Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 33 of 120
Found at i:8838654 original size:111 final size:111
Alignment explanation
Indices: 8838460--8838682 Score: 419
Period size: 111 Copynumber: 2.0 Consensus size: 111
8838450 GGTAGTTTTA
8838460 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTATCTGATCAAGAAACAAAG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTATCTGATCAAGAAACAAAG
*
8838525 TGATAAGTGGTTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
66 TGATAAGTGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
*
8838571 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTATCTGATCAAGAGACAAAG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTATCTGATCAAGAAACAAAG
*
8838636 TGATAAGTGGCTACACTTATCTGATCAAGTGATAAAGTGATAAGTG
66 TGATAAGTGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
8838682 G
1 G
8838683 TAGCTTCAGC
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 109 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (111 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTATCTGATCAAGAAACAAAG
TGATAAGTGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
Found at i:8838754 original size:45 final size:46
Alignment explanation
Indices: 8838645--8838768 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
8838635 GTGATAAGTG
* *
8838645 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
8838691 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
8838736 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
8838769 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:8844136 original size:27 final size:27
Alignment explanation
Indices: 8844066--8844142 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 27
8844056 TCATAGTTAG
* * *
8844066 TTCCATTACTGCTTGCATCATGA-TAC
1 TTCCATCACTGCTTGCGTCATGATTGC
*
8844092 TTCCA-C-CTGCTTGTGTCATGATTGC
1 TTCCATCACTGCTTGCGTCATGATTGC
* *
8844117 TTCCATCATTGCTTGCGTCATCATTG
1 TTCCATCACTGCTTGCGTCATGATTG
8844143 TTTTGAAGAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
24 13 0.32
25 7 0.17
26 6 0.15
27 15 0.37
ACGTcount: A:0.17, C:0.27, G:0.16, T:0.40
Consensus pattern (27 bp):
TTCCATCACTGCTTGCGTCATGATTGC
Found at i:8844228 original size:159 final size:160
Alignment explanation
Indices: 8843929--8844257 Score: 606
Period size: 159 Copynumber: 2.1 Consensus size: 160
8843919 ATTAATGGCC
*
8843929 ACTTCCATCACTGCTTGTGTCATGGTTGCTTCCATCATTGCTTGCGTCATCATTATTTTGAAGAT
1 ACTTCCA-CACTGCTTGTGTCATGATTGCTTCCATCATTGCTTGCGTCATCATTATTTTGAAGAT
* *
8843994 AGCTTCCACGTTGCAAGACTTTTTTGTCTGCATCTGGATATCTTATTACATCACTGCTTACTTCA
65 AGCTTCCACGTTGCAAGACTTTTTTGTCTACATCTAGATATCTTATTACATCACTGCTTACTTCA
8844059 TAGTTAGTTCCATTACTGCTTGCATCATGAT
130 TAGTTAGTTCCATTACTGCTTGCATCATGAT
*
8844090 ACTTCCAC-CTGCTTGTGTCATGATTGCTTCCATCATTGCTTGCGTCATCATTGTTTTGAAGATA
1 ACTTCCACACTGCTTGTGTCATGATTGCTTCCATCATTGCTTGCGTCATCATTATTTTGAAGATA
8844154 GCTTCCACGTTGCAAGACTTTTTTGTCTACATCTAGATATCTTATTACATCACTGCTTACTTCAT
66 GCTTCCACGTTGCAAGACTTTTTTGTCTACATCTAGATATCTTATTACATCACTGCTTACTTCAT
8844219 AGTTAGTTCCATTACTGCTTGCATCATGAT
131 AGTTAGTTCCATTACTGCTTGCATCATGAT
8844249 ACTTCCACA
1 ACTTCCACA
8844258 TTGCCAAACT
Statistics
Matches: 163, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
159 155 0.95
160 1 0.01
161 7 0.04
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (160 bp):
ACTTCCACACTGCTTGTGTCATGATTGCTTCCATCATTGCTTGCGTCATCATTATTTTGAAGATA
GCTTCCACGTTGCAAGACTTTTTTGTCTACATCTAGATATCTTATTACATCACTGCTTACTTCAT
AGTTAGTTCCATTACTGCTTGCATCATGAT
Found at i:8863636 original size:17 final size:18
Alignment explanation
Indices: 8863605--8863639 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
8863595 ATACTAAGTA
8863605 ATTTTATTAAATTATATT
1 ATTTTATTAAATTATATT
8863623 ATTTTATT-AATTATATT
1 ATTTTATTAAATTATATT
8863640 TAATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTATTAAATTATATT
Found at i:8863748 original size:18 final size:18
Alignment explanation
Indices: 8863725--8863760 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8863715 AATACTAAGA
*
8863725 ATTTTTATTAATTTATAT
1 ATTTTTATTAAATTATAT
*
8863743 ATTTTTGTTAAATTATAT
1 ATTTTTATTAAATTATAT
8863761 TTAATAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
ATTTTTATTAAATTATAT
Found at i:8863790 original size:121 final size:121
Alignment explanation
Indices: 8863565--8863826 Score: 458
Period size: 121 Copynumber: 2.2 Consensus size: 121
8863555 NNNNNNNNNN
8863565 GATTTTAGTAAATTCATATAAGAATATTTAATACTAAGTAATTTTATTAAATTATATTATTTTAT
1 GATTTTAGTAAATTCATATAAGAATATTTAATACTAAGTAATTTTATTAAATTATATTATTTTAT
8863630 TAATTATATTTAATAATAATTATTTTAAATTATATTTTTATAGTATTATATATTAT
66 TAATTATATTTAATAATAATTATTTTAAATTATATTTTTATAGTATTATATATTAT
*
8863686 GATTTTAGTAAATTCATATAAGAATATTTAATACTAAG-AATTTTTATTAATTTATA-TATTTTT
1 GATTTTAGTAAATTCATATAAGAATATTTAATACTAAGTAA-TTTTATTAAATTATATTA-TTTT
*
8863749 GTTAAATTATATTTAATAATAATTATTTTAAATTATA-TTTTATAGTATTATATATTAT
64 ATT-AATTATATTTAATAATAATTATTTTAAATTATATTTTTATAGTATTATATATTAT
8863807 GATTTTAGTAAATTCATATA
1 GATTTTAGTAAATTCATATA
8863827 TTTTATTAAA
Statistics
Matches: 136, Mismatches: 2, Indels: 6
0.94 0.01 0.04
Matches are distributed among these distances:
120 4 0.03
121 99 0.73
122 33 0.24
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (121 bp):
GATTTTAGTAAATTCATATAAGAATATTTAATACTAAGTAATTTTATTAAATTATATTATTTTAT
TAATTATATTTAATAATAATTATTTTAAATTATATTTTTATAGTATTATATATTAT
Found at i:8863831 original size:18 final size:17
Alignment explanation
Indices: 8863808--8863860 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 17
8863798 ATATATTATG
*
8863808 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
8863826 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
8863843 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
8863861 TTAATAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 5 0.15
18 28 0.85
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:8863897 original size:121 final size:122
Alignment explanation
Indices: 8863565--8863880 Score: 391
Period size: 121 Copynumber: 2.6 Consensus size: 122
8863555 NNNNNNNNNN
*
8863565 GATTTTAGTAAATTCATATAAGAATATTTAATACTAAGTAA-TTTTATTAAATTATATTATT--T
1 GATTTTAGTAAATTCATATAAGAATATTAAATACTAAG-AATTTTTATTAAATTATA-TATTAAT
* * *
8863627 TATTAATTATATTTAATAATAATTATTTTAAATTATATTTTTATAGTATTATATATTAT
64 AATAAATTATATTAAATAATAATTATTTTAAATTATATTTTTATAGTATTATATATTAT
* * ** **
8863686 GATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTTATTAATTTATATATTTTTGT
1 GATTTTAGTAAATTCATATAAGAATATTAAATACTAAGAATTTTTATTAAATTATATATTAATAA
*
8863751 TAAATTATATTTAATAATAATTATTTTAAATTATA-TTTTATAGTATTATATATTAT
66 TAAATTATATTAAATAATAATTATTTTAAATTATATTTTTATAGTATTATATATTAT
*** *
8863807 GATTTTAGTAAATTCATAT-ATTTTATTAAAT--TATA-TATTTTTATTAAATTATAT-TTAATA
1 GATTTTAGTAAATTCATATAAGAATATTAAATACTA-AGAATTTTTATTAAATTATATATTAATA
*
8863867 AT-AATTATGTTAAA
65 ATAAATTATATTAAA
8863881 ATATGATTAA
Statistics
Matches: 175, Mismatches: 16, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
116 10 0.06
117 4 0.02
118 19 0.11
119 1 0.01
120 14 0.08
121 92 0.53
122 35 0.20
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (122 bp):
GATTTTAGTAAATTCATATAAGAATATTAAATACTAAGAATTTTTATTAAATTATATATTAATAA
TAAATTATATTAAATAATAATTATTTTAAATTATATTTTTATAGTATTATATATTAT
Found at i:8868847 original size:34 final size:34
Alignment explanation
Indices: 8868804--8868888 Score: 107
Period size: 35 Copynumber: 2.5 Consensus size: 34
8868794 GGTATTAAAG
8868804 TGTGGTTGTTTTGCATATTACAATGATATCCAAA
1 TGTGGTTGTTTTGCATATTACAATGATATCCAAA
* * * * *
8868838 TGTGGTTGTTTTTACATGTTATAATGTTGTCCAAA
1 TGTGGTTG-TTTTGCATATTACAATGATATCCAAA
*
8868873 TGTGGTTGCTTTGCAT
1 TGTGGTTGTTTTGCAT
8868889 GTATTAACGC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 14 0.33
35 29 0.67
ACGTcount: A:0.22, C:0.11, G:0.21, T:0.46
Consensus pattern (34 bp):
TGTGGTTGTTTTGCATATTACAATGATATCCAAA
Found at i:8868903 original size:34 final size:35
Alignment explanation
Indices: 8868832--8868904 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 35
8868822 TACAATGATA
* * *
8868832 TCCAAATGTGGTTGTTTTTACATGTTATAATGTTG
1 TCCAAATGTGGTTGTCTTTACATGTTATAACGCTG
*
8868867 TCCAAATGTGGTTG-CTTTGCATG-TATTAACGCTG
1 TCCAAATGTGGTTGTCTTTACATGTTA-TAACGCTG
8868901 TCCA
1 TCCA
8868905 TTTTTTGTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 2 0.06
34 17 0.52
35 14 0.42
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (35 bp):
TCCAAATGTGGTTGTCTTTACATGTTATAACGCTG
Found at i:8868979 original size:69 final size:69
Alignment explanation
Indices: 8868899--8869074 Score: 246
Period size: 69 Copynumber: 2.6 Consensus size: 69
8868889 GTATTAACGC
*
8868899 TGTCCATTTTTTGTACAAATCTATGATGTCCTAATGTTATTAATGCTGTCCAAATTAGTGCGTAA
1 TGTCCATTTTTTGTACAAATCTATGATGTCCTAATGTTATTAATGCTGCCCAAATTAGTGCGTAA
8868964 ATGA
66 ATGA
* *
8868968 TGTCCATTTTTTGTACAAATCTATGCTGT-CTGAATGATATTAATGCTGCCCAAATTAGTGCGTA
1 TGTCCATTTTTTGTACAAATCTATGATGTCCT-AATGTTATTAATGCTGCCCAAATTAGTGCGTA
*
8869032 AATGT
65 AATGA
* * * * * *
8869037 TGTCTATTTTTGGTACAAGTCAATGTTGTCCAAATGTT
1 TGTCCATTTTTTGTACAAATCTATGATGTCCTAATGTT
8869075 TTTACTATTG
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
68 2 0.02
69 91 0.97
70 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (69 bp):
TGTCCATTTTTTGTACAAATCTATGATGTCCTAATGTTATTAATGCTGCCCAAATTAGTGCGTAA
ATGA
Found at i:8870116 original size:5 final size:5
Alignment explanation
Indices: 8870108--8870142 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
8870098 TTTATAAAGG
8870108 TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA
8870143 ATGTTATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:8872955 original size:2 final size:2
Alignment explanation
Indices: 8872950--8872981 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8872940 ATGATTTAAA
8872950 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
8872982 GAATTGATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8874230 original size:11 final size:11
Alignment explanation
Indices: 8874204--8874240 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
8874194 TGTAAAATAT
8874204 AAATAATTTT-
1 AAATAATTTTA
8874214 AAATAATTTTA
1 AAATAATTTTA
*
8874225 AAATAA-TATA
1 AAATAATTTTA
8874235 AAATAA
1 AAATAA
8874241 ATCAATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 19 0.76
11 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAATAATTTTA
Found at i:8874500 original size:30 final size:32
Alignment explanation
Indices: 8874435--8874511 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 32
8874425 TCAAAATTTC
***
8874435 AAAAAATATATTAAAAAGTTCTAAATTTTTAT
1 AAAAAATATATTAAAAAGTTCTAAATTACGAT
*
8874467 AAAAAATAT-TTAAAAAGTTCTAAA-TACGGT
1 AAAAAATATATTAAAAAGTTCTAAATTACGAT
* *
8874497 AAAAAAGATGTTAAA
1 AAAAAATATATTAAA
8874512 TTATAAAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
30 10 0.26
31 20 0.51
32 9 0.23
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (32 bp):
AAAAAATATATTAAAAAGTTCTAAATTACGAT
Found at i:8884320 original size:22 final size:22
Alignment explanation
Indices: 8884295--8884345 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
8884285 CTCATATTTC
8884295 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
8884317 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
8884339 CTCTCAA
1 CTCTCAA
8884346 ATCCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:8884372 original size:29 final size:28
Alignment explanation
Indices: 8884337--8884425 Score: 82
Period size: 29 Copynumber: 3.3 Consensus size: 28
8884327 CCTTCCAAAA
8884337 TTCTCTCAAATCCATATTTAATTTCAAT
1 TTCTCTCAAATCCATATTTAATTTCAAT
** * *
8884365 TTCT-TC---T-CA-ATTTCCTTCCAAAA
1 TTCTCTCAAATCCATATTTAATTTC-AAT
8884388 TTCTCTCAAATCCATATTTAATTTCAAT
1 TTCTCTCAAATCCATATTTAATTTCAAT
8884416 TTCCTCTCAA
1 TT-CTCTCAA
8884426 TTTCCTTTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 15
0.66 0.12 0.22
Matches are distributed among these distances:
22 7 0.16
23 8 0.18
24 3 0.07
27 3 0.07
28 10 0.22
29 14 0.31
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (28 bp):
TTCTCTCAAATCCATATTTAATTTCAAT
Found at i:8884381 original size:51 final size:51
Alignment explanation
Indices: 8884317--8884432 Score: 223
Period size: 51 Copynumber: 2.3 Consensus size: 51
8884307 TTCCAAAATT
8884317 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
*
8884368 TTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
8884419 CTCTCAATTTCCTT
1 CTCTCAATTTCCTT
8884433 TGTTAAAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
Found at i:8885577 original size:7 final size:7
Alignment explanation
Indices: 8885565--8885589 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8885555 AGTCAATTGA
8885565 TATTTAG
1 TATTTAG
8885572 TATTTAG
1 TATTTAG
8885579 TATTTAG
1 TATTTAG
8885586 TATT
1 TATT
8885590 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:8886267 original size:18 final size:18
Alignment explanation
Indices: 8886240--8886279 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
8886230 CAGGTGTGTT
*
8886240 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
8886258 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
8886276 TCCT
1 TCCT
8886280 TTTACGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:8886737 original size:43 final size:43
Alignment explanation
Indices: 8886686--8886777 Score: 107
Period size: 46 Copynumber: 2.0 Consensus size: 43
8886676 TTATTTGTAC
8886686 AAATATTTTGAG-TATTTAGA-AGTTTATTTGATGTAATAAAAATAG
1 AAAT-TTTTGAGTTATTTAGATA--TTATTTGATGTAAT-AAAATAG
*
8886731 AAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
1 AAA--TTTTTGAGTTATTTAGATATTATTTGATGTAATAAAATAG
8886776 AA
1 AA
8886778 GTTTCTTTGA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
45 12 0.29
46 21 0.50
47 8 0.19
48 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (43 bp):
AAATTTTTGAGTTATTTAGATATTATTTGATGTAATAAAATAG
Found at i:8886819 original size:9 final size:9
Alignment explanation
Indices: 8886805--8886841 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
8886795 AAATATAAAT
8886805 TTTTGAATA
1 TTTTGAATA
8886814 TTTTGAATA
1 TTTTGAATA
8886823 TTTTGAATA
1 TTTTGAATA
8886832 TTTTG-ATA
1 TTTTGAATA
8886840 TT
1 TT
8886842 ATTTGAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 5 0.18
9 23 0.82
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (9 bp):
TTTTGAATA
Found at i:8886931 original size:46 final size:46
Alignment explanation
Indices: 8886878--8887557 Score: 811
Period size: 46 Copynumber: 14.3 Consensus size: 46
8886868 AATTGAAAAG
*
8886878 AAAACCCTAACCTAATTAAATTGAAAATCCTAACCTAATTAAATTA
1 AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
****
8886924 AAAACCCTAACCTAATTAAACCCTAAACCCTAACCTAATTAAATTGAAAA
1 AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATT----A
*
8886974 GAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTG
1 -AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
****
8887021 AAAACCCTAACCTAATTAAACCCTAAACCCTAACCTAATTAAATTAAAA
1 AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATT---A
* * * *
8887070 AGAAATCCCTAATCTAATTAAATTGAAAACCCTAACCTAGTTCAATTG
1 A-AAA-CCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
*
8887118 AAAACCCTAACCTAGTTAAATTGAAAACCCTAACCTAATTAAATTGA
1 AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATT-A
* *
8887165 AAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAACCCTAA
1 AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA---TTA
8887214 AAAACCCTAACCTAATTAAATTGAAAAAAAAACCCTAACCTAATTAAATTA
1 AAAACCCTAACCTAATTAAATTG-----AAAACCCTAACCTAATTAAATTA
* **** * * *
8887265 AAAACTCTAACCTAATTAAACCCTAAACTCTATCCTAATTAAATTG
1 AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
*
8887311 AAAACCCTAACCTAATTAAATTGAAAATCCTAACCTAATTAAATTGAAAA
1 AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATT----A
***
8887361 GAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAACCC
1 -AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
*
8887408 TAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
1 AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
* * * ***
8887454 AAAACCCTAACCTAATTAAATTAAAAACCCTAATCTAATTATACCC
1 AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
*
8887500 TAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
1 AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
8887546 AAAACCCTAACC
1 AAAACCCTAACC
8887558 CTAAACCCTT
Statistics
Matches: 537, Mismatches: 73, Indels: 48
0.82 0.11 0.07
Matches are distributed among these distances:
46 305 0.57
47 44 0.08
48 1 0.00
49 24 0.04
50 5 0.01
51 138 0.26
54 20 0.04
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.25
Consensus pattern (46 bp):
AAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAATTA
Found at i:8887025 original size:97 final size:97
Alignment explanation
Indices: 8886856--8887549 Score: 867
Period size: 97 Copynumber: 7.2 Consensus size: 97
8886846 GAGAATTCTA
*
8886856 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTGAAAATCCTAACCTAATTAAA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
* ****
8886921 TTAAAAACCCTAACCTAATTAAACCCTAAACC
66 TTGAAAACCCTAACCTAATTAAATTGAAAACC
8886953 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
****
8887018 TTGAAAACCCTAACCTAATTAAACCCTAAACC
66 TTGAAAACCCTAACCTAATTAAATTGAAAACC
* * * * *
8887050 CTAACCTAATTAAATTAAAAAGAAATCCCTAATCTAATTAAATTGAAAACCCTAACCTAGTTCAA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
*
8887115 TTGAAAACCCTAACCTAGTTAAATTGAAAACC
66 TTGAAAACCCTAACCTAATTAAATTGAAAACC
*
8887147 CTAACCTAATTAAATTG---A-AAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
**
8887208 CCCTAAAAAACCCTAACCTAATTAAATTGAAAAAAAAACC
66 ---TTGAAAACCCTAACCTAATTAAATTG-----AAAACC
* **** * *
8887248 CTAACCTAATTAAATT----A-AAAACTCTAACCTAATTAAACCCTAAACTCTATCCTAATTAAA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
*
8887308 TTGAAAACCCTAACCTAATTAAATTGAAAATC
66 TTGAAAACCCTAACCTAATTAAATTGAAAACC
8887340 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
****
8887405 CCCTAAACCCTAACCTAATTAAATTGAAAACC
66 TTGAAAACCCTAACCTAATTAAATTGAAAACC
* * *
8887437 CTAACCTAATTAAATT----A-AAAACCCTAACCTAATTAAATTAAAAACCCTAATCTAATTATA
1 CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
****
8887497 CCCTAAACCCTAACCTAATTAAATTGAAAACC
66 TTGAAAACCCTAACCTAATTAAATTGAAAACC
*
8887529 CTAACCTAATTAAATTAAAAA
1 CTAACCTAATTAAATTGAAAA
8887550 CCCTAACCCT
Statistics
Matches: 534, Mismatches: 46, Indels: 35
0.87 0.07 0.06
Matches are distributed among these distances:
92 109 0.20
93 39 0.07
94 1 0.00
96 25 0.05
97 301 0.56
100 37 0.07
101 22 0.04
ACGTcount: A:0.49, C:0.22, G:0.03, T:0.26
Consensus pattern (97 bp):
CTAACCTAATTAAATTGAAAAGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTAATTAAA
TTGAAAACCCTAACCTAATTAAATTGAAAACC
Found at i:8887521 original size:28 final size:24
Alignment explanation
Indices: 8886856--8887557 Score: 721
Period size: 23 Copynumber: 29.2 Consensus size: 24
8886846 GAGAATTCTA
8886856 CTAACCTAATTAAATTGAAAAGAAAACC
1 CTAACCTAATTAAATT----AGAAAACC
*
8886884 CTAACCTAATTAAATT-GAAAATC
1 CTAACCTAATTAAATTAGAAAACC
8886907 CTAACCTAATTAAATTA-AAAACC
1 CTAACCTAATTAAATTAGAAAACC
****
8886930 CTAACCTAATTAAA-CCCTAAACC
1 CTAACCTAATTAAATTAGAAAACC
8886953 CTAACCTAATTAAATTGAAAAGAAAACC
1 CTAACCTAATTAAATT----AGAAAACC
8886981 CTAACCTAATTAAATT-GAAAACC
1 CTAACCTAATTAAATTAGAAAACC
8887004 CTAACCTAATTAAATT-GAAAACC
1 CTAACCTAATTAAATTAGAAAACC
****
8887027 CTAACCTAATTAAA-CCCTAAACC
1 CTAACCTAATTAAATTAGAAAACC
*
8887050 CTAACCTAATTAAATTAAAAAGAAATCC
1 CTAACCTAATTAAATT----AGAAAACC
*
8887078 CTAATCTAATTAAATT-GAAAACC
1 CTAACCTAATTAAATTAGAAAACC
* *
8887101 CTAACCTAGTTCAATT-GAAAACC
1 CTAACCTAATTAAATTAGAAAACC
*
8887124 CTAACCTAGTTAAATT-GAAAACC
1 CTAACCTAATTAAATTAGAAAACC
8887147 CTAACCTAATTAAATT-GAAAAACC
1 CTAACCTAATTAAATTAG-AAAACC
8887171 CTAACCTAATTAAATTA-AAAACC
1 CTAACCTAATTAAATTAGAAAACC
* *
8887194 CTAACCTAATTAAACCCTAAAAAACC
1 CTAACCTAATTAAA--TTAGAAAACC
*
8887220 CTAACCTAATTAAATTGAAAAAAAAACC
1 CTAACCTAATTAAATT----AGAAAACC
*
8887248 CTAACCTAATTAAATTA-AAAACT
1 CTAACCTAATTAAATTAGAAAACC
**** *
8887271 CTAACCTAATTAAA-CCCTAAACT
1 CTAACCTAATTAAATTAGAAAACC
*
8887294 CTATCCTAATTAAATT-GAAAACC
1 CTAACCTAATTAAATTAGAAAACC
*
8887317 CTAACCTAATTAAATT-GAAAATC
1 CTAACCTAATTAAATTAGAAAACC
8887340 CTAACCTAATTAAATTGAAAAGAAAACC
1 CTAACCTAATTAAATT----AGAAAACC
8887368 CTAACCTAATTAAATT-GAAAACC
1 CTAACCTAATTAAATTAGAAAACC
****
8887391 CTAACCTAATTAAA-CCCTAAACC
1 CTAACCTAATTAAATTAGAAAACC
8887414 CTAACCTAATTAAATT-GAAAACC
1 CTAACCTAATTAAATTAGAAAACC
8887437 CTAACCTAATTAAATTA-AAAACC
1 CTAACCTAATTAAATTAGAAAACC
8887460 CTAACCTAATTAAATTA-AAAACC
1 CTAACCTAATTAAATTAGAAAACC
* * ****
8887483 CTAATCTAATTATA-CCCTAAACC
1 CTAACCTAATTAAATTAGAAAACC
8887506 CTAACCTAATTAAATT-GAAAACC
1 CTAACCTAATTAAATTAGAAAACC
8887529 CTAACCTAATTAAATTA-AAAACC
1 CTAACCTAATTAAATTAGAAAACC
8887552 CTAACC
1 CTAACC
8887558 CTAAACCCTT
Statistics
Matches: 585, Mismatches: 54, Indels: 75
0.82 0.08 0.11
Matches are distributed among these distances:
23 437 0.75
24 24 0.04
25 2 0.00
26 20 0.03
28 102 0.17
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.25
Consensus pattern (24 bp):
CTAACCTAATTAAATTAGAAAACC
Found at i:8887582 original size:16 final size:17
Alignment explanation
Indices: 8887554--8887585 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
8887544 TAAAAACCCT
8887554 AACCCTAAACCCTTAAA
1 AACCCTAAACCCTTAAA
8887571 AACCCT-AACCCTTAA
1 AACCCTAAACCCTTAA
8887586 CATTCATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.19
Consensus pattern (17 bp):
AACCCTAAACCCTTAAA
Found at i:8887783 original size:115 final size:115
Alignment explanation
Indices: 8887585--8887802 Score: 350
Period size: 115 Copynumber: 1.9 Consensus size: 115
8887575 CTAACCCTTA
* * *
8887585 ACATTCATATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAATTAATAATTTTATA
1 ACATTCACATAATGTTAGATTTGGAAAAATG-TTTTTCCTCGTACTAACAAATAATAATTTTATA
*
8887650 TAATTTGATAATTTTACTAACAATTAATACAATTTATCGGATAATAATTTT
65 TAAATTGATAATTTTACTAACAATTAATACAATTTATCGGATAATAATTTT
8887701 ACATTCACATAATGTTAGATTTGGAAAAATG-TTTTCACTCGTACTAACAAATAATAATTTTATA
1 ACATTCACATAATGTTAGATTTGGAAAAATGTTTTTC-CTCGTACTAACAAATAATAATTTTATA
*
8887765 TAAATTGA-AATTTTTACTAACCATTAATACAATTTATC
65 TAAATTGATAA-TTTTACTAACAATTAATACAATTTATC
8887803 AATTAATAAT
Statistics
Matches: 95, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
114 7 0.07
115 58 0.61
116 30 0.32
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.42
Consensus pattern (115 bp):
ACATTCACATAATGTTAGATTTGGAAAAATGTTTTTCCTCGTACTAACAAATAATAATTTTATAT
AAATTGATAATTTTACTAACAATTAATACAATTTATCGGATAATAATTTT
Found at i:8890966 original size:126 final size:125
Alignment explanation
Indices: 8890736--8891087 Score: 564
Period size: 123 Copynumber: 2.8 Consensus size: 125
8890726 CCCAAACATG
*
8890736 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTT-ACAAATTCTTCTCAAATAGCATCCTG
*
8890801 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGGCAAAAAAAAAATTATTTCATCCATGAC
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAA-TATTTCATCCATGAC
*
8890863 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTTACAAATTATTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGC
8890928 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTC--AAAAAAAATATTTCATCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAATATTTCATCCATGAC
* * * * * * *
8890986 CTACTGTAGCAAAAGCATGTTCATGAGGGCGCGATTTCATAAATTCTTCTCAAATAGCATCTTGT
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGC
* *
8891051 TAGAAGCGATTTTATACTATTTGATCAGAAATGTCAA
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
8891088 CTCAAAATTA
Statistics
Matches: 210, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
123 105 0.50
124 8 0.04
126 60 0.29
127 37 0.18
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAATATTTCATCCATGAC
Found at i:8901582 original size:12 final size:13
Alignment explanation
Indices: 8901557--8901583 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8901547 ATTTGAGAGC
8901557 AAAATGAGCAAAA
1 AAAATGAGCAAAA
8901570 AAAATGAGCAAAA
1 AAAATGAGCAAAA
8901583 A
1 A
8901584 CTGAAAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.15, T:0.07
Consensus pattern (13 bp):
AAAATGAGCAAAA
Found at i:8904889 original size:31 final size:30
Alignment explanation
Indices: 8904854--8904931 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 30
8904844 CATTAAGGAA
8904854 ACTTTTGGCGTGCT-CTCTATTCTATTAATGC
1 ACTTTT-G-GTGCTACTCTATTCTATTAATGC
* *
8904885 AC-TTTGGTGCTACTCTGTTCTGTTAATGC
1 ACTTTTGGTGCTACTCTATTCTATTAATGC
*
8904914 AC-TTCGGTGC-ACTCTATT
1 ACTTTTGGTGCTACTCTATT
8904932 TTGATGACGC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 12 0.29
29 25 0.60
30 3 0.07
31 2 0.05
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (30 bp):
ACTTTTGGTGCTACTCTATTCTATTAATGC
Found at i:8904905 original size:29 final size:29
Alignment explanation
Indices: 8904863--8904931 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
8904853 AACTTTTGGC
*
8904863 GTGCT-CTCTATTCTATTAATGCACTTTG
1 GTGCTACTCTATTCTATTAATGCACTTCG
* *
8904891 GTGCTACTCTGTTCTGTTAATGCACTTCG
1 GTGCTACTCTATTCTATTAATGCACTTCG
8904920 GTGC-ACTCTATT
1 GTGCTACTCTATT
8904932 TTGATGACGC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
28 12 0.33
29 24 0.67
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.43
Consensus pattern (29 bp):
GTGCTACTCTATTCTATTAATGCACTTCG
Found at i:8905886 original size:23 final size:24
Alignment explanation
Indices: 8905837--8905895 Score: 84
Period size: 23 Copynumber: 2.5 Consensus size: 24
8905827 CTAAACAACT
8905837 CAAAAATTCAATCCAACCTTTAAA
1 CAAAAATTCAATCCAACCTTTAAA
** *
8905861 CAAGTATTCAATCCAATC-TTAAA
1 CAAAAATTCAATCCAACCTTTAAA
8905884 CAAAAATTCAAT
1 CAAAAATTCAAT
8905896 ACATAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 15 0.50
24 15 0.50
ACGTcount: A:0.49, C:0.22, G:0.02, T:0.27
Consensus pattern (24 bp):
CAAAAATTCAATCCAACCTTTAAA
Found at i:8909348 original size:32 final size:33
Alignment explanation
Indices: 8909303--8909383 Score: 87
Period size: 32 Copynumber: 2.5 Consensus size: 33
8909293 TTTAACAAAG
* *
8909303 AGTTATAACTATTTAAGTAA-TTTTAATTGAAT
1 AGTTATATCTATTTAAGTAAGTCTTAATTGAAT
* *
8909335 AGTTATATTTATTT-A-TAAGGTCTTACTTGAAT
1 AGTTATATCTATTTAAGTAA-GTCTTAATTGAAT
*
8909367 GGTTATATCTATTTAAG
1 AGTTATATCTATTTAAG
8909384 AGATGTGATT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
30 3 0.08
31 1 0.03
32 34 0.87
33 1 0.03
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.48
Consensus pattern (33 bp):
AGTTATATCTATTTAAGTAAGTCTTAATTGAAT
Found at i:8915576 original size:24 final size:25
Alignment explanation
Indices: 8915469--8915576 Score: 71
Period size: 25 Copynumber: 4.4 Consensus size: 25
8915459 CATGTATGCC
*
8915469 CATACGAGCATGTAATCGGGAAGCT
1 CATACGAGCATGTAAACGGGAAGCT
* * * *
8915494 CTTTCGAGCCATAT-AACGAGAAGCT
1 CATACGAG-CATGTAAACGGGAAGCT
* * *
8915519 CA-AGTGAGTCTTGT-AACAGGAAGCT
1 CATA-CGAG-CATGTAAACGGGAAGCT
* *
8915544 CCTAAGAGC-TGTAAACGGGAAGCT
1 CATACGAGCATGTAAACGGGAAGCT
8915568 CATACGAGC
1 CATACGAGC
8915577 CAATATCGGG
Statistics
Matches: 61, Mismatches: 18, Indels: 9
0.69 0.20 0.10
Matches are distributed among these distances:
23 3 0.05
24 18 0.30
25 35 0.57
26 5 0.08
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.20
Consensus pattern (25 bp):
CATACGAGCATGTAAACGGGAAGCT
Found at i:8915615 original size:25 final size:26
Alignment explanation
Indices: 8915581--8915694 Score: 83
Period size: 25 Copynumber: 4.5 Consensus size: 26
8915571 ACGAGCCAAT
*
8915581 ATCGGGAAGCTCCGGAAAGA-CATTA
1 ATCGGGAAGCTCAGGAAAGACCATTA
* *
8915606 ATCGGGAAGCTCATGAAAGAGCCTTTA
1 ATCGGGAAGCTCAGGAAAGA-CCATTA
* * ** *
8915633 ATCGGGAAGTTCAAGCGAG-CCAAT-
1 ATCGGGAAGCTCAGGAAAGACCATTA
* * *
8915657 ATCGGAAAGCTCCGGAGAG-CCATTA
1 ATCGGGAAGCTCAGGAAAGACCATTA
*
8915682 ATCGGGAATCTCA
1 ATCGGGAAGCTCA
8915695 TAAAAGCTAT
Statistics
Matches: 68, Mismatches: 18, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
24 18 0.26
25 31 0.46
27 19 0.28
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.18
Consensus pattern (26 bp):
ATCGGGAAGCTCAGGAAAGACCATTA
Found at i:8915655 original size:76 final size:76
Alignment explanation
Indices: 8915559--8915700 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 76
8915549 GAGCTGTAAA
* *
8915559 CGGGAAGCTCATACGAGCCAATATCGGGAAGCTCCGGAAAGACATTAATCGGGAAGCTCATGAAA
1 CGGGAAGCTCATACGAGCCAATATCGGAAAGCTCCGGAAAGACATTAATCGGGAAGCTCATAAAA
8915624 GAGCCTTTAAT
66 GAGCCTTTAAT
* * * *
8915635 CGGGAAGTTCA-AGCGAGCCAATATCGGAAAGCTCCGGAGAGCCATTAATCGGGAATCTCATAAA
1 CGGGAAGCTCATA-CGAGCCAATATCGGAAAGCTCCGGAAAGACATTAATCGGGAAGCTCATAAA
8915699 AG
65 AG
8915701 CTATGGTGTG
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
75 1 0.02
76 58 0.98
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.18
Consensus pattern (76 bp):
CGGGAAGCTCATACGAGCCAATATCGGAAAGCTCCGGAAAGACATTAATCGGGAAGCTCATAAAA
GAGCCTTTAAT
Found at i:8929713 original size:20 final size:21
Alignment explanation
Indices: 8929677--8929717 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
8929667 AACTTTAGAC
8929677 TTTTAGTTTTTAGAATTTTTT
1 TTTTAGTTTTTAGAATTTTTT
8929698 TTTTA-TTTATTA-AATTTTTT
1 TTTTAGTTT-TTAGAATTTTTT
8929718 GCAATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (21 bp):
TTTTAGTTTTTAGAATTTTTT
Found at i:8929753 original size:18 final size:18
Alignment explanation
Indices: 8929730--8929768 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
8929720 AATTTTTATG
*
8929730 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGATA
8929748 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
8929766 ATT
1 ATT
8929769 TTATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.44, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:8931758 original size:44 final size:45
Alignment explanation
Indices: 8931672--8931759 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 45
8931662 CGCTGTAATG
**
8931672 GAATAGAGGTGTAATAGTAATTCAATTGTTTGGTTGAATGGAATA
1 GAATAGAACTGTAATAGTAATTCAATTGTTTGGTTGAATGGAATA
*
8931717 GAATAGAACTGTAATAGT-ATTC-TTGTGTTTGGTTGAATGGAAT
1 GAATAGAACTGTAATAGTAATTCAAT-TGTTTGGTTGAATGGAAT
8931760 GATGTTGTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
43 1 0.03
44 22 0.56
45 16 0.41
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (45 bp):
GAATAGAACTGTAATAGTAATTCAATTGTTTGGTTGAATGGAATA
Found at i:8931769 original size:39 final size:40
Alignment explanation
Indices: 8931668--8931775 Score: 114
Period size: 44 Copynumber: 2.6 Consensus size: 40
8931658 GGTTCGCTGT
*
8931668 AATGGAATAGA-GGTGTAATAGTAATTCAATTGTTTGGTTG
1 AATGGAATAGATGCTGTAATAGT-ATTCAATTGTTTGGTTG
*
8931708 AATGGAATAGAATAGAACTGTAATAGTATTC-TTGTGTTTGGTTG
1 AATGGAATAG-AT-G--CTGTAATAGTATTCAAT-TGTTTGGTTG
*
8931752 AATGGAAT-GATGTTGTAATAGTAT
1 AATGGAATAGATGCTGTAATAGTAT
8931776 AAGGAAAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
39 11 0.19
40 10 0.17
41 2 0.03
42 2 0.03
43 3 0.05
44 22 0.37
45 9 0.15
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (40 bp):
AATGGAATAGATGCTGTAATAGTATTCAATTGTTTGGTTG
Found at i:8935585 original size:15 final size:16
Alignment explanation
Indices: 8935565--8935597 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
8935555 TCAATAACAT
8935565 TTTTTAAAA-TTATTA
1 TTTTTAAAATTTATTA
8935580 TTTTTAAAATTTATTA
1 TTTTTAAAATTTATTA
8935596 TT
1 TT
8935598 AAAATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTTAAAATTTATTA
Found at i:8935631 original size:20 final size:22
Alignment explanation
Indices: 8935606--8935650 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
8935596 TTAAAATAAA
*
8935606 ATTAAAATATTAAA-TA-ATTT
1 ATTAAAATAATAAATTATATTT
8935626 ATTAAAATAATAAATTATATTT
1 ATTAAAATAATAAATTATATTT
8935648 ATT
1 ATT
8935651 TTATGACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.59
21 2 0.09
22 7 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTAAAATAATAAATTATATTT
Found at i:8935719 original size:9 final size:9
Alignment explanation
Indices: 8935705--8935733 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
8935695 TGAAAAATAT
8935705 AATATTTTA
1 AATATTTTA
8935714 AATATTTTA
1 AATATTTTA
8935723 AATATTTTA
1 AATATTTTA
8935732 AA
1 AA
8935734 AATAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
AATATTTTA
Found at i:8936852 original size:20 final size:20
Alignment explanation
Indices: 8936823--8936868 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
8936813 TGTATCAACT
* *
8936823 AGAAAAGAGAAAGAA-AAGAG
1 AGAAAGGAG-AAGAAGAAGAA
8936843 AGAAAGGAGAAGAAGAAGAA
1 AGAAAGGAGAAGAAGAAGAA
8936863 AGAAAG
1 AGAAAG
8936869 AACGAAGGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (20 bp):
AGAAAGGAGAAGAAGAAGAA
Found at i:8936960 original size:7 final size:7
Alignment explanation
Indices: 8936948--8936973 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8936938 GATCTTTTTG
8936948 TTATTAA
1 TTATTAA
8936955 TTATTAA
1 TTATTAA
8936962 TTATTAA
1 TTATTAA
8936969 TTATT
1 TTATT
8936974 TATGTTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTATTAA
Found at i:8937064 original size:60 final size:59
Alignment explanation
Indices: 8936998--8937129 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 59
8936988 ATAGTCTTGG
* * * *
8936998 ATTAGTATTTTGTATGAATGTAAT-TTTTTTTGCT-TTTTATAATTATTTTAAAATTATTTT
1 ATTAGTATTTAGGAT-AATGTAATAATTTTTTG-TGTTTT-TAATTATTTTAAAATTAATTT
* * *
8937058 GTTAGTAATTTAGGATTATGTTATAATTTTTTGTGTTTTTAATTATTTTAAAATTAATTT
1 ATTAGT-ATTTAGGATAATGTAATAATTTTTTGTGTTTTTAATTATTTTAAAATTAATTT
8937118 ATTAGTAATTTA
1 ATTAGT-ATTTA
8937130 AATTTGTAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
60 43 0.70
61 18 0.30
ACGTcount: A:0.30, C:0.01, G:0.10, T:0.59
Consensus pattern (59 bp):
ATTAGTATTTAGGATAATGTAATAATTTTTTGTGTTTTTAATTATTTTAAAATTAATTT
Found at i:8937159 original size:21 final size:21
Alignment explanation
Indices: 8937133--8937176 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
8937123 TAATTTAAAT
*
8937133 TTGTAAGACTTCAATATTATA
1 TTGTAAGACTTCAATATCATA
8937154 TTGTAAGACTTCAATATCATA
1 TTGTAAGACTTCAATATCATA
8937175 TT
1 TT
8937177 CGAAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (21 bp):
TTGTAAGACTTCAATATCATA
Found at i:8937853 original size:52 final size:52
Alignment explanation
Indices: 8937781--8937929 Score: 217
Period size: 53 Copynumber: 2.8 Consensus size: 52
8937771 GTAATCATGT
* * * * *
8937781 CTATCTGATAGGCGCCAATCAATTTTTTATATTAAAAAAAATTTAATTGCGC
1 CTATCTGACAGACGCGAATCAATTTTTTATATTAAAAAATATTTAATCGCGC
* *
8937833 CTATCTGACAGACGCGAATCAATTTTTTATATTAAAAATTTTTTTAATCGCGC
1 CTATCTGACAGACGCGAATCAATTTTTTATATTAAAAA-ATATTTAATCGCGC
*
8937886 CTATCTGACAGACTCGAATCAATTTTTTATATTAAAAAATATTT
1 CTATCTGACAGACGCGAATCAATTTTTTATATTAAAAAATATTT
8937930 TTTGTTTAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 39 0.45
53 47 0.55
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (52 bp):
CTATCTGACAGACGCGAATCAATTTTTTATATTAAAAAATATTTAATCGCGC
Found at i:8938212 original size:16 final size:16
Alignment explanation
Indices: 8938191--8938229 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
8938181 TTAACTCATT
*
8938191 TAATTTTTATATAATG
1 TAATTTTTATATAATA
8938207 TAATTTTTATATAATA
1 TAATTTTTATATAATA
8938223 TAATTTT
1 TAATTTT
8938230 ATTTGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TAATTTTTATATAATA
Found at i:8940126 original size:18 final size:18
Alignment explanation
Indices: 8940103--8940147 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
8940093 TGCACCAGAC
8940103 CCAGAGGCAGAACCGAAG
1 CCAGAGGCAGAACCGAAG
*
8940121 CCAGA-GCTAGAGCCGAAG
1 CCAGAGGC-AGAACCGAAG
*
8940139 CCGGAGGCA
1 CCAGAGGCA
8940148 TAGACGGAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 2 0.09
18 19 0.83
19 2 0.09
ACGTcount: A:0.33, C:0.29, G:0.36, T:0.02
Consensus pattern (18 bp):
CCAGAGGCAGAACCGAAG
Found at i:8943817 original size:57 final size:59
Alignment explanation
Indices: 8943750--8943867 Score: 184
Period size: 59 Copynumber: 2.0 Consensus size: 59
8943740 ATATTTTATT
* * * *
8943750 AAAAGAAAAAACA-ATTAATATAAAAAATTCATTGGCTCCTGTCAGATAGGCGCGATTA
1 AAAAGAAAAAAAATATTAATATAAAAAATTCATTGGCGCCGGTCAGATAGGCGCCATTA
*
8943808 AAAAGAAAAAAAATATTAATATAAAAAATTCATTGGCGCCGGTGAGATAGGCGCCATTA
1 AAAAGAAAAAAAATATTAATATAAAAAATTCATTGGCGCCGGTCAGATAGGCGCCATTA
8943867 A
1 A
8943868 TAAAAACATA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 12 0.22
59 42 0.78
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (59 bp):
AAAAGAAAAAAAATATTAATATAAAAAATTCATTGGCGCCGGTCAGATAGGCGCCATTA
Found at i:8947096 original size:72 final size:72
Alignment explanation
Indices: 8946979--8947124 Score: 283
Period size: 72 Copynumber: 2.0 Consensus size: 72
8946969 ATAACTTGGC
8946979 TGGCATAAATAATAACTAAAACATGATAGAACATGAAAAAGTAACACGAACAAGACTCAAAACAT
1 TGGCATAAATAATAACTAAAACATGATAGAACATGAAAAAGTAACACGAACAAGACTCAAAACAT
8947044 ATTAAAT
66 ATTAAAT
8947051 TGGCATAAATAATAACTAAAACATGATAGAACATGAAAAAGTAACACGAACAAGACTCAAAACAT
1 TGGCATAAATAATAACTAAAACATGATAGAACATGAAAAAGTAACACGAACAAGACTCAAAACAT
*
8947116 TTTAAAT
66 ATTAAAT
8947123 TG
1 TG
8947125 TTAAATTTAT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.54, C:0.14, G:0.12, T:0.21
Consensus pattern (72 bp):
TGGCATAAATAATAACTAAAACATGATAGAACATGAAAAAGTAACACGAACAAGACTCAAAACAT
ATTAAAT
Found at i:8953148 original size:17 final size:17
Alignment explanation
Indices: 8953108--8953145 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
8953098 CATGAAAAAT
8953108 ATTTTTAAATAAAATGA
1 ATTTTTAAATAAAATGA
8953125 ATTTTTAAAT-AAA-GA
1 ATTTTTAAATAAAATGA
8953140 ATTTTT
1 ATTTTT
8953146 TTACTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 8 0.38
16 3 0.14
17 10 0.48
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (17 bp):
ATTTTTAAATAAAATGA
Found at i:8954028 original size:31 final size:31
Alignment explanation
Indices: 8953992--8954053 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
8953982 AGATAATTTT
8953992 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
8954023 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
8954054 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:8955526 original size:27 final size:29
Alignment explanation
Indices: 8955496--8955549 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
8955486 AAAATTGCAC
8955496 TTTAACTAA-T-TTTAAAAATAATAAATT
1 TTTAACTAATTCTTTAAAAATAATAAATT
** *
8955523 TTTATTTAATTCTTTAAAAATTATAAA
1 TTTAACTAATTCTTTAAAAATAATAAA
8955550 AATATAAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 7 0.32
28 1 0.05
29 14 0.64
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (29 bp):
TTTAACTAATTCTTTAAAAATAATAAATT
Found at i:8958322 original size:34 final size:34
Alignment explanation
Indices: 8958284--8958352 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
8958274 AGGATAGAGG
8958284 AGGAATTAGGCGTCATTTCGGAGATAATAGGACA
1 AGGAATTAGGCGTCATTTCGGAGATAATAGGACA
*
8958318 AGGAATTAGGCGTCATTTTGGAGATAATAGGACA
1 AGGAATTAGGCGTCATTTCGGAGATAATAGGACA
8958352 A
1 A
8958353 ATTGTTATCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.36, C:0.10, G:0.29, T:0.25
Consensus pattern (34 bp):
AGGAATTAGGCGTCATTTCGGAGATAATAGGACA
Found at i:8962855 original size:18 final size:17
Alignment explanation
Indices: 8962822--8962860 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
8962812 TTTTATAAAT
8962822 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
8962840 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
8962857 TGTG
1 TGTG
8962861 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:8962978 original size:8 final size:8
Alignment explanation
Indices: 8962965--8962993 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
8962955 CACTAGAGAC
8962965 CAGTGTTA
1 CAGTGTTA
8962973 CAGTGTTA
1 CAGTGTTA
8962981 CAGTGTTA
1 CAGTGTTA
8962989 CAGTG
1 CAGTG
8962994 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:8963106 original size:23 final size:23
Alignment explanation
Indices: 8963080--8963132 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
8963070 AGTGTTATTG
8963080 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
8963103 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
8963126 ATCAGTG
1 ATCAGTG
8963133 TTGCACTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:8966818 original size:26 final size:25
Alignment explanation
Indices: 8966789--8966837 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
8966779 CAGAGAGCCA
8966789 TTAATCAGAAAGCTCACAAAGAGCTT
1 TTAATCAGAAA-CTCACAAAGAGCTT
* *
8966815 TTAATCGGGAACTCACAAAGAGC
1 TTAATCAGAAACTCACAAAGAGC
8966838 AATATAACGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.20
Consensus pattern (25 bp):
TTAATCAGAAACTCACAAAGAGCTT
Found at i:8966848 original size:25 final size:26
Alignment explanation
Indices: 8966798--8966880 Score: 91
Period size: 25 Copynumber: 3.3 Consensus size: 26
8966788 ATTAATCAGA
* *
8966798 AAGCTCACAAAGAGC-TTTTAATCGGG
1 AAGCTCACAAAGAGCAATATAA-CGGG
8966824 AA-CTCACAAAGAGCAATATAACGGG
1 AAGCTCACAAAGAGCAATATAACGGG
* * *
8966849 AAGCTCGC-AAGAACAATATAAAGGG
1 AAGCTCACAAAGAGCAATATAACGGG
8966874 AAGCTCA
1 AAGCTCA
8966881 AGAGGGCTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
25 39 0.80
26 10 0.20
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (26 bp):
AAGCTCACAAAGAGCAATATAACGGG
Found at i:8987338 original size:22 final size:21
Alignment explanation
Indices: 8987303--8987343 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
8987293 TGATGGTTTC
*
8987303 AATTTGAATATATATTTTTGG
1 AATTTGAATATATAATTTTGG
8987324 AATTTGATATATATAATTTT
1 AATTTGA-ATATATAATTTT
8987344 CCTAGACGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.54
Consensus pattern (21 bp):
AATTTGAATATATAATTTTGG
Found at i:8993834 original size:68 final size:67
Alignment explanation
Indices: 8993734--8993932 Score: 191
Period size: 68 Copynumber: 3.0 Consensus size: 67
8993724 ATTTTAATAG
* * *
8993734 ATTTAATATTAAATTTAATTTAATACTAATCTTAAT-AGTATTTTATTAATTTAATATTAAAGCG
1 ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAG-G
8993798 ATT
65 ATT
* * * *
8993801 ATCTTAATATTGAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTT-A-A-T-A
1 AT-TTAATATTAAATTTAATTTAATATTTATC-T-TA-ATAAGTATTATATTAATTTAATATTAA
8993862 A-G---
62 AGGATT
* * *
8993864 ATTTAAGATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTG
1 ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAG-G
8993929 ATT
65 ATT
8993932 A
1 A
8993933 AGTTTAATCA
Statistics
Matches: 105, Mismatches: 13, Indels: 27
0.72 0.09 0.19
Matches are distributed among these distances:
59 17 0.16
60 2 0.02
61 2 0.02
62 26 0.25
63 4 0.04
65 1 0.01
66 1 0.01
67 2 0.02
68 28 0.27
69 2 0.02
70 3 0.03
71 3 0.03
72 14 0.13
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.49
Consensus pattern (67 bp):
ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAGGA
TT
Found at i:8993919 original size:59 final size:62
Alignment explanation
Indices: 8993804--8993920 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 62
8993794 AGCGATTATC
* * * * *
8993804 TTAATATTGAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATAAGAT
1 TTAAGATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAGAT
*
8993866 TTAAGATTAAATTTAATCTAATATTTATC-T-T-GATAAGTATTATATTAATTTAATA
1 TTAAGATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATA
8993921 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 22 0.45
60 1 0.02
61 1 0.02
62 25 0.51
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (62 bp):
TTAAGATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAGAT
Found at i:8996239 original size:64 final size:64
Alignment explanation
Indices: 8996138--8996266 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
8996128 GTTACACATT
8996138 ACATCTTCCTTCATGAAAAGTCAATTACTATTAAACAATAATTAAATCATTTATCACAAAGACA
1 ACATCTTCCTTCATGAAAAGTCAATTACTATTAAACAATAATTAAATCATTTATCACAAAGACA
8996202 ACATCTTCCTTCATGAAAAGTCAATTACTATTAAACAATAATTAAATCATTTATCACAAAGACA
1 ACATCTTCCTTCATGAAAAGTCAATTACTATTAAACAATAATTAAATCATTTATCACAAAGACA
8996266 A
1 A
8996267 ATGAAGACAA
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:0.46, C:0.19, G:0.05, T:0.31
Consensus pattern (64 bp):
ACATCTTCCTTCATGAAAAGTCAATTACTATTAAACAATAATTAAATCATTTATCACAAAGACA
Found at i:9012116 original size:6 final size:6
Alignment explanation
Indices: 9012105--9012131 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
9012095 AAATACATAA
9012105 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
9012132 CATCGAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:9020111 original size:21 final size:21
Alignment explanation
Indices: 9020078--9020139 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
9020068 AAAGCAGAGG
*
9020078 AGACACGATCGTGTGGCTGAA
1 AGACACGACCGTGTGGCTGAA
* **
9020099 AGACACGCCCGTGTAACTG-A
1 AGACACGACCGTGTGGCTGAA
*
9020119 AGCACACGGCCGTGTGGCTGA
1 AG-ACACGACCGTGTGGCTGA
9020140 GGGACATGCC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 3 0.09
21 29 0.91
ACGTcount: A:0.26, C:0.26, G:0.32, T:0.16
Consensus pattern (21 bp):
AGACACGACCGTGTGGCTGAA
Found at i:9025038 original size:128 final size:128
Alignment explanation
Indices: 9024874--9025107 Score: 310
Period size: 128 Copynumber: 1.8 Consensus size: 128
9024864 AAATTTTGCT
* * * **
9024874 AAATAAGGCAATATTTTACATTTTGGAAATTCGAGAAATTGTACCCTAACTTACTGGG-TCTCGA
1 AAATAAGGCAATATTCTACATTTAGAAAATTCGAGAAATCATACCCTAACTTACTGGGCT-TCGA
*
9024938 -TTTTCTCGTTAAACCTAAATAGTAAAATATCCTTTTAAATTTCCAAACGCATAAAATTTCAAA
65 TTTTTCTCGTTAAACCTAAATAATAAAATATCCTTTTAAATTTCCAAACGCATAAAATTTCAAA
* * *
9025001 AAATAAAGGTAATATTCTATATTTAGAAAATTCGAGAAATCATGCCCTAACTTACTGGGCTTCGA
1 AAAT-AAGGCAATATTCTACATTTAGAAAATTCGAGAAATCATACCCTAACTTACTGGGCTTCGA
* ** * *
9025066 TTTTTCTCGTTGATTCTAAGTAATCAAATATCCTTTTAAATT
65 TTTTTCTCGTTAAACCTAAATAATAAAATATCCTTTTAAATT
9025108 AAAATAAATG
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
127 4 0.04
128 50 0.56
129 36 0.40
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (128 bp):
AAATAAGGCAATATTCTACATTTAGAAAATTCGAGAAATCATACCCTAACTTACTGGGCTTCGAT
TTTTCTCGTTAAACCTAAATAATAAAATATCCTTTTAAATTTCCAAACGCATAAAATTTCAAA
Found at i:9026774 original size:17 final size:18
Alignment explanation
Indices: 9026738--9026775 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
9026728 CCAGTTTGTA
*
9026738 TTTTCAGAAAAACCTTTG
1 TTTTCAGAAAAACCTATG
*
9026756 TTTTCATAAAAACC-ATG
1 TTTTCAGAAAAACCTATG
9026773 TTT
1 TTT
9026776 CTAGTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (18 bp):
TTTTCAGAAAAACCTATG
Found at i:9027351 original size:13 final size:13
Alignment explanation
Indices: 9027333--9027357 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9027323 AACCCACCCT
9027333 AAACACATATACG
1 AAACACATATACG
9027346 AAACACATATAC
1 AAACACATATAC
9027358 AGAATTAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.24, G:0.04, T:0.16
Consensus pattern (13 bp):
AAACACATATACG
Found at i:9027588 original size:18 final size:18
Alignment explanation
Indices: 9027561--9027596 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9027551 AATTTCAGAA
*
9027561 TTATGAGCCCACATGCCT
1 TTATGAGCCCACACGCCT
*
9027579 TTATGGGCCCACACGCCT
1 TTATGAGCCCACACGCCT
9027597 AGATTGGCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.36, G:0.19, T:0.25
Consensus pattern (18 bp):
TTATGAGCCCACACGCCT
Found at i:9033643 original size:21 final size:21
Alignment explanation
Indices: 9033590--9033646 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
9033580 TAGCTCTCAC
*
9033590 GAGCTTCTGTTTAACTCATAT
1 GAGCTTCTGTTCAACTCATAT
* * *
9033611 GAGTTTCCGTTCAGCTC-TATT
1 GAGCTTCTGTTCAACTCATA-T
9033632 GAGCTTCTGTTCAAC
1 GAGCTTCTGTTCAAC
9033647 CCTTATGGGT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (21 bp):
GAGCTTCTGTTCAACTCATAT
Found at i:9039913 original size:25 final size:25
Alignment explanation
Indices: 9039885--9039935 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
9039875 GGTTCGTCTA
9039885 CATGGTGATGCAAACCCACATCATG
1 CATGGTGATGCAAACCCACATCATG
*
9039910 CATGGTGGTGCAAACCCACATCATG
1 CATGGTGATGCAAACCCACATCATG
9039935 C
1 C
9039936 GATCCCATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (25 bp):
CATGGTGATGCAAACCCACATCATG
Found at i:9042870 original size:25 final size:26
Alignment explanation
Indices: 9042800--9042873 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
9042790 ATTTTTCTAG
* **
9042800 AAATTTTACCA-ACGATAAAATCATCA
1 AAATTTTA-CATAGGATAAAATTGTCA
*
9042826 AAATTTTACATAGGGTAAAATTGTCA
1 AAATTTTACATAGGATAAAATTGTCA
*
9042852 AAATTTTA-TTAGGATAAAATTG
1 AAATTTTACATAGGATAAAATTG
9042874 GGATGAGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
25 14 0.34
26 27 0.66
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (26 bp):
AAATTTTACATAGGATAAAATTGTCA
Found at i:9045559 original size:12 final size:12
Alignment explanation
Indices: 9045525--9045563 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
9045515 TTTGATGGTG
9045525 ATGTATAGGCTT
1 ATGTATAGGCTT
9045537 ATGTCA-A-GCTT
1 ATGT-ATAGGCTT
9045548 ATGTATAGGCTT
1 ATGTATAGGCTT
9045560 ATGT
1 ATGT
9045564 TTTATATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
10 1 0.04
11 9 0.38
12 13 0.54
13 1 0.04
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (12 bp):
ATGTATAGGCTT
Found at i:9047323 original size:11 final size:11
Alignment explanation
Indices: 9047307--9047331 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9047297 GCTACAACTA
9047307 TGAATTTCTTC
1 TGAATTTCTTC
9047318 TGAATTTCTTC
1 TGAATTTCTTC
9047329 TGA
1 TGA
9047332 GCCGTGGCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.16, G:0.12, T:0.52
Consensus pattern (11 bp):
TGAATTTCTTC
Found at i:9048898 original size:6 final size:6
Alignment explanation
Indices: 9048887--9048911 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9048877 AGGTCGTTAA
9048887 ATAAAG ATAAAG ATAAAG ATAAAG A
1 ATAAAG ATAAAG ATAAAG ATAAAG A
9048912 GTCTCCCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
ATAAAG
Found at i:9052305 original size:26 final size:26
Alignment explanation
Indices: 9052276--9052342 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
9052266 CCGATATATA
9052276 GCTCTTCGTGAGCTTCCTAATTAAAG
1 GCTCTTCGTGAGCTTCCTAATTAAAG
* * * *
9052302 GCTCTTTGTGACCTTCCTGATTAATG
1 GCTCTTCGTGAGCTTCCTAATTAAAG
*
9052328 GCTCTCCG-GAGCTTC
1 GCTCTTCGTGAGCTTC
9052343 TCGATATGGC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
25 6 0.18
26 28 0.82
ACGTcount: A:0.16, C:0.27, G:0.21, T:0.36
Consensus pattern (26 bp):
GCTCTTCGTGAGCTTCCTAATTAAAG
Found at i:9052412 original size:25 final size:25
Alignment explanation
Indices: 9052276--9052463 Score: 97
Period size: 25 Copynumber: 7.6 Consensus size: 25
9052266 CCGATATATA
* *
9052276 GCTCTTCGTGAGCTTCCTAATTAAAG
1 GCTCTTCG-GAGCTTCCTGATTAATG
* *
9052302 GCTCTTTGTGACCTTCCTGATTAATG
1 GCTCTTCG-GAGCTTCCTGATTAATG
*
9052328 GCTCTCCGGAGCTT-CTCGA-T-ATG
1 GCTCTTCGGAGCTTCCT-GATTAATG
*
9052351 GCTCGCTT--GAACTTCCTGA-TATATG
1 GCT--CTTCGGAGCTTCCTGATTA-ATG
* * * *
9052376 ACTATCCAGAGCTTCCTGATTAATG
1 GCTCTTCGGAGCTTCCTGATTAATG
* * *
9052401 GCTCTTCGGAGCTACC-CATTATTG
1 GCTCTTCGGAGCTTCCTGATTAATG
* *
9052425 GCTC-GCATGAGCTTCCTGATT-ATG
1 GCTCTTC-GGAGCTTCCTGATTAATG
**
9052449 GCTCTTATGAGCTTC
1 GCTCTTCGGAGCTTC
9052464 TCGTTATACA
Statistics
Matches: 123, Mismatches: 27, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
23 16 0.13
24 36 0.29
25 41 0.33
26 30 0.24
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.35
Consensus pattern (25 bp):
GCTCTTCGGAGCTTCCTGATTAATG
Found at i:9052461 original size:73 final size:72
Alignment explanation
Indices: 9052284--9052463 Score: 184
Period size: 73 Copynumber: 2.4 Consensus size: 72
9052274 TAGCTCTTCG
* * * * * *
9052284 TGAGCTTCCTAATTAAAGGCTCTTTGTGACCTTCCTGATTAATGGCTCTCCGGAGCTTCTCGATA
1 TGAGCTTCCTGATT-ATGGCTC-TTATGAGCTTCCTGATTAATGGCTCTCCGGAGCTACTCCATA
*
9052349 TGGCTCGCT
64 TGGCTCGCA
* * * * *
9052358 TGAACTTCCTGATATATGACTATCCA-GAGCTTCCTGATTAATGGCTCTTCGGAGCTAC-CCATT
1 TGAGCTTCCTGAT-TATGGCTCT-TATGAGCTTCCTGATTAATGGCTCTCCGGAGCTACTCCA-T
9052421 ATTGGCTCGCA
63 A-TGGCTCGCA
9052432 TGAGCTTCCTGATTATGGCTCTTATGAGCTTC
1 TGAGCTTCCTGATTATGGCTCTTATGAGCTTC
9052464 TCGTTATACA
Statistics
Matches: 85, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
72 3 0.04
73 46 0.54
74 35 0.41
75 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (72 bp):
TGAGCTTCCTGATTATGGCTCTTATGAGCTTCCTGATTAATGGCTCTCCGGAGCTACTCCATATG
GCTCGCA
Found at i:9052511 original size:25 final size:25
Alignment explanation
Indices: 9052431--9052527 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 25
9052421 ATTGGCTCGC
* *
9052431 ATGAGCTTCCTGAT-TATGGCTCTT
1 ATGAGCTTCCTGTTATATGGCTCAT
** * *
9052455 ATGAGCTT-CTCGTTATACAGCCCAG
1 ATGAGCTTCCT-GTTATATGGCTCAT
* *
9052480 ATAAGCTTCCTGTTACATGGCTCAT
1 ATGAGCTTCCTGTTATATGGCTCAT
*
9052505 ATGAGCTTCCCGTTATATGGCTC
1 ATGAGCTTCCTGTTATATGGCTC
9052528 GAGAGAAAGC
Statistics
Matches: 55, Mismatches: 15, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
23 2 0.04
24 10 0.18
25 41 0.75
26 2 0.04
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.35
Consensus pattern (25 bp):
ATGAGCTTCCTGTTATATGGCTCAT
Found at i:9053782 original size:42 final size:42
Alignment explanation
Indices: 9053735--9053818 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
9053725 TTTCGAATGC
9053735 CCACACTG-CCTATGACACGGGTGTGTCTCTTCGTCGTGTGAG
1 CCACAC-GACCTATGACACGGGTGTGTCTCTTCGTCGTGTGAG
*
9053777 CCACACGACCTATTACACGGGTGTGTCTCTTCGTCGTGTGAG
1 CCACACGACCTATGACACGGGTGTGTCTCTTCGTCGTGTGAG
9053819 TCGTACAGCC
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 1 0.03
42 39 0.98
ACGTcount: A:0.15, C:0.29, G:0.27, T:0.29
Consensus pattern (42 bp):
CCACACGACCTATGACACGGGTGTGTCTCTTCGTCGTGTGAG
Found at i:9055599 original size:22 final size:22
Alignment explanation
Indices: 9055569--9055625 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
9055559 TTAGTACGTC
9055569 AGTGCTCTCTGTTTAGCACATCT
1 AGTGCTCTCTGTTTAGCA-ATCT
* * *
9055592 -GTGTTCTCTGTATAGCAATTT
1 AGTGCTCTCTGTTTAGCAATCT
9055613 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
9055626 CATTAGTGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 3 0.11
22 25 0.89
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCAATCT
Found at i:9061419 original size:8 final size:8
Alignment explanation
Indices: 9061408--9061439 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
9061398 TATGTTATTA
9061408 TATTATAT
1 TATTATAT
*
9061416 TATTATAA
1 TATTATAT
9061424 TATTATAT
1 TATTATAT
9061432 TATTATAT
1 TATTATAT
9061440 ATATATAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTATAT
Found at i:9061426 original size:16 final size:16
Alignment explanation
Indices: 9061402--9061443 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
9061392 AATAAGTATG
*
9061402 TTATTATATTATATTA
1 TTATAATATTATATTA
9061418 TTATAATATTATATTA
1 TTATAATATTATATTA
9061434 TTATATATAT
1 TTATA-ATAT
9061444 ATAACAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATAATATTATATTA
Found at i:9062122 original size:22 final size:22
Alignment explanation
Indices: 9062082--9062141 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
9062072 TCTCTGATTA
*
9062082 TTAGCACGTCAGTGCTCTCTAT
1 TTAGCACATCAGTGCTCTCTAT
* * *
9062104 TTAGCACATCTGTGTTCTCTGT
1 TTAGCACATCAGTGCTCTCTAT
* * *
9062126 ATAGCACTTTAGTGCT
1 TTAGCACATCAGTGCT
9062142 TTTTGTTCAT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (22 bp):
TTAGCACATCAGTGCTCTCTAT
Found at i:9063600 original size:16 final size:17
Alignment explanation
Indices: 9063579--9063611 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9063569 CACATTGAAG
9063579 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
9063595 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
9063612 CTTCTTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:9064680 original size:27 final size:28
Alignment explanation
Indices: 9064650--9064712 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 28
9064640 CATAACGGTC
*
9064650 ATTTTACCCCATAGG-GGTATTTCAGTT
1 ATTTTACCCCATAGGAGGTATTTCAGTA
** * *
9064677 ATTTT-CCCTTTCGGAGGTATTTCGGTA
1 ATTTTACCCCATAGGAGGTATTTCAGTA
9064704 ATTTTACCC
1 ATTTTACCC
9064713 TTTGAGGGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 6 0.21
27 20 0.69
28 3 0.10
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (28 bp):
ATTTTACCCCATAGGAGGTATTTCAGTA
Found at i:9064722 original size:27 final size:27
Alignment explanation
Indices: 9064664--9064761 Score: 119
Period size: 27 Copynumber: 3.6 Consensus size: 27
9064654 TACCCCATAG
* *
9064664 GGGTATTTCAGTTATTTT-CCCTTTCG-
1 GGGTATTTCGGTAATTTTACCCTTT-GA
9064690 GAGGTATTTCGGTAATTTTACCCTTTGA
1 G-GGTATTTCGGTAATTTTACCCTTTGA
* *
9064718 GGGTATTTTGGTAATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTTGA
*
9064745 GGGTATTTCGATAATTT
1 GGGTATTTCGGTAATTT
9064762 AACAACCTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
26 1 0.02
27 55 0.87
28 7 0.11
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.46
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCCTTTGA
Found at i:9069466 original size:7 final size:7
Alignment explanation
Indices: 9069438--9069500 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 7
9069428 AAAAATTAAT
9069438 AATATTA
1 AATATTA
9069445 AA-ATTA
1 AATATTA
9069451 AAGTA-TA
1 AA-TATTA
9069458 AATATTA
1 AATATTA
*
9069465 AATATCA
1 AATATTA
9069472 AAT-TTA
1 AATATTA
9069478 AACTA--A
1 AA-TATTA
9069484 AAT-TTA
1 AATATTA
9069490 AAT-TTA
1 AATATTA
9069496 AATAT
1 AATAT
9069501 ATATTAAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
5 1 0.02
6 25 0.54
7 19 0.41
8 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (7 bp):
AATATTA
Found at i:9069478 original size:13 final size:12
Alignment explanation
Indices: 9069438--9069498 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 12
9069428 AAAAATTAAT
*
9069438 AATATTAAAATTA
1 AATA-TAAATTTA
9069451 AAGTATAAATATTA
1 AA-TATAAAT-TTA
9069465 AATATCAAATTTA
1 AATAT-AAATTTA
9069478 AACTA-AAATTTA
1 AA-TATAAATTTA
*
9069490 AATTTAAAT
1 AATATAAAT
9069499 ATATATTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
11 1 0.02
12 13 0.32
13 14 0.34
14 13 0.32
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (12 bp):
AATATAAATTTA
Found at i:9070384 original size:19 final size:19
Alignment explanation
Indices: 9070360--9070416 Score: 96
Period size: 19 Copynumber: 3.0 Consensus size: 19
9070350 GGTCCTGAAA
*
9070360 ACCTTGCGAGTTGAGGATC
1 ACCTTGCGAGTTGGGGATC
9070379 ACCTTGCGAGTTGGGGATC
1 ACCTTGCGAGTTGGGGATC
*
9070398 ACCCTGCGAGTTGGGGATC
1 ACCTTGCGAGTTGGGGATC
9070417 TAGGATGTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.18, C:0.23, G:0.35, T:0.25
Consensus pattern (19 bp):
ACCTTGCGAGTTGGGGATC
Found at i:9080118 original size:331 final size:328
Alignment explanation
Indices: 9079472--9080131 Score: 812
Period size: 328 Copynumber: 2.0 Consensus size: 328
9079462 CATCTGCTTC
* *
9079472 AGCTTCCTTTAGCTTTGTCTCTTCTGGTTCCACTGCAGCCAGTGCAGATTCCCTGTCAGCAGCAT
1 AGCTTCCTTTAGCTTTGTCTCTTCTGATTCCACTGCAGCCAGTGCAGATTCCCGGTCAGCAGCAT
* * *
9079537 CGATACTTTCTTCTACTAAGGTTTTCTCTTCAGCATCCTTGTTCAATTCCTCAAGCTCAGATGAA
66 CGATACTTCCTTCTACTAAGGTTCTCTCTTCAGCATCCTTGTTCAAGTCCTCAAGCTCAGATGAA
* * * *
9079602 GAGCTTGCCTGTAAAAAGATTGGATGTGCAAGTTAGCAACTAACAATGGTCAAAAAGAACACATT
131 GAGCTTGCCTGTAAAAACATTGAATGTGCAAGTTAGCAACTAACAATGGTAAAAAAGAACAAATT
* * *
9079667 TTTGGACCCAAATCGACTTTCATTTATATTAGCTGACCATTTCTGTTACCTTCAATGGGGTGCTT
196 TTTGGACCCAAATCAACTTTCATTTATATTAGCTGACCATTTCTGTTAACTTCAATGGGATGCTT
* *
9079732 TCATCTTCCTTTGTGCTTTCCTTCACAGTTTCATCACTAATCATTGAGCTCGAGATGTCAGATAT
261 TCATCTTCCTCTGTGCTTTCCTTCACAGTTTCATCACTAATCATTGAACTCGAGATGTCAGATAT
9079797 AGG
326 AGG
** * * * *
9079800 AGCTTCCTTTAGCTTTGTCTCTTCTGATTCTGCTGCAGCCGGTGCCGATTCCGGGTCAGCAGTAT
1 AGCTTCCTTTAGCTTTGTCTCTTCTGATTCCACTGCAGCCAGTGCAGATTCCCGGTCAGCAGCAT
* * ** * * **
9079865 CGATACTTCCTTCTACTAAGGTTCTCTCTTCAGTATCCTTTTTTGAGTCTTGAATTTCTA-ATGA
66 CGATACTTCCTTCTACTAAGGTTCTCTCTTCAGCATCCTTGTTCAAGTCCTCAAGCTC-AGATGA
* ** *
9079929 AG-GACTTGCCTGT-AAATCATTGAATGTTTAAGTTAGCAACTAACAATGGTAAAAAAAAATTAA
130 AGAG-CTTGCCTGTAAAAACATTGAATGTGCAAGTTAGCAACTAACAATGGT---AAAAAA-GAA
* * *
9079992 CAAATTTTTGGGCCCAAATCAATTTTCATTTGTATTAGCTGA-CATTTTCTGTTAACTTCAATGG
190 CAAATTTTTGGACCCAAATCAACTTTCATTTATATTAGCTGACCA-TTTCTGTTAACTTCAATGG
* * * * *
9080056 GATGCTTTCATTTTCCTCTGTGCTTTCTTTCA-TGATTTCATCGCCT-GTCGA-TGAACTCGAGA
254 GATGCTTTCATCTTCCTCTGTGCTTTCCTTCACAG-TTTCATC-ACTAATC-ATTGAACTCGAGA
*
9080118 TGTCAGCTATAGG
316 TGTCAGATATAGG
9080131 A
1 A
9080132 TGTTCCTCCA
Statistics
Matches: 281, Mismatches: 41, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
327 33 0.12
328 119 0.42
329 1 0.00
330 8 0.03
331 117 0.42
332 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (328 bp):
AGCTTCCTTTAGCTTTGTCTCTTCTGATTCCACTGCAGCCAGTGCAGATTCCCGGTCAGCAGCAT
CGATACTTCCTTCTACTAAGGTTCTCTCTTCAGCATCCTTGTTCAAGTCCTCAAGCTCAGATGAA
GAGCTTGCCTGTAAAAACATTGAATGTGCAAGTTAGCAACTAACAATGGTAAAAAAGAACAAATT
TTTGGACCCAAATCAACTTTCATTTATATTAGCTGACCATTTCTGTTAACTTCAATGGGATGCTT
TCATCTTCCTCTGTGCTTTCCTTCACAGTTTCATCACTAATCATTGAACTCGAGATGTCAGATAT
AGG
Found at i:9083220 original size:16 final size:16
Alignment explanation
Indices: 9083201--9083231 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9083191 ATATTAACAT
*
9083201 TATTTAATTTTAAAGA
1 TATTTAATATTAAAGA
9083217 TATTTAATATTAAAG
1 TATTTAATATTAAAG
9083232 TAATACAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
TATTTAATATTAAAGA
Found at i:9086499 original size:22 final size:22
Alignment explanation
Indices: 9086473--9086516 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9086463 GTATCTAAGT
*
9086473 TAATAATTGAATTAATG-AATTA
1 TAATAATT-AAATAATGTAATTA
9086495 TAATAATTAAATAATGTAATTA
1 TAATAATTAAATAATGTAATTA
9086517 AAGTAGTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (22 bp):
TAATAATTAAATAATGTAATTA
Found at i:9087743 original size:38 final size:38
Alignment explanation
Indices: 9087701--9087776 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
9087691 GAATCTACTC
* *
9087701 TACTGGTCATTTGCCTTGGTTACTCAGACCTTCACTAG
1 TACTGGTCATTTGCCTCGATTACTCAGACCTTCACTAG
*
9087739 TACTGGTCATTTGCCTCGATTACTCGGACCTTCACTAG
1 TACTGGTCATTTGCCTCGATTACTCAGACCTTCACTAG
9087777 ATTCTTGAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (38 bp):
TACTGGTCATTTGCCTCGATTACTCAGACCTTCACTAG
Found at i:9088881 original size:13 final size:13
Alignment explanation
Indices: 9088863--9088892 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9088853 AAACTAGATT
*
9088863 TTAACTAAGTAAA
1 TTAACTAAGAAAA
9088876 TTAACTAAGAAAA
1 TTAACTAAGAAAA
9088889 TTAA
1 TTAA
9088893 AAGGTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
TTAACTAAGAAAA
Found at i:9089247 original size:105 final size:105
Alignment explanation
Indices: 9089065--9089271 Score: 387
Period size: 105 Copynumber: 2.0 Consensus size: 105
9089055 AACATATTAC
9089065 TATGTCAATTCAAACAATTAATCAAATTTAATAAACAAGTAAAAGATTAAGTGAAATAACAACAT
1 TATGTCAATTCAAACAATTAATCAAATTTAATAAACAAGTAAAAGATTAAGTGAAATAACAACAT
*
9089130 ATTTCTACATCGAAATAGTTTAACCACAATAATCTTGCAA
66 ATTCCTACATCGAAATAGTTTAACCACAATAATCTTGCAA
* *
9089170 TATGTCAATTCAAACAATTAATCAAATTTAATAAGCAAGTAAAAGATTAAGTGAAGTAACAACAT
1 TATGTCAATTCAAACAATTAATCAAATTTAATAAACAAGTAAAAGATTAAGTGAAATAACAACAT
9089235 ATTCCTACATCGAAATAGTTTAACCACAATAATCTTG
66 ATTCCTACATCGAAATAGTTTAACCACAATAATCTTG
9089272 GAAGTTATGC
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 99 1.00
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.29
Consensus pattern (105 bp):
TATGTCAATTCAAACAATTAATCAAATTTAATAAACAAGTAAAAGATTAAGTGAAATAACAACAT
ATTCCTACATCGAAATAGTTTAACCACAATAATCTTGCAA
Found at i:9089944 original size:24 final size:24
Alignment explanation
Indices: 9089912--9089959 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
9089902 CAAATCTACA
9089912 AAAACATAATAAGTGGAGGGGTTT
1 AAAACATAATAAGTGGAGGGGTTT
9089936 AAAACATAATAAGTGGAGGGGTTT
1 AAAACATAATAAGTGGAGGGGTTT
9089960 GAATGTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.29, T:0.25
Consensus pattern (24 bp):
AAAACATAATAAGTGGAGGGGTTT
Found at i:9092657 original size:19 final size:18
Alignment explanation
Indices: 9092624--9092661 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
9092614 CATATTTAAA
9092624 ATAAAATTTTATTTATTT
1 ATAAAATTTTATTTATTT
*
9092642 ATAAATTTTATATTTATTT
1 ATAAAATTT-TATTTATTT
9092661 A
1 A
9092662 ATTAAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATAAAATTTTATTTATTT
Found at i:9092674 original size:23 final size:23
Alignment explanation
Indices: 9092631--9092674 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
9092621 AAAATAAAAT
* *
9092631 TTTATTTATTTATAAATTTTATA
1 TTTATTTAATTATAAAATTTATA
9092654 TTTATTTAATTA-AAACATTTA
1 TTTATTTAATTATAAA-ATTTA
9092675 CTTATAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTATTTAATTATAAAATTTATA
Found at i:9095064 original size:2 final size:2
Alignment explanation
Indices: 9095057--9095095 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9095047 CTAAACAAGG
9095057 TA TA TA 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 TA TA TA T
9095096 GAAAAAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9096097 original size:42 final size:42
Alignment explanation
Indices: 9096028--9096120 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
9096018 CGGTATATTT
* **
9096028 GATGATGCACTTATGTGCCAGTATGATTAC-TCAAATTTATCC
1 GATGATGCAATTACATGCCAGTATGATTACTTC-AATTTATCC
* * * *
9096070 GATGATGCAATTACATGTCAGTGTGATTGCTTCAATTTATCT
1 GATGATGCAATTACATGCCAGTATGATTACTTCAATTTATCC
9096112 GATGATGCA
1 GATGATGCA
9096121 CTACGTGTAC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 41 0.95
43 2 0.05
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (42 bp):
GATGATGCAATTACATGCCAGTATGATTACTTCAATTTATCC
Found at i:9105463 original size:25 final size:25
Alignment explanation
Indices: 9105435--9105487 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
9105425 TTAAATAGAA
* *
9105435 AGCACTAATGTGCTAATAATCGGAG
1 AGCACTAATATGCTAATAATCAGAG
9105460 AGCACTAATATGCTAATAATCAGAG
1 AGCACTAATATGCTAATAATCAGAG
9105485 AGC
1 AGC
9105488 GCGCTAAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (25 bp):
AGCACTAATATGCTAATAATCAGAG
Found at i:9115697 original size:22 final size:22
Alignment explanation
Indices: 9115669--9115789 Score: 102
Period size: 25 Copynumber: 5.1 Consensus size: 22
9115659 ACTAATGAAT
9115669 AGAGAGCACTGAAGTGCTATA-C
1 AGAGAGCACT-AAGTGCTATATC
*
9115691 AGAGAGCACATATGTGCTA-ATC
1 AGAGAGCAC-TAAGTGCTATATC
*
9115713 AGAGAGCACTAAATGCTAGTAATC
1 AGAGAGCACTAAGTGCTA-T-ATC
*
9115737 AGAGAGCACCAATGTGCTAATAATC
1 AGAGAGCACTAA-GTGCT-AT-ATC
*
9115762 AGAGAGCACCAACGTGCTAATAATC
1 AGAGAGCACTAA-GTGCT-AT-ATC
9115787 AGA
1 AGA
9115790 TAGCGCGCTA
Statistics
Matches: 86, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
21 8 0.09
22 26 0.30
23 1 0.01
24 14 0.16
25 36 0.42
26 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (22 bp):
AGAGAGCACTAAGTGCTATATC
Found at i:9115745 original size:46 final size:46
Alignment explanation
Indices: 9115669--9115789 Score: 133
Period size: 49 Copynumber: 2.6 Consensus size: 46
9115659 ACTAATGAAT
9115669 AGAGAGCACTGAAGTGCTAT-A-CAGAGAGCA-CATATGTGC-TAATC
1 AGAGAGCACT-AAGTGCTATAATCAGAGAGCACCA-ATGTGCATAATC
*
9115713 AGAGAGCACTAAATGCTAGTAATCAGAGAGCACCAATGTGCTAATAATC
1 AGAGAGCACTAAGTGCTA-TAATCAGAGAGCACCAATGTGC--ATAATC
*
9115762 AGAGAGCACCAACGTGCTAATAATCAGA
1 AGAGAGCACTAA-GTGCT-ATAATCAGA
9115790 TAGCGCGCTA
Statistics
Matches: 65, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
43 7 0.11
44 11 0.17
45 1 0.02
46 15 0.23
47 2 0.03
49 16 0.25
50 12 0.18
51 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (46 bp):
AGAGAGCACTAAGTGCTATAATCAGAGAGCACCAATGTGCATAATC
Found at i:9115760 original size:25 final size:24
Alignment explanation
Indices: 9115708--9115789 Score: 119
Period size: 25 Copynumber: 3.3 Consensus size: 24
9115698 ACATATGTGC
* * *
9115708 TAATCAGAGAGCACTAAATGCTAG
1 TAATCAGAGAGCACCAAGTGCTAA
9115732 TAATCAGAGAGCACCAATGTGCTAA
1 TAATCAGAGAGCACCAA-GTGCTAA
9115757 TAATCAGAGAGCACCAACGTGCTAA
1 TAATCAGAGAGCACCAA-GTGCTAA
9115782 TAATCAGA
1 TAATCAGA
9115790 TAGCGCGCTA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
24 16 0.30
25 37 0.70
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (24 bp):
TAATCAGAGAGCACCAAGTGCTAA
Found at i:9116770 original size:5 final size:5
Alignment explanation
Indices: 9116760--9116813 Score: 108
Period size: 5 Copynumber: 10.8 Consensus size: 5
9116750 TTATTTCTTT
9116760 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
9116810 TATA
1 TATA
9116814 TAACTTAACT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 49 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:9127852 original size:19 final size:20
Alignment explanation
Indices: 9127809--9127852 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
9127799 AAAAATATAT
9127809 TTTTTATATATTTTTTAATA
1 TTTTTATATATTTTTTAATA
*
9127829 ATTTTA-AT-TTTTTATAATA
1 TTTTTATATATTTTT-TAATA
9127848 TTTTT
1 TTTTT
9127853 TGAATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 5 0.24
19 11 0.52
20 5 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTTATATATTTTTTAATA
Found at i:9127861 original size:28 final size:27
Alignment explanation
Indices: 9127807--9127863 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 27
9127797 TTAAAAATAT
9127807 ATTTTTTATATATTTTTTAATAATTTTA
1 ATTTTTTATATATTTTTTAAT-ATTTTA
9127835 ATTTTTTATAATATTTTTTGAAT-TTTTA
1 ATTTTTTAT-ATATTTTTT-AATATTTTA
9127863 A
1 A
9127864 AATTTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 15 0.56
29 9 0.33
30 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (27 bp):
ATTTTTTATATATTTTTTAATATTTTA
Found at i:9127869 original size:29 final size:27
Alignment explanation
Indices: 9127809--9127870 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
9127799 AAAAATATAT
*
9127809 TTTTTATATATTTTTTAATAATTTTAAT
1 TTTTTATATATTTTTTAAT-ATTTTAAA
9127837 TTTTTATAATATTTTTTGAAT-TTTTAAA
1 TTTTTAT-ATATTTTTT-AATATTTTAAA
*
9127865 ATTTTA
1 TTTTTA
9127871 AAAAACTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 18 0.60
29 9 0.30
30 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (27 bp):
TTTTTATATATTTTTTAATATTTTAAA
Found at i:9136187 original size:61 final size:60
Alignment explanation
Indices: 9136042--9136171 Score: 171
Period size: 61 Copynumber: 2.2 Consensus size: 60
9136032 TACACTAGTA
** *
9136042 GTCACCCAACTA-TAGTAA-TT-TTTTTGGT--CACTCAACTATGAAAAGTTATAAAATG
1 GTCACCCAACTATTAGTAATTTCTTTTTTCTAACACTCAACTATGAAAAGTTACAAAATG
9136097 GTCACCCAACTATTAGTAAATTTCTTTTTTCTAACACTCAACTATGAAAAGTTACAAAATG
1 GTCACCCAACTATTAGT-AATTTCTTTTTTCTAACACTCAACTATGAAAAGTTACAAAATG
* *
9136158 GTCATCTAACTATT
1 GTCACCCAACTATT
9136172 TAGTTTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
55 12 0.19
56 4 0.06
57 2 0.03
58 2 0.03
59 6 0.09
61 38 0.59
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.35
Consensus pattern (60 bp):
GTCACCCAACTATTAGTAATTTCTTTTTTCTAACACTCAACTATGAAAAGTTACAAAATG
Found at i:9145646 original size:17 final size:17
Alignment explanation
Indices: 9145624--9145656 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9145614 ATAAGTACAC
*
9145624 ATTGTCATTGCATTTTT
1 ATTGTCATTACATTTTT
9145641 ATTGTCATTACATTTT
1 ATTGTCATTACATTTT
9145657 CATGTTAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:9150256 original size:36 final size:36
Alignment explanation
Indices: 9150209--9150437 Score: 296
Period size: 37 Copynumber: 6.0 Consensus size: 36
9150199 GCTAGGCTAC
*
9150209 CACTTATCACTTTGCCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
9150245 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GT-G-T--AG
* *
9150287 CCATCACTTATCACTTTGTCTCTTGATCAGATAAGTTTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
*
9150327 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGT-AG
**
9150364 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
9150400 CCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 -CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
9150437 C
1 C
9150438 TAAAACTACC
Statistics
Matches: 170, Mismatches: 11, Indels: 24
0.83 0.05 0.12
Matches are distributed among these distances:
36 63 0.37
37 67 0.39
38 2 0.01
39 1 0.01
40 3 0.02
42 3 0.02
44 2 0.01
46 29 0.17
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
Found at i:9150296 original size:46 final size:40
Alignment explanation
Indices: 9150166--9150473 Score: 288
Period size: 37 Copynumber: 7.7 Consensus size: 40
9150156 TACGTATGAT
* *
9150166 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGT-G-TAAG---C
*
9150209 CACTTATCACTTTGCCACTTGATCAGATAA--GTGT-AG-
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTGTAAGC
9150245 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGT-G-T-AAG-C
*
9150289 ATCACTTATCACTTTGTCTCTTGATCAGATAAGT-T-T-AG-
1 --CACTTATCACTTTGTCACTTGATCAGATAAGTGTGTAAGC
9150327 CACTTATCACTTTGTCACTTGATCAGATAA--GTGTAA-C
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTGTAAGC
**
9150364 CACTTATCACTTTGTTTCTTGATCAGATAA--GTGT-AGC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTGTAAGC
*
9150401 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGT-G-T--AA--GC
9150447 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
9150474 AGTACTCAAA
Statistics
Matches: 228, Mismatches: 11, Indels: 49
0.79 0.04 0.17
Matches are distributed among these distances:
35 1 0.00
36 60 0.26
37 62 0.27
38 2 0.01
39 3 0.01
40 5 0.02
41 2 0.01
42 4 0.02
43 12 0.05
44 5 0.02
45 13 0.06
46 59 0.26
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (40 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTGTAAGC
Found at i:9150313 original size:82 final size:81
Alignment explanation
Indices: 9150166--9150473 Score: 420
Period size: 82 Copynumber: 3.9 Consensus size: 81
9150156 TACGTATGAT
* * * *
9150166 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCCACCACTTATCACTTTGTCACTT
9150229 GATCAGATAAGTGTAG
66 GATCAGATAAGTGTAG
* *
9150245 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCCATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCCACCACTTATCACTTTGTCACT
*
9150310 TGATCAGATAAGTTTAG
65 TGATCAGATAAGTGTAG
**
9150327 CACTTATCACTTTGTCACTTGATCAGATAA--GT-G-T-A---ACCACTTATCACTTTGTTTCTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCCACCACTTATCACTTTGTCACTT
9150384 GATCAGATAAGTGTAG
66 GATCAGATAAGTGTAG
* *
9150400 CCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTCAC
1 -CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCCACCACTTATCACTTTGTCAC
9150465 TTGATCAGA
64 TTGATCAGA
9150474 AGTACTCAAA
Statistics
Matches: 204, Mismatches: 12, Indels: 22
0.86 0.05 0.09
Matches are distributed among these distances:
73 35 0.17
74 30 0.15
76 3 0.01
77 1 0.00
78 2 0.01
79 11 0.05
80 8 0.04
81 20 0.10
82 67 0.33
83 27 0.13
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (81 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCCACCACTTATCACTTTGTCACTT
GATCAGATAAGTGTAG
Found at i:9153201 original size:19 final size:19
Alignment explanation
Indices: 9153177--9153216 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
9153167 ATTAATTTTG
9153177 ATCAAATAAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
*
9153196 ATCAAATTAATTAAAATTA
1 ATCAAATAAATTAAAATTA
9153215 AT
1 AT
9153217 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:9153661 original size:14 final size:14
Alignment explanation
Indices: 9153644--9153679 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
9153634 TATTTTAATA
9153644 AATTTAATAGATTT
1 AATTTAATAGATTT
*
9153658 AATTGAATAGATTT
1 AATTTAATAGATTT
9153672 AATATTAA
1 AAT-TTAA
9153680 ATTTAATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (14 bp):
AATTTAATAGATTT
Found at i:9170229 original size:58 final size:58
Alignment explanation
Indices: 9170094--9170226 Score: 180
Period size: 57 Copynumber: 2.3 Consensus size: 58
9170084 AGTGTTGGGG
* * * * *
9170094 CACTGATGGCCGACACCCTTGTACCTGATTTGAGGAAAAAAATTGTGGGGTGCTGGGA
1 CACTGATGGCCAACACCCTTGGACCTGATTTGAGAAAAAAAATTGGGGGGTGCTAGGA
*
9170152 CACTGATGACCAACACCCTTGGACCAT-ATTTGA-AAAAAAAATTGGGGGGTGCTAGGA
1 CACTGATGGCCAACACCCTTGGACC-TGATTTGAGAAAAAAAATTGGGGGGTGCTAGGA
*
9170209 CATTGATGGCCAACACCC
1 CACTGATGGCCAACACCC
9170227 CTTTAGCCTA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
57 37 0.56
58 28 0.42
59 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (58 bp):
CACTGATGGCCAACACCCTTGGACCTGATTTGAGAAAAAAAATTGGGGGGTGCTAGGA
Done.