTTTC
*
7417574 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCCGC
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGC
*
7417634 ATTGCGA-T-TTTCATGTTGGGATTTTC
65 ATTGCGATTCTTTC--GTTGCGATTTTC
*
7417660 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
7417676 GTATTTTCCG
Statistics
Matches: 178, Mismatches: 6, Indels: 15
0.89 0.03 0.08
Matches are distributed among these distances:
84 3 0.02
85 30 0.17
86 36 0.20
87 6 0.03
88 8 0.04
90 95 0.53
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (90 bp):
ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
TTGCGATTCTTTCGTTGCGATTTTC
Found at i:7417609 original size:52 final size:55
Alignment explanation
Indices: 7417421--7417647 Score: 314
Period size: 52 Copynumber: 4.2 Consensus size: 55
7417411 GATTATCTCG
*
7417421 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA-TTTCATCTCG-ATTGCGATTTTCATTTCGCA
*
7417473 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGA-TTTCATCTCG-ATTGCGATTTTCATTTCGCA
7417530 TTGCGATTTTCATTTCGCATTGCGA-TTC-TCTCG-TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTTCATCTCGATTGCGATTTTCATTTCGCA
7417582 TTGCGATTTTCATTTCGCATTGCGA-TTC-TCTCG-TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTTCATCTCGATTGCGATTTTCATTT-CGCA
7417635 TTGCGATTTTCAT
1 TTGCGATTTTCAT
7417648 GTTGGGATTT
Statistics
Matches: 168, Mismatches: 1, Indels: 11
0.93 0.01 0.06
Matches are distributed among these distances:
52 111 0.66
53 17 0.10
54 7 0.04
55 8 0.05
57 25 0.15
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (55 bp):
TTGCGATTTTCATTTCGCATTGCGATTTCATCTCGATTGCGATTTTCATTTCGCA
Found at i:7417619 original size:33 final size:33
Alignment explanation
Indices: 7417440--7417675 Score: 210
Period size: 33 Copynumber: 6.8 Consensus size: 33
7417430 TCATTTCGCA
*
7417440 TTGCGATTTTCATTTCGCATTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
7417473 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
*
7417509 CATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 --TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
7417547 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
7417582 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
7417615 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
* *
7417649 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
7417676 GTATTTTCCG
Statistics
Matches: 176, Mismatches: 14, Indels: 26
0.81 0.06 0.12
Matches are distributed among these distances:
31 9 0.05
32 5 0.03
33 62 0.35
34 29 0.16
35 6 0.03
36 5 0.03
37 2 0.01
38 46 0.26
39 3 0.02
40 9 0.05
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:7420187 original size:24 final size:24
Alignment explanation
Indices: 7420153--7420199 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
7420143 CTGAAACATC
7420153 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
7420177 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
7420200 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:7420903 original size:20 final size:20
Alignment explanation
Indices: 7420875--7421264 Score: 457
Period size: 20 Copynumber: 19.4 Consensus size: 20
7420865 AAATTTCAGT
* * * *
7420875 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
7420895 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
7420915 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
7420935 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
7420955 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
7420975 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
7420995 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
7421015 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
7421035 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
7421055 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
7421075 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * *
7421095 GTTGCGATTTTATGTATTA-TC
1 GTTGCGA-TTTACGGA-TACGC
7421116 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
7421136 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
7421156 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
7421176 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
7421196 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
7421216 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
7421236 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
7421256 GTTGCGATT
1 GTTGCGATT
7421265 ATTGAAAATC
Statistics
Matches: 323, Mismatches: 36, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
19 7 0.02
20 295 0.91
21 19 0.06
22 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:7425506 original size:209 final size:209
Alignment explanation
Indices: 7425146--7425567 Score: 709
Period size: 209 Copynumber: 2.0 Consensus size: 209
7425136 CCCTGATTGC
* ** * *
7425146 TATACAAACTTAAGTTCAGTGAACGTAAACCACCTAAAAGATAATATTCATGGCTTCATGTGATT
1 TATACAAACCTAAGTGAAGTGAACGTAAACCACCTAAAAGACAATATTCATGGCTTCATGAGATT
* *
7425211 AACAAATACCAGGGTTTTACAAACTCAAAATATGGAGCGAACGATATAGAATCAACAACTTGATA
66 AACAAATACCAGGGTTTTACAAACTCAAAATATCGAGCGAACGATATAGAATCAACAACTTAATA
7425276 ATTTAAAGCCTAAAATATGAAGTCCATAAGAAAGGTAATTGGATGAAGAAAGCACAAAGAAACCA
131 ATTTAAAGCCTAAAATATGAAGTCCATAAGAAAGGTAATTGGATGAAGAAAGCACAAAGAAACCA
7425341 CATATTCAAGGATT
196 CATATTCAAGGATT
*
7425355 TATACAAACCTAAGTGAAGTGAATGTAAACCACCTAAAAGACAATATTCATGGCTTCATGAGATT
1 TATACAAACCTAAGTGAAGTGAACGTAAACCACCTAAAAGACAATATTCATGGCTTCATGAGATT
* * *
7425420 AATAAATACCAGGGTTTTACAAACTCAAAATATCGAGTGAACGATATGGAATCAACAACTTAATA
66 AACAAATACCAGGGTTTTACAAACTCAAAATATCGAGCGAACGATATAGAATCAACAACTTAATA
* *
7425485 ATTTAAAGCCTAAAATATGAAGTCCATAAGAAAGGTATTTGGATGAAGAAAGCACACAGAAACCA
131 ATTTAAAGCCTAAAATATGAAGTCCATAAGAAAGGTAATTGGATGAAGAAAGCACAAAGAAACCA
* *
7425550 CATATTCATGGGTT
196 CATATTCAAGGATT
7425564 TATA
1 TATA
7425568 TCCAATAAAC
Statistics
Matches: 198, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
209 198 1.00
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (209 bp):
TATACAAACCTAAGTGAAGTGAACGTAAACCACCTAAAAGACAATATTCATGGCTTCATGAGATT
AACAAATACCAGGGTTTTACAAACTCAAAATATCGAGCGAACGATATAGAATCAACAACTTAATA
ATTTAAAGCCTAAAATATGAAGTCCATAAGAAAGGTAATTGGATGAAGAAAGCACAAAGAAACCA
CATATTCAAGGATT
Found at i:7430730 original size:22 final size:22
Alignment explanation
Indices: 7430671--7430730 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
7430661 ATTGAAAAAG
*
7430671 AAAAAA-ATAT-CAAAAGGTAGA
1 AAAAAATATATACAAAA-GCAGA
7430692 AAAAAATATATACAAAAGCAGA
1 AAAAAATATATACAAAAGCAGA
*
7430714 AAAATATACTATA-AAAA
1 AAAAAATA-TATACAAAA
7430731 TAAAATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 6 0.18
22 19 0.56
23 9 0.26
ACGTcount: A:0.68, C:0.07, G:0.08, T:0.17
Consensus pattern (22 bp):
AAAAAATATATACAAAAGCAGA
Found at i:7431431 original size:25 final size:25
Alignment explanation
Indices: 7431394--7431449 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
7431384 GGTAACGGTT
*
7431394 AAAGATTGCCGGCTGGTGACCATGG
1 AAAGGTTGCCGGCTGGTGACCATGG
*
7431419 AAAGGTTGTCGGCTGGTGACCATGG
1 AAAGGTTGCCGGCTGGTGACCATGG
7431444 AAAGGT
1 AAAGGT
7431450 GAAAGGGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.16, G:0.38, T:0.21
Consensus pattern (25 bp):
AAAGGTTGCCGGCTGGTGACCATGG
Found at i:7437837 original size:2 final size:2
Alignment explanation
Indices: 7437830--7437872 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7437820 TTCATAATGT
7437830 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7437872 T
1 T
7437873 TTGTGTGTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7438593 original size:22 final size:22
Alignment explanation
Indices: 7438559--7438609 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
7438549 ATAATTATTT
*
7438559 AAAAA-ATTAAATAAAAATACA
1 AAAAACATTAAATAAAAAAACA
* *
7438580 AAAAACATTTAATAAAAAAACT
1 AAAAACATTAAATAAAAAAACA
7438602 AAAAACAT
1 AAAAACAT
7438610 CCCCACAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.20
Consensus pattern (22 bp):
AAAAACATTAAATAAAAAAACA
Found at i:7440535 original size:2 final size:2
Alignment explanation
Indices: 7440528--7440560 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7440518 TATTTATTTG
7440528 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7440561 CAAAATAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7458381 original size:19 final size:18
Alignment explanation
Indices: 7458341--7458386 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
7458331 TTTATATGAC
7458341 ATAATTTTT-ATTTTTCT
1 ATAATTTTTAATTTTTCT
7458358 ATAATTTTTAAATATTTT-T
1 ATAATTTTT-AAT-TTTTCT
7458377 ATAATTTTTA
1 ATAATTTTTA
7458387 TGTTAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.35
18 1 0.04
19 12 0.46
20 4 0.15
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
ATAATTTTTAATTTTTCT
Found at i:7458383 original size:9 final size:9
Alignment explanation
Indices: 7458341--7458387 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
7458331 TTTATATGAC
7458341 ATAATTTTT
1 ATAATTTTT
7458350 AT--TTTTCT
1 ATAATTTT-T
7458358 ATAATTTTT
1 ATAATTTTT
*
7458367 AAATATTTTT
1 ATA-ATTTTT
7458377 ATAATTTTT
1 ATAATTTTT
7458386 AT
1 AT
7458388 GTTAAAAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
7 4 0.12
8 3 0.09
9 13 0.41
10 12 0.38
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (9 bp):
ATAATTTTT
Found at i:7471635 original size:15 final size:17
Alignment explanation
Indices: 7471617--7471648 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
7471607 CATAATATAA
7471617 TAAATT-CAA-ATAGAT
1 TAAATTGCAAGATAGAT
7471632 TAAATTGCAAGATAGAT
1 TAAATTGCAAGATAGAT
7471649 AAAAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (17 bp):
TAAATTGCAAGATAGAT
Found at i:7474332 original size:2 final size:2
Alignment explanation
Indices: 7474327--7474396 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
7474317 ATCATATACA
7474327 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7474369 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7474397 TTCTTTATTT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7481926 original size:21 final size:22
Alignment explanation
Indices: 7481893--7481936 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
7481883 AACTATATAG
*
7481893 AATTCAATCAATTTGAT-TTTAA
1 AATTCAATAAATTT-ATATTTAA
7481915 AATT-AATAAATTTATATTTAA
1 AATTCAATAAATTTATATTTAA
7481936 A
1 A
7481937 TCATTCGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 14 0.70
22 4 0.20
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (22 bp):
AATTCAATAAATTTATATTTAA
Found at i:7487122 original size:59 final size:59
Alignment explanation
Indices: 7487049--7487182 Score: 223
Period size: 59 Copynumber: 2.3 Consensus size: 59
7487039 TTTAGACAAA
* *
7487049 AAATTAAACATGAACCTGAACCAATATTTTTATATAGGCAAGGTTTTACATTATTATCT
1 AAATTTAACCTGAACCTGAACCAATATTTTTATATAGGCAAGGTTTTACATTATTATCT
* * *
7487108 AAATTTAACCTGAACATGAACCAATATTTTTCTATATGCAAGGTTTTACATTATTATCT
1 AAATTTAACCTGAACCTGAACCAATATTTTTATATAGGCAAGGTTTTACATTATTATCT
7487167 AAATTTAACCTGAACC
1 AAATTTAACCTGAACC
7487183 GACAATAAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 69 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (59 bp):
AAATTTAACCTGAACCTGAACCAATATTTTTATATAGGCAAGGTTTTACATTATTATCT
Found at i:7489701 original size:23 final size:24
Alignment explanation
Indices: 7489657--7489701 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
7489647 GATTTTTTTT
* *
7489657 AATTCAATTATATTATAGATCGTA
1 AATTCAATTAAATTAAAGATCGTA
*
7489681 AATT-AATTAAATTAAATATCG
1 AATTCAATTAAATTAAAGATCG
7489702 ACTCTTTAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (24 bp):
AATTCAATTAAATTAAAGATCGTA
Found at i:7491388 original size:19 final size:20
Alignment explanation
Indices: 7491364--7491436 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 20
7491354 GACTCGACCC
7491364 AAAATAATATATTTATT-AA
1 AAAATAATATATTTATTCAA
* *
7491383 AAAATATTATTTTTATTCAA
1 AAAATAATATATTTATTCAA
* **
7491403 TACAAATAA-AGATTTAATTGGA
1 -A-AAATAATATATTT-ATTCAA
7491425 AAAATAATATAT
1 AAAATAATATAT
7491437 AGTGGGATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
19 15 0.37
20 8 0.20
21 9 0.22
22 9 0.22
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (20 bp):
AAAATAATATATTTATTCAA
Found at i:7491672 original size:2 final size:2
Alignment explanation
Indices: 7491665--7491691 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7491655 CAATCGAGTT
7491665 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7491692 TGAACCGTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7493585 original size:2 final size:2
Alignment explanation
Indices: 7493578--7493606 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7493568 TTATAATAAT
7493578 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7493607 TAAAGTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7494042 original size:11 final size:11
Alignment explanation
Indices: 7494026--7494051 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7494016 GTCAAAATAA
7494026 TAAATTTTATT
1 TAAATTTTATT
7494037 TAAATTTTATT
1 TAAATTTTATT
7494048 TAAA
1 TAAA
7494052 ATAACCGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TAAATTTTATT
Found at i:7494114 original size:2 final size:2
Alignment explanation
Indices: 7494102--7494154 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
7494092 TTAATCATTA
7494102 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7494143 AT AT A- AT AT AT A
1 AT AT AT AT AT AT A
7494155 ACGATATAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 47 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7498094 original size:2 final size:2
Alignment explanation
Indices: 7498087--7498111 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7498077 AAACCCTAAA
7498087 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
7498112 CTGTCTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:7500750 original size:16 final size:16
Alignment explanation
Indices: 7500725--7500773 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
7500715 AATAACATAC
7500725 AAATATTTATATTTAT
1 AAATATTTATATTTAT
* * *
7500741 AAATAATTATATGTAAA
1 AAATATTTATAT-TTAT
7500758 AAATATTTATATTTAT
1 AAATATTTATATTTAT
7500774 TAATCTAATG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
AAATATTTATATTTAT
Found at i:7505174 original size:14 final size:14
Alignment explanation
Indices: 7505153--7505233 Score: 72
Period size: 14 Copynumber: 5.4 Consensus size: 14
7505143 AAGAGGGCAT
7505153 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
7505167 CTGAGGCCATCCGA
1 CCGAGGCCATCCGA
* *
7505181 CCGAGCCCATCTGAGAGCA
1 CCGAGGCCATC----CG-A
7505200 TCCGAGGCCATCCGA
1 -CCGAGGCCATCCGA
7505215 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
7505229 ACGAG
1 CCGAG
7505234 CTATGCGAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
14 40 0.74
15 1 0.02
16 1 0.02
18 1 0.02
19 1 0.02
20 10 0.19
ACGTcount: A:0.23, C:0.38, G:0.28, T:0.10
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:7505177 original size:24 final size:24
Alignment explanation
Indices: 7505145--7505228 Score: 84
Period size: 24 Copynumber: 3.5 Consensus size: 24
7505135 CGAGCTACAA
*
7505145 GAGGGCATCCGAGGCCATCCGACT
1 GAGGCCATCCGAGGCCATCCGACT
* *
7505169 GAGGCCATCCGA--CCGAGCCCATCT
1 GAGGCCATCCGAGGCC-ATCCGA-CT
*
7505193 GAGAG-CATCCGAGGCCATCCGACC
1 GAG-GCCATCCGAGGCCATCCGACT
7505217 GAGGCCATCCGA
1 GAGGCCATCCGA
7505229 ACGAGCTATG
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
22 2 0.04
23 5 0.10
24 34 0.71
25 5 0.10
26 2 0.04
ACGTcount: A:0.23, C:0.37, G:0.30, T:0.11
Consensus pattern (24 bp):
GAGGCCATCCGAGGCCATCCGACT
Found at i:7505269 original size:33 final size:33
Alignment explanation
Indices: 7505232--7505296 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
7505222 CATCCGAACG
*
7505232 AGCTATGCGAGGGCATCCGAGGGCAA-CCGAGCA
1 AGCTATGCGAGGGAATCCGAGGG-AAGCCGAGCA
7505265 AGCTATGCGAGGGAATCCGAGGGAAGCCGAGC
1 AGCTATGCGAGGGAATCCGAGGGAAGCCGAGC
7505297 GAGGGTAGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 2 0.07
33 28 0.93
ACGTcount: A:0.28, C:0.25, G:0.38, T:0.09
Consensus pattern (33 bp):
AGCTATGCGAGGGAATCCGAGGGAAGCCGAGCA
Found at i:7505375 original size:12 final size:12
Alignment explanation
Indices: 7505358--7505382 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7505348 TGCCATGCAA
7505358 CACGTTCATTCT
1 CACGTTCATTCT
7505370 CACGTTCATTCT
1 CACGTTCATTCT
7505382 C
1 C
7505383 TCTGTTTGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.36, G:0.08, T:0.40
Consensus pattern (12 bp):
CACGTTCATTCT
Found at i:7505442 original size:29 final size:29
Alignment explanation
Indices: 7505400--7505456 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
7505390 GAGCAAGGGT
7505400 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
7505429 AGGTCGCCCGGAGTGCATGGCGACCTAC
1 AGGTCGCCCGGAGTGCATGGCGACCTAC
7505457 GGTCAACACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.19, C:0.32, G:0.35, T:0.14
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTACA
Found at i:7510129 original size:24 final size:26
Alignment explanation
Indices: 7510088--7510139 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
7510078 TAATTTTATT
* *
7510088 TTTTAAATTTAATATTAA-TAAAATA
1 TTTTAAATATAATATTAAGCAAAATA
*
7510113 TTTT-AATATAATTTTAAGCAAAATA
1 TTTTAAATATAATATTAAGCAAAATA
7510138 TT
1 TT
7510140 AATTATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
TTTTAAATATAATATTAAGCAAAATA
Found at i:7510197 original size:22 final size:23
Alignment explanation
Indices: 7510166--7510212 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
7510156 AAAATATATT
7510166 TATTAGTATTTCTAATAATATAA
1 TATTAGTATTTCTAATAATATAA
* *
7510189 TATTA-TATTTTTAATATTATAA
1 TATTAGTATTTCTAATAATATAA
7510211 TA
1 TA
7510213 AAATAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TATTAGTATTTCTAATAATATAA
Found at i:7510219 original size:30 final size:33
Alignment explanation
Indices: 7510160--7510229 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 33
7510150 ATATTTAAAA
* * *
7510160 TATATTTATTAGTATTTCTAATAATATAAT-AT
1 TATATTTATTAATATTTATAATAAAATAATAAT
7510192 TATATTT-TTAATA-TTATAATAAAATAATCAAT
1 TATATTTATTAATATTTATAATAAAATAAT-AAT
7510224 TATATT
1 TATATT
7510230 ATAAAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 13 0.39
31 5 0.15
32 15 0.45
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (33 bp):
TATATTTATTAATATTTATAATAAAATAATAAT
Found at i:7510353 original size:19 final size:18
Alignment explanation
Indices: 7510329--7510397 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 18
7510319 ATATTATTAA
7510329 ATTATTAATAATGAATAAT
1 ATTATTAATAAT-AATAAT
* *
7510348 ATTATTGAT-ATATTTAAT
1 ATTATTAATAATA-ATAAT
7510366 ATTAATATAATAATCTAATAAT
1 ATT-AT-TAATAA--TAATAAT
7510388 ATT-TTAATAA
1 ATTATTAATAA
7510398 AGATATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
17 1 0.03
18 9 0.22
19 16 0.40
20 4 0.10
21 1 0.03
22 7 0.17
23 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (18 bp):
ATTATTAATAATAATAAT
Found at i:7510418 original size:23 final size:23
Alignment explanation
Indices: 7510392--7510436 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7510382 AATAATATTT
7510392 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
7510415 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
7510437 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:7517165 original size:18 final size:19
Alignment explanation
Indices: 7517123--7517167 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
7517113 AAGAGGAAAA
*
7517123 AAAATGCCGAGACATCATG
1 AAAATGCCGAGACATAATG
* *
7517142 AGAATGCTGAG-CATAATG
1 AAAATGCCGAGACATAATG
7517160 AAAATGCC
1 AAAATGCC
7517168 AAGTTCGGCT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (19 bp):
AAAATGCCGAGACATAATG
Found at i:7519503 original size:24 final size:25
Alignment explanation
Indices: 7519457--7519511 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
7519447 ATAATTTATG
7519457 ACTATAGTACACTATTTTGTTTAGT
1 ACTATAGTACACTATTTTGTTTAGT
7519482 ACTATAGTACACT-TTTTGTTTAGT
1 ACTATAGTACACTATTTTGTTTAGT
7519506 ATCTAT
1 A-CTAT
7519512 CTATTATAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.49
Consensus pattern (25 bp):
ACTATAGTACACTATTTTGTTTAGT
Found at i:7523395 original size:21 final size:21
Alignment explanation
Indices: 7523371--7523420 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
7523361 TGGTGTATGG
*
7523371 CGTGATGAGGTA-CGGTCTTTA
1 CGTGATGAGGTAGAGGT-TTTA
*
7523392 CGTGGTGAGGTAGAGGTTTTA
1 CGTGATGAGGTAGAGGTTTTA
*
7523413 CGCGATGA
1 CGTGATGA
7523421 CAATGGTGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.20, C:0.12, G:0.38, T:0.30
Consensus pattern (21 bp):
CGTGATGAGGTAGAGGTTTTA
Found at i:7523769 original size:21 final size:21
Alignment explanation
Indices: 7523741--7523860 Score: 161
Period size: 21 Copynumber: 5.7 Consensus size: 21
7523731 GATTCACCTG
*
7523741 TCATCGTTCAAGAGGCCTCTC
1 TCATCGTTCAAGAGGCCCCTC
*
7523762 -CTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCCCTC
*
7523783 TCATCCTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * *
7523804 CCACCGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCCCCTC
*
7523825 TCATCGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCCCCTC
7523846 TCATCGTTCAAGAGG
1 TCATCGTTCAAGAGG
7523861 TCTCTCCCAC
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
20 1 0.01
21 85 0.98
22 1 0.01
ACGTcount: A:0.21, C:0.35, G:0.21, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:7523844 original size:63 final size:63
Alignment explanation
Indices: 7523745--7523875 Score: 192
Period size: 63 Copynumber: 2.1 Consensus size: 63
7523735 CACCTGTCAT
*
7523745 CGTTCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCCTATCATCCTTCAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCTATCGTTCAAGAGGCCCCTATCATCCTTCAAGAGGCCCCTCCCAC
* * * * *
7523808 CGTTCAAGAGGCCCCT-GTCATCGTTCAAGAGGCCCCTGTCATCGTTCAAGAGGTCTCTCCCAC
1 CGTTCAAGAGGCCCCTCCT-ATCGTTCAAGAGGCCCCTATCATCCTTCAAGAGGCCCCTCCCAC
7523871 CGTTC
1 CGTTC
7523876 GAGATCCCGA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
62 1 0.02
63 60 0.98
ACGTcount: A:0.19, C:0.37, G:0.20, T:0.24
Consensus pattern (63 bp):
CGTTCAAGAGGCCCCTCCTATCGTTCAAGAGGCCCCTATCATCCTTCAAGAGGCCCCTCCCAC
Found at i:7523874 original size:21 final size:21
Alignment explanation
Indices: 7523745--7523875 Score: 129
Period size: 21 Copynumber: 6.2 Consensus size: 21
7523735 CACCTGTCAT
* * *
7523745 CGTTCAAGAGGCCTCTCCTAT
1 CGTTCAAGAGGCCCCTCCCAC
**
7523766 CGTTCAAGAGGCCCCTATCATC
1 CGTTCAAGAGGCCCCTCCCA-C
7523788 C-TTCAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
** *
7523808 CGTTCAAGAGGCCCCTGTCAT
1 CGTTCAAGAGGCCCCTCCCAC
** *
7523829 CGTTCAAGAGGCCCCTGTCAT
1 CGTTCAAGAGGCCCCTCCCAC
* *
7523850 CGTTCAAGAGGTCTCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
7523871 CGTTC
1 CGTTC
7523876 GAGATCCCGA
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
20 2 0.02
21 90 0.97
22 1 0.01
ACGTcount: A:0.19, C:0.37, G:0.20, T:0.24
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTCCCAC
Found at i:7525158 original size:14 final size:14
Alignment explanation
Indices: 7525139--7525172 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
7525129 AAATTGATGT
7525139 ATTTGTAAAAGTTG
1 ATTTGTAAAAGTTG
7525153 ATTTGTAAAAGTTG
1 ATTTGTAAAAGTTG
7525167 ATTTGT
1 ATTTGT
7525173 TTAATTGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTGTAAAAGTTG
Found at i:7525231 original size:26 final size:27
Alignment explanation
Indices: 7525202--7525252 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
7525192 GAATTATTTT
* *
7525202 TTGA-TTGTTTAATTGATTTGTAAAAG
1 TTGATTTGTTTAAATGATGTGTAAAAG
7525228 TTGATTTGTTTAAATGATGTGTAAA
1 TTGATTTGTTTAAATGATGTGTAAA
7525253 TAATTCTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (27 bp):
TTGATTTGTTTAAATGATGTGTAAAAG
Found at i:7525254 original size:64 final size:64
Alignment explanation
Indices: 7525150--7525301 Score: 241
Period size: 64 Copynumber: 2.4 Consensus size: 64
7525140 TTTGTAAAAG
*
7525150 TTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGATTGTTTAA
1 TTGATTTGTAAAAGTTGATTTGTTTAAATGATGAGGAAATAAGAATTATTTTTTGATTGTTTAA
* * *** *
7525214 TTGATTTGTAAAAGTTGATTTGTTTAAATGATGTGTAAATAATTCTTATTTTTTGCTTGTTTAA
1 TTGATTTGTAAAAGTTGATTTGTTTAAATGATGAGGAAATAAGAATTATTTTTTGATTGTTTAA
7525278 TTGATTTGTAAAAGTTGATTTGTT
1 TTGATTTGTAAAAGTTGATTTGTT
7525302 GTTTTAAATT
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 81 1.00
ACGTcount: A:0.30, C:0.01, G:0.18, T:0.51
Consensus pattern (64 bp):
TTGATTTGTAAAAGTTGATTTGTTTAAATGATGAGGAAATAAGAATTATTTTTTGATTGTTTAA
Found at i:7525381 original size:20 final size:20
Alignment explanation
Indices: 7525356--7525413 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
7525346 GTTGAAGGTA
* *
7525356 CAAATTTGCAACGTGAAAGT
1 CAAATTCGCAACGCGAAAGT
* *
7525376 CAAATTCACAATGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
7525396 CAAATTCGCAACGCGAAA
1 CAAATTCGCAACGCGAAA
7525414 ATCGTAACAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:7527907 original size:24 final size:24
Alignment explanation
Indices: 7527873--7527926 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
7527863 CTGAAACATC
7527873 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
7527897 ATCAAAGTCCGGGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
7527921 ATCAAA
1 ATCAAA
7527927 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:7528916 original size:20 final size:20
Alignment explanation
Indices: 7528852--7528921 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
7528842 ACTAAAACCT
*
7528852 GTTGCGAATTC-GAAAATCGA
1 GTTGCAAATTCAG-AAATCGA
**
7528872 GTTGCAAAAACA-AAATTCGCA
1 GTTGCAAATTCAGAAA-TCG-A
7528893 -TTGCAAATTCAGAAATCGA
1 GTTGCAAATTCAGAAATCGA
*
7528912 GTTGCGAATT
1 GTTGCAAATT
7528922 TGGAAATCGC
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
19 4 0.10
20 31 0.79
21 4 0.10
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (20 bp):
GTTGCAAATTCAGAAATCGA
Found at i:7528927 original size:20 final size:20
Alignment explanation
Indices: 7528904--7528983 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
7528894 TGCAAATTCA
7528904 GAAATCGAGTTGCGAATTTG
1 GAAATCGAGTTGCGAATTTG
**
7528924 GAAATCGCA-ACGCGAATTTG
1 GAAATCG-AGTTGCGAATTTG
*
7528944 GAAA-CTGAGTTGCGAAATTG
1 GAAATC-GAGTTGCGAATTTG
** *
7528964 GAGTTCGCGTTGCGAATTTG
1 GAAATCGAGTTGCGAATTTG
7528984 TTGGTCATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
19 2 0.04
20 43 0.91
21 2 0.04
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.28
Consensus pattern (20 bp):
GAAATCGAGTTGCGAATTTG
Found at i:7530156 original size:35 final size:34
Alignment explanation
Indices: 7530110--7530222 Score: 154
Period size: 35 Copynumber: 3.2 Consensus size: 34
7530100 AAAACAATCC
* *
7530110 TCAATTTCATTCTAAACCACAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACC-CAAATTCTAAAATAAT
*
7530145 TCAATTTCATTCTAAACCCTAAATTCTAAAATAAA
1 TCAATTTCATTCTAAACCC-AAATTCTAAAATAAT
* *
7530180 TCAATTACATTCTAAAACCCAAATTCTAAAATACT
1 TCAATTTCATTCT-AAACCCAAATTCTAAAATAAT
7530215 TCAATTTC
1 TCAATTTC
7530223 TGTCTTTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
34 1 0.01
35 62 0.90
36 6 0.09
ACGTcount: A:0.43, C:0.22, G:0.01, T:0.34
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCAAATTCTAAAATAAT
Found at i:7531324 original size:35 final size:34
Alignment explanation
Indices: 7531275--7531386 Score: 152
Period size: 35 Copynumber: 3.2 Consensus size: 34
7531265 ATTCCACCTT
** *
7531275 AAATTGAAACATTTTAGAATTTGGGTTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGG-TTTAGAATG
*
7531310 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTT-GGGTTTAGAATG
*
7531345 AAATTGAATTACTTTGGAATTTGGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTT-GGGTTTAGAATG
7531380 AAATTGA
1 AAATTGA
7531387 GGAATGTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
35 66 0.96
36 3 0.04
ACGTcount: A:0.35, C:0.02, G:0.22, T:0.41
Consensus pattern (34 bp):
AAATTGAATTATTTTGGAATTTGGGTTTAGAATG
Found at i:7538851 original size:22 final size:23
Alignment explanation
Indices: 7538818--7538863 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
7538808 ATATGATTAA
7538818 TTTATTTTAATTTTTGTAAATTT
1 TTTATTTTAATTTTTGTAAATTT
* *
7538841 TTTA-TTTAATTTTTTTATATTT
1 TTTATTTTAATTTTTGTAAATTT
7538863 T
1 T
7538864 GTCTCTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTATTTTAATTTTTGTAAATTT
Found at i:7542683 original size:3 final size:3
Alignment explanation
Indices: 7542677--7542762 Score: 55
Period size: 3 Copynumber: 26.3 Consensus size: 3
7542667 TAAAAAAAAA
* * *
7542677 TAT TATT TATT TATT TAT TTAT TTAT TTAT TTAT TAT CAT TAC TAG TAT
1 TAT TA-T TA-T TA-T TAT -TAT -TAT T-AT T-AT TAT TAT TAT TAT TAT
* * *
7542726 TAT TAT TAT TAT TAT TTT TAT TAT TTT TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7542763 TTTTATTTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
3 44 0.64
4 25 0.36
ACGTcount: A:0.27, C:0.02, G:0.01, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:7542686 original size:4 final size:4
Alignment explanation
Indices: 7542679--7542711 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
7542669 AAAAAAAATA
7542679 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
7542712 ATCATTACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:7542773 original size:15 final size:16
Alignment explanation
Indices: 7542677--7542774 Score: 60
Period size: 18 Copynumber: 6.1 Consensus size: 16
7542667 TAAAAAAAAA
*
7542677 TATTA-TTTATTTATT
1 TATTATTTTATTTTTT
*
7542692 TATT-TATTTATTTATT
1 TATTAT-TTTATTTTTT
* ** *
7542708 TATTATCATTACTAGTAT
1 TATTAT-TTTA-TTTTTT
7542726 TATTATTATTATTATTTT
1 TATTATT-TTATT-TTTT
*
7542744 TATTATTTT-TATTTT
1 TATTATTTTATTTTTT
7542759 TATT-TTTTATTTTTT
1 TATTATTTTATTTTTT
7542774 T
1 T
7542775 GTTGCAGGCC
Statistics
Matches: 64, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
14 4 0.06
15 18 0.28
16 15 0.23
17 7 0.11
18 20 0.31
ACGTcount: A:0.24, C:0.02, G:0.01, T:0.72
Consensus pattern (16 bp):
TATTATTTTATTTTTT
Done.