Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 118 of 147
Found at i:21179124 original size:19 final size:19
Alignment explanation
Indices: 21179081--21179135 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
21179071 GGTCCAATGA
21179081 AAGCCTAAATTAA-TTTTT
1 AAGCCTAAATTAATTTTTT
*
21179099 AGGCCTAAATTAATTTTTT
1 AAGCCTAAATTAATTTTTT
* * *
21179118 AATCCTAATTTCATTTTT
1 AAGCCTAAATTAATTTTT
21179136 ATTTCTTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
18 12 0.39
19 19 0.61
ACGTcount: A:0.33, C:0.13, G:0.05, T:0.49
Consensus pattern (19 bp):
AAGCCTAAATTAATTTTTT
Found at i:21179127 original size:18 final size:18
Alignment explanation
Indices: 21179081--21179136 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
21179071 GGTCCAATGA
21179081 AAGCCTAAATTAATTTTT
1 AAGCCTAAATTAATTTTT
*
21179099 AGGCCTAAATTAATTTTTT
1 AAGCCTAAATTAA-TTTTT
* * *
21179118 AATCCTAATTTCATTTTT
1 AAGCCTAAATTAATTTTT
21179136 A
1 A
21179137 TTTCTTTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 18 0.56
19 14 0.44
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.48
Consensus pattern (18 bp):
AAGCCTAAATTAATTTTT
Found at i:21197519 original size:5 final size:5
Alignment explanation
Indices: 21197509--21197533 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
21197499 AAGCGGCTTT
21197509 CAAAA CAAAA CAAAA CAAAA CAAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA
21197534 ATTTTGGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:21200095 original size:18 final size:18
Alignment explanation
Indices: 21200052--21200095 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
21200042 CATTCGTATT
*
21200052 TTTGCATTCACATTGACA
1 TTTGCATTCACATCGACA
* **
21200070 TTTACATTCACATCGATG
1 TTTGCATTCACATCGACA
21200088 TTTGCATT
1 TTTGCATT
21200096 TGCATCATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.43
Consensus pattern (18 bp):
TTTGCATTCACATCGACA
Found at i:21200423 original size:32 final size:32
Alignment explanation
Indices: 21200342--21200430 Score: 81
Period size: 32 Copynumber: 2.7 Consensus size: 32
21200332 AGATATGATA
* *
21200342 CAAAATAAGATTTAAGCTCAGTTTAGCTGGCATC
1 CAAAAT-A-ATTTAAGCCCAGTTTAGCTAGCATC
* ***
21200376 CAAATTAAACCAAGCCCAGTTTAGCTAGCATC
1 CAAAATAATTTAAGCCCAGTTTAGCTAGCATC
*
21200408 CAAAGAT-ATTTAAGCCCAATTTA
1 CAAA-ATAATTTAAGCCCAGTTTA
21200431 ACTGACACCC
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
32 36 0.84
33 2 0.05
34 5 0.12
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.27
Consensus pattern (32 bp):
CAAAATAATTTAAGCCCAGTTTAGCTAGCATC
Found at i:21200850 original size:104 final size:103
Alignment explanation
Indices: 21200683--21200874 Score: 242
Period size: 104 Copynumber: 1.9 Consensus size: 103
21200673 ACCTCTAAGT
** * *
21200683 AAAAATTTTAAAATTTTAAAGTTTCAATGCCTTTAATACGATGAACATTCAATGATGTCAAGATT
1 AAAAATTTTAAAATTTTAAAGTTTCAAAACCTTTAATACGAAGAACATTCAAAGATGTCAAGATT
* * *
21200748 TGTAAAACCTTTAGGCATAATCTATAAGACCTTCAGGC
66 TATAAAACCCTCAGGCATAATCTATAAGACCTTCAGGC
* * * * *
21200786 AAAACATTTTAAATTTTTAAAGTTTCAAAACCTCTT-ATATGAAGAGCATTCAAAGCTGTTAAGA
1 AAAA-ATTTTAAAATTTTAAAGTTTCAAAACCT-TTAATACGAAGAACATTCAAAGATGTCAAGA
*
21200850 TTTATAAGACCCTCAGGCATAATCT
64 TTTATAAAACCCTCAGGCATAATCT
21200875 CTAAAAACTC
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
103 4 0.05
104 68 0.92
105 2 0.03
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (103 bp):
AAAAATTTTAAAATTTTAAAGTTTCAAAACCTTTAATACGAAGAACATTCAAAGATGTCAAGATT
TATAAAACCCTCAGGCATAATCTATAAGACCTTCAGGC
Found at i:21200944 original size:22 final size:22
Alignment explanation
Indices: 21200854--21200946 Score: 102
Period size: 22 Copynumber: 4.3 Consensus size: 22
21200844 TTAAGATTTA
21200854 TAAGACC-CTCAGGCATAATCTC
1 TAAGACCTCT-AGGCATAATCTC
* *
21200876 TAAAAACTCTAGGCATAATCT-
1 TAAGACCTCTAGGCATAATCTC
* *
21200897 TAAGA-CTTTCGGACATAATCTC
1 TAAGACCTCTAGG-CATAATCTC
*
21200919 TAAGACCTCTAGGCATAATTTC
1 TAAGACCTCTAGGCATAATCTC
21200941 TAAGAC
1 TAAGAC
21200947 TTCTGGAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
20 5 0.08
21 12 0.20
22 35 0.59
23 7 0.12
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (22 bp):
TAAGACCTCTAGGCATAATCTC
Found at i:21201108 original size:104 final size:104
Alignment explanation
Indices: 21200932--21201188 Score: 270
Period size: 104 Copynumber: 2.5 Consensus size: 104
21200922 GACCTCTAGG
* * * *
21200932 CATAATTTCTAAGA-CTTCTG-GAAAAATATTTTAAATTTTTAAAGTTTCAATGCCTCTGATACG
1 CATAATCTCTAAGACCTTC-GAGCAAAATATTTTAAATTTTAAAAGTTTCAATACCTCTGATACG
** * * * *
21200995 ATTAGCATTCAAAGATAT-GAAGATTTGTAAGACCTTCGAG
65 AAGAACATTCAAAGATATCG-AGATTTGTAAGACCTCCAAA
* * * * * * * *
21201035 CATAATTTTTATGACCTTCGAGCAAAACATTTTAAAATTTAAAAGTTTTAATACTTCTGATATGA
1 CATAATCTCTAAGACCTTCGAGCAAAATATTTTAAATTTTAAAAGTTTCAATACCTCTGATACGA
*
21201100 AGAACATTCAAAGATATCGATATTTGTAAGACCTCCAAA
66 AGAACATTCAAAGATATCGAGATTTGTAAGACCTCCAAA
* *
21201139 CATAATCTCTAAGACCTTCGTGTAAAATATTTTAAATTTTTAAAA-TTTCA
1 CATAATCTCTAAGACCTTCGAGCAAAATATTTTAAA-TTTTAAAAGTTTCA
21201189 CTGCTCGAAA
Statistics
Matches: 125, Mismatches: 25, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
103 13 0.10
104 104 0.83
105 8 0.06
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (104 bp):
CATAATCTCTAAGACCTTCGAGCAAAATATTTTAAATTTTAAAAGTTTCAATACCTCTGATACGA
AGAACATTCAAAGATATCGAGATTTGTAAGACCTCCAAA
Found at i:21204487 original size:27 final size:28
Alignment explanation
Indices: 21204417--21204489 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
21204407 AATTGTAGTG
* * *
21204417 AAATATTTAATATGACATTTAAATTATA
1 AAATTTTTAATATAATATTTAAATTATA
21204445 AAATTTTTAATATAATATTTAAATTAT-
1 AAATTTTTAATATAATATTTAAATTATA
21204472 AAATTTATTAAT-TAATAT
1 AAATTT-TTAATATAATAT
21204490 GATATTTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 12 0.29
28 29 0.71
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
AAATTTTTAATATAATATTTAAATTATA
Found at i:21204616 original size:29 final size:31
Alignment explanation
Indices: 21204576--21204649 Score: 98
Period size: 29 Copynumber: 2.5 Consensus size: 31
21204566 ATAAAATCAT
21204576 AATTTAAATATTATATTAAA-ATTTT-TTAA
1 AATTTAAATATTATATTAAATATTTTATTAA
* *
21204605 AATTTATATATTATATTAAATATTTTATTAT
1 AATTTAAATATTATATTAAATATTTTATTAA
* *
21204636 AATTCAAAAATTAT
1 AATTTAAATATTAT
21204650 TCCTCGCATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 19 0.50
30 5 0.13
31 14 0.37
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (31 bp):
AATTTAAATATTATATTAAATATTTTATTAA
Found at i:21206570 original size:64 final size:63
Alignment explanation
Indices: 21206405--21206587 Score: 235
Period size: 64 Copynumber: 2.9 Consensus size: 63
21206395 AAAAGGATTA
*
21206405 TATAC-AAAAAACGCTTAAAATAATCTTTTTATAAAGATATAAATGGATTATTTAAGGTATTTTT
1 TATACAAAAAAAC-CTT-AAATAATCTTTTTATAAAAATATAAATGGATTATTTAAGGTATTTTT
* * * * *
21206469 TGTATAAAAATACCTTAAATAATCTTTTTATACAAATATAAATGGATTATTTAATGTATTTTT
1 TATACAAAAAAACCTTAAATAATCTTTTTATAAAAATATAAATGGATTATTTAAGGTATTTTT
* * *
21206532 CTATACAAAAAAACCTTAAATAAT-TCATTTATAAAAATATAAAAGAATTATTTAAG
1 -TATACAAAAAAACCTTAAATAATCT-TTTTATAAAAATATAAATGGATTATTTAAG
21206588 ACGTTTCTTC
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
63 45 0.44
64 51 0.50
65 6 0.06
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (63 bp):
TATACAAAAAAACCTTAAATAATCTTTTTATAAAAATATAAATGGATTATTTAAGGTATTTTT
Found at i:21208352 original size:3 final size:3
Alignment explanation
Indices: 21208344--21208378 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
21208334 TACGAGCATG
21208344 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
21208379 GTAGGCTGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:21210151 original size:19 final size:19
Alignment explanation
Indices: 21210113--21210162 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
21210103 TTATATATCC
*
21210113 TTAATATTTATTAAATAATT
1 TTAAT-TTTATTAAAAAATT
*
21210133 TTAATTTTTTTAAAAAATT
1 TTAATTTTATTAAAAAATT
21210152 TTAA-TTTATTA
1 TTAATTTTATTA
21210163 TCCTTAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 6 0.22
19 16 0.59
20 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAATTTTATTAAAAAATT
Found at i:21210660 original size:18 final size:18
Alignment explanation
Indices: 21210639--21210673 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21210629 TTTAATAATA
21210639 TTATATAT-TATAATTATT
1 TTATATATATA-AATTATT
21210657 TTATATATATAAATTAT
1 TTATATATATAAATTAT
21210674 ATTAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATATATATAAATTATT
Found at i:21213783 original size:18 final size:19
Alignment explanation
Indices: 21213762--21213797 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
21213752 TTTATTTAAT
21213762 TTAAATTAAAT-TTAGTTA
1 TTAAATTAAATGTTAGTTA
*
21213780 TTAAATTATATGTTAGTT
1 TTAAATTAAATGTTAGTT
21213798 TCGAGTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (19 bp):
TTAAATTAAATGTTAGTTA
Found at i:21214608 original size:15 final size:16
Alignment explanation
Indices: 21214588--21214618 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
21214578 TTCACTTTAA
21214588 TTTAATAAT-AATAAT
1 TTTAATAATAAATAAT
21214603 TTTAATAATAAATAAT
1 TTTAATAATAAATAAT
21214619 AATTTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTAATAATAAATAAT
Found at i:21214608 original size:20 final size:18
Alignment explanation
Indices: 21214590--21214640 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 18
21214580 CACTTTAATT
21214590 TAATAATAATAATTTTAA
1 TAATAATAATAATTTTAA
21214608 TAATAAATAATAATTTTAAA
1 TAAT-AATAATAATTTT-AA
21214628 TAATATATAATAA
1 TAATA-ATAATAA
21214641 AAAAGGGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.13
19 13 0.43
20 13 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAATAATAATAATTTTAA
Found at i:21214618 original size:19 final size:20
Alignment explanation
Indices: 21214590--21214640 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
21214580 CACTTTAATT
21214590 TAAT-AATAATAATTTT-AA
1 TAATAAATAATAATTTTAAA
21214608 TAATAAATAATAATTTTAAA
1 TAATAAATAATAATTTTAAA
*
21214628 TAATATATAATAA
1 TAATAAATAATAA
21214641 AAAAGGGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 4 0.13
19 12 0.40
20 14 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAATAAATAATAATTTTAAA
Found at i:21216114 original size:33 final size:33
Alignment explanation
Indices: 21216061--21216139 Score: 83
Period size: 33 Copynumber: 2.4 Consensus size: 33
21216051 TCTTAAATTT
*
21216061 CAAAA-CCCTAGAATAC-GAAACCCAT-AAAATC
1 CAAAACCCCTAAAAT-CTGAAACCCATAAAAATC
* *
21216092 CAAAATCCCTTAAAATCTGAAACCCCTAAAAATC
1 CAAAA-CCCCTAAAATCTGAAACCCATAAAAATC
*
21216126 CCAAACCCCTAAAA
1 CAAAACCCCTAAAA
21216140 CCCAAAATCC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
31 5 0.13
32 1 0.03
33 23 0.59
34 10 0.26
ACGTcount: A:0.49, C:0.32, G:0.04, T:0.15
Consensus pattern (33 bp):
CAAAACCCCTAAAATCTGAAACCCATAAAAATC
Found at i:21216139 original size:16 final size:16
Alignment explanation
Indices: 21216078--21216145 Score: 66
Period size: 17 Copynumber: 4.2 Consensus size: 16
21216068 CTAGAATACG
* *
21216078 AAACCCATAAAATCCA
1 AAACCCCTAAAATCCC
* **
21216094 AAATCCCTTAAAATCTG
1 AAA-CCCCTAAAATCCC
21216111 AAACCCCTAAAAATCCC
1 AAACCCCT-AAAATCCC
21216128 AAACCCCTAAAA-CCC
1 AAACCCCTAAAATCCC
21216143 AAA
1 AAA
21216146 ATCCCAAACC
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
15 6 0.14
16 11 0.25
17 27 0.61
ACGTcount: A:0.50, C:0.34, G:0.01, T:0.15
Consensus pattern (16 bp):
AAACCCCTAAAATCCC
Found at i:21224171 original size:41 final size:41
Alignment explanation
Indices: 21224109--21224194 Score: 118
Period size: 41 Copynumber: 2.1 Consensus size: 41
21224099 GTTTTAAAGT
* * *
21224109 CTCTGTTTAAGAGAAATCATTTCCAGTCAAGATTTCAAAAC
1 CTCTGCTTAAGAGAAACCATTTCCAATCAAGATTTCAAAAC
* * *
21224150 CTCTGCTTAAGAGGAACCATTTTCAATCAAGATTTCAAAAG
1 CTCTGCTTAAGAGAAACCATTTCCAATCAAGATTTCAAAAC
21224191 CTCT
1 CTCT
21224195 ATTTAGAAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (41 bp):
CTCTGCTTAAGAGAAACCATTTCCAATCAAGATTTCAAAAC
Found at i:21224206 original size:41 final size:41
Alignment explanation
Indices: 21224115--21224208 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 41
21224105 AAGTCTCTGT
* * * *
21224115 TTAAGAGAAATCATTTCCAGTCAAGATTTCAAAACCTCTGC
1 TTAAGAGGAACCATTTCCAATCAAGATTTCAAAACCTCTAC
* *
21224156 TTAAGAGGAACCATTTTCAATCAAGATTTCAAAAGCTCTA-
1 TTAAGAGGAACCATTTCCAATCAAGATTTCAAAACCTCTAC
*
21224196 TTTAGAAGGAACC
1 TTAAG-AGGAACC
21224209 TTCTTCAGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 4 0.09
41 41 0.91
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (41 bp):
TTAAGAGGAACCATTTCCAATCAAGATTTCAAAACCTCTAC
Found at i:21224579 original size:110 final size:109
Alignment explanation
Indices: 21224436--21224974 Score: 347
Period size: 110 Copynumber: 4.9 Consensus size: 109
21224426 GAGTCTTCCG
* *
21224436 GGCATAATTTTCGATTCGA-GGTGTTGTCCCGATCGATTTTTTTATTTTTGACTTACGGTATTAT
1 GGCATAA-TTTCGATTC-ACGGTGTTGTCTCGATCGA-TTCTTTATTTTTGACTTACGGTATTAT
* *
21224500 CTCAGTCGATTCTGTAAAACTTTCAAACATAATTTCTAAAACC-TCTA
63 CTCAGTCGATTCTGTAAAACCTCCAAACATAATTTCTAAAACCTTC-A
** *
21224547 GGCATAATTTCGATTCACGGTGTTGTCTCGATCGATTCTTTATTTTTGACTTGTGATATTATCTC
1 GGCATAATTTCGATTCACGGTGTTGTCTCGATCGATTCTTTATTTTTGACTTACGGTATTATCTC
* * * * * *
21224612 -GATCAATTCTGTAAGACCTCCAAGCATGATTTTTAAGACCTTCA
66 AG-TCGATTCTGTAAAACCTCCAAACATAATTTCTAAAACCTTCA
* * * * * * * * *
21224656 AGCATAATTTTGATTCACGATATTTTTTCAATCGATTCTTTATTTTTTGACTTACGGTGTTGTCT
1 GGCATAATTTCGATTCACGGTGTTGTCTCGATCGATTCTTTA-TTTTTGACTTACGGTATTATCT
* * *** * * * *
21224721 CAGTCGATTCTGTAAGACC-ACAGGGTATGATTTTTAAGACC-TCC
65 CAGTCGATTCTGTAAAACCTCCA-AACATAATTTCTAAAACCTTCA
* * * * * * * *
21224765 GAGCATAAATTCGATTCATGATGTTATCCCGATCGATTCTTAATTTTTTTACTTACGAG-ATTGT
1 G-GCATAATTTCGATTCACGGTGTTGTCTCGATCGATTCTTTA-TTTTTGACTTACG-GTATTAT
* ** * * *** * * *
21224829 CCCAACCGATTCTATAAGACCTCCGGGCATGATTTCTAAGACC-TCTG
63 CTCAGTCGATTCTGTAAAACCTCCAAACATAATTTCTAAAACCTTC-A
* * * * * *
21224876 GGCATAAATTCAATTCGCGGTGTTATCTCGATTGATTCTTAATTTTTTTGACTTACGGTATTATC
1 GGCATAATTTCGATTCACGGTGTTGTCTCGATCGATTCTT--TATTTTTGACTTACGGTATTATC
* * * * *
21224941 CCAGTC-AGTTCTATAAGACCTCCGAATATAATTT
64 TCAGTCGA-TTCTGTAAAACCTCCAAACATAATTT
21224975 TGATTCGCGG
Statistics
Matches: 347, Mismatches: 67, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
108 1 0.00
109 97 0.28
110 195 0.56
111 54 0.16
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (109 bp):
GGCATAATTTCGATTCACGGTGTTGTCTCGATCGATTCTTTATTTTTGACTTACGGTATTATCTC
AGTCGATTCTGTAAAACCTCCAAACATAATTTCTAAAACCTTCA
Found at i:21224651 original size:22 final size:22
Alignment explanation
Indices: 21224623--21224666 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
21224613 ATCAATTCTG
*
21224623 TAAGACCTCCAAGCATGATTTT
1 TAAGACCTCCAAGCATAATTTT
*
21224645 TAAGACCTTCAAGCATAATTTT
1 TAAGACCTCCAAGCATAATTTT
21224667 GATTCACGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (22 bp):
TAAGACCTCCAAGCATAATTTT
Found at i:21225084 original size:22 final size:22
Alignment explanation
Indices: 21225042--21225084 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
21225032 ATCAATTTTG
* *
21225042 TAAGACCTTCGAACATGATTTC
1 TAAGACCTTCCAACATAATTTC
21225064 TAAGACC-TCCAAGCATAATTT
1 TAAGACCTTCCAA-CATAATTT
21225085 TGATTCGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (22 bp):
TAAGACCTTCCAACATAATTTC
Found at i:21225186 original size:36 final size:36
Alignment explanation
Indices: 21225112--21225216 Score: 142
Period size: 36 Copynumber: 2.9 Consensus size: 36
21225102 CCGATCGATT
* *
21225112 TTTTAT-TTCTCTGACTTGCGATTTAAT-CCAGTCTC
1 TTTTATCTT-TCTAACTTGTGATTTAATCCCAGTCTC
*
21225147 TTTTATCTTTCTAACTTGTGGTTTAATCCCAGTCTC
1 TTTTATCTTTCTAACTTGTGATTTAATCCCAGTCTC
* *
21225183 TTTTATCTTTCTAACTTGTGATTCAATCTCAGTC
1 TTTTATCTTTCTAACTTGTGATTTAATCCCAGTC
21225217 ATCGTCAATA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
35 21 0.34
36 41 0.66
ACGTcount: A:0.18, C:0.22, G:0.10, T:0.50
Consensus pattern (36 bp):
TTTTATCTTTCTAACTTGTGATTTAATCCCAGTCTC
Found at i:21225302 original size:69 final size:69
Alignment explanation
Indices: 21225154--21225328 Score: 160
Period size: 69 Copynumber: 2.5 Consensus size: 69
21225144 CTCTTTTATC
* * * * *
21225154 TTTCTAACTTGTGGTTTAATCCCAGTCTCTTTTATCTTTCTAACTTGTGATTCAATCTCAGTCAT
1 TTTCTGAC-TGTGATTTAATCCCGGTCTC-TTTAT-TTTCTAACTTGTAATTCAATCTCAGTCAA
21225219 CGTCAAT
63 CGTCAAT
* * * * *
21225226 ATT-TGACTCGTGATTTAATCTCGGTCTCTTTATTTTCTGACTTGTAATTCAGTC-CAAGTTAAC
1 TTTCTGACT-GTGATTTAATCCCGGTCTCTTTATTTTCTAACTTGTAATTCAATCTC-AGTCAAC
21225289 GTC-AT
64 GTCAAT
*
21225294 TTTCTGACT-TACAGTTTAATCCCGGTCTCTTTATT
1 TTTCTGACTGT-GA-TTTAATCCCGGTCTCTTTATT
21225329 CTCCGATTCG
Statistics
Matches: 85, Mismatches: 13, Indels: 13
0.77 0.12 0.12
Matches are distributed among these distances:
67 1 0.01
68 6 0.07
69 51 0.60
70 6 0.07
71 19 0.22
72 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.46
Consensus pattern (69 bp):
TTTCTGACTGTGATTTAATCCCGGTCTCTTTATTTTCTAACTTGTAATTCAATCTCAGTCAACGT
CAAT
Found at i:21225426 original size:174 final size:172
Alignment explanation
Indices: 21225229--21225697 Score: 514
Period size: 174 Copynumber: 2.7 Consensus size: 172
21225219 CGTCAATATT
* * *
21225229 TGACTCGTGATTTAATCTCGGTCTCTTTATTTTCTGACTTGTAATTCAGTCCAAGTTAACGTCAT
1 TGACTCGTG-TTTATTCTCGGTCTCTTTATTTT-TGACTTGTGATTCAATCCAAGTTAACGTCAT
* * * ** *
21225294 TTTCTGACTTACAGTTTAATCCCGGTCTCTTTATTCTCCGA-TT-CGTGATTCAATCTTATTCTC
64 TTTCTGACTCACAGTTTAATCCCGATCTCTTTATTCTCCAATTTACG-G-TTCAATCCCAATCTC
** * *
21225357 TTTAATTTAAAATTGTAGTTTAATCTCGATTGTTGTTGTTAACCTC
127 TTTAATTTAAAATCATAGTTTAATCTCAATTGTTGCTGTTAACCTC
*
21225403 TGACTCGTAGTTTATTCTCGGTCT-TCTTATTTTATGACTTGTGATTCAATCCAAGTTAACATCA
1 TGACTCGT-GTTTATTCTCGGTCTCT-TTATTTT-TGACTTGTGATTCAATCCAAGTTAACGTCA
* * * ** * **
21225467 TTTTTTGACTCGCGGTTTAATCTTGATCTCTTTATTTTTTAATTTACGGTTCAATCCCAATCTCT
63 TTTTCTGACTCACAGTTTAATCCCGATCTCTTTATTCTCCAATTTACGGTTCAATCCCAATCTCT
21225532 TTAATTTAAAATCATAGTTTAATCTCAATTGTTGCTGTTAACCTC
128 TTAATTTAAAATCATAGTTTAATCTCAATTGTTGCTGTTAACCTC
* *
21225577 TGACTCGTGGTTTATTCTCGGTCTTCTTAATTTTTGACTTGTGATTCAATCCAAGTTAACGTTAT
1 TGACTCGT-GTTTATTCTCGGTC-TCTTTATTTTTGACTTGTGATTCAATCCAAGTTAACGTCAT
* ** * * * ** * *
21225642 TTT-TCGATTCGTAATTAAATCCTGATCTCTTTATTCTCTGATTTATGGTTTAATCC
64 TTTCT-GACTCACAGTTTAATCCCGATCTCTTTATTCTCCAATTTACGGTTCAATCC
21225698 TGATCCTTAG
Statistics
Matches: 250, Mismatches: 38, Indels: 14
0.83 0.13 0.05
Matches are distributed among these distances:
173 2 0.01
174 234 0.94
175 11 0.04
176 3 0.01
ACGTcount: A:0.22, C:0.19, G:0.13, T:0.47
Consensus pattern (172 bp):
TGACTCGTGTTTATTCTCGGTCTCTTTATTTTTGACTTGTGATTCAATCCAAGTTAACGTCATTT
TCTGACTCACAGTTTAATCCCGATCTCTTTATTCTCCAATTTACGGTTCAATCCCAATCTCTTTA
ATTTAAAATCATAGTTTAATCTCAATTGTTGCTGTTAACCTC
Found at i:21226074 original size:21 final size:20
Alignment explanation
Indices: 21226048--21226087 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
21226038 TTTTAATTTA
*
21226048 ATAATAATAATTTAAAAAAAT
1 ATAATAATAA-TAAAAAAAAT
21226069 ATAATAATAATAAAAAAAA
1 ATAATAATAATAAAAAAAA
21226088 GAGACAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAATAATAATAAAAAAAAT
Found at i:21227089 original size:19 final size:18
Alignment explanation
Indices: 21227065--21227107 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
21227055 AAATTTTTTA
* *
21227065 ATTTTTTTTATATATAATT
1 ATTTTTGTTAT-TATAAGT
*
21227084 ATTTTTGTTATTTTAAGT
1 ATTTTTGTTATTATAAGT
21227102 ATTTTT
1 ATTTTT
21227108 ATATATTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
ATTTTTGTTATTATAAGT
Found at i:21227565 original size:17 final size:17
Alignment explanation
Indices: 21227539--21227585 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
21227529 AAAATTCCTT
21227539 AAAT-CCAAACCCCATA
1 AAATCCCAAACCCCATA
*
21227555 AAATCCCAAA-CCCTTA
1 AAATCCCAAACCCCATA
21227571 AAA-CCCAAAACCCCA
1 AAATCCC-AAACCCCA
21227586 AAATCTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 3 0.12
16 15 0.58
17 8 0.31
ACGTcount: A:0.49, C:0.40, G:0.00, T:0.11
Consensus pattern (17 bp):
AAATCCCAAACCCCATA
Found at i:21227570 original size:31 final size:30
Alignment explanation
Indices: 21227534--21227617 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 30
21227524 AATGCAAAAT
21227534 TCCTTAAATCCAAACCCCATAAAATCCCAAAC
1 TCCTTAAATCCAAACCCC--AAAATCCCAAAC
* **
21227566 -CCTTAAAACCCAAAACCCCAAAATCTGAAAC
1 TCCTT-AAATCC-AAACCCCAAAATCCCAAAC
* *
21227597 TCCTTAAATCAAAACCTCAAA
1 TCCTTAAATCCAAACCCCAAA
21227618 CTTCATTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
30 9 0.21
31 18 0.42
32 9 0.21
33 7 0.16
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.18
Consensus pattern (30 bp):
TCCTTAAATCCAAACCCCAAAATCCCAAAC
Found at i:21229091 original size:19 final size:19
Alignment explanation
Indices: 21229042--21229078 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
21229032 TTAATTTTTA
21229042 ATTT-ATATTTAAATAAAT
1 ATTTAATATTTAAATAAAT
21229060 ATTTAATATTTAAATAAAT
1 ATTTAATATTTAAATAAAT
21229079 TCTTAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTAATATTTAAATAAAT
Found at i:21229187 original size:23 final size:23
Alignment explanation
Indices: 21229154--21229198 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
21229144 GTTTATTTGA
*
21229154 ATATAATAAAAATATAAA-AATTG
1 ATATAAGAAAAATA-AAATAATTG
21229177 ATATAAGAAAAATAAAATAATT
1 ATATAAGAAAAATAAAATAATT
21229199 TAAAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (23 bp):
ATATAAGAAAAATAAAATAATTG
Found at i:21234000 original size:1 final size:1
Alignment explanation
Indices: 21233994--21234025 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
21233984 GTAAATTTGT
21233994 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
21234026 TCAGTATAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:21239335 original size:21 final size:20
Alignment explanation
Indices: 21239309--21239348 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21239299 TGTATCACCA
*
21239309 ATTTTTCATCTTTTTAATTTT
1 ATTTTTAAT-TTTTTAATTTT
*
21239330 ATTTTTAATTTTTTCATTT
1 ATTTTTAATTTTTTAATTT
21239349 AGAACAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (20 bp):
ATTTTTAATTTTTTAATTTT
Found at i:21240057 original size:17 final size:17
Alignment explanation
Indices: 21240035--21240068 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21240025 ATAAAAAATT
21240035 TTAAAAAAAACTAAAAA
1 TTAAAAAAAACTAAAAA
*
21240052 TTAAAAAAAATTAAAAA
1 TTAAAAAAAACTAAAAA
21240069 AGGCTAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
TTAAAAAAAACTAAAAA
Found at i:21240301 original size:26 final size:24
Alignment explanation
Indices: 21240265--21240363 Score: 85
Period size: 26 Copynumber: 3.9 Consensus size: 24
21240255 TTTATGAAAA
21240265 TTTTTTA-TTTTTTATATTTTTATAT
1 TTTTTTAGTTTTTTA-ATTTTTAT-T
* *
21240290 TTTTTTGGTTTTTTAAAATTTTTGTT
1 TTTTTTAGTTTTTT--AATTTTTATT
21240316 TTTTTTAAG-TTTTTAGGATTTTTATTT
1 TTTTTT-AGTTTTTTA--ATTTTTA-TT
*
21240343 TTTTTTAATTTTTTAATTTTT
1 TTTTTTAGTTTTTTAATTTTT
21240364 CGTAATTTGT
Statistics
Matches: 61, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
24 1 0.02
25 12 0.20
26 25 0.41
27 22 0.36
28 1 0.02
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (24 bp):
TTTTTTAGTTTTTTAATTTTTATT
Found at i:21240311 original size:17 final size:17
Alignment explanation
Indices: 21240291--21240339 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
21240281 TTTTTATATT
21240291 TTTTTGGTTTTTTAAAA
1 TTTTTGGTTTTTTAAAA
* * *
21240308 TTTTTGTTTTTTTTAAG
1 TTTTTGGTTTTTTAAAA
*
21240325 TTTTTAGGATTTTTA
1 TTTTT-GGTTTTTTA
21240340 TTTTTTTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 19 0.76
18 6 0.24
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.69
Consensus pattern (17 bp):
TTTTTGGTTTTTTAAAA
Found at i:21240354 original size:7 final size:8
Alignment explanation
Indices: 21240263--21240424 Score: 55
Period size: 8 Copynumber: 18.9 Consensus size: 8
21240253 TTTTTATGAA
21240263 AATTTTTT
1 AATTTTTT
21240271 -ATTTTTT
1 AATTTTTT
21240278 ATATTTTTAT
1 A-ATTTTT-T
*
21240288 ATTTTTTT
1 AATTTTTT
**
21240296 GGTTTTTT
1 AATTTTTT
21240304 AAAATTTTTGT
1 --AATTTTT-T
*
21240315 -TTTTTTT
1 AATTTTTT
*
21240322 AAGTTTTT
1 AATTTTTT
21240330 AGGATTTTTAT
1 A--ATTTTT-T
**
21240341 TTTTTTTT
1 AATTTTTT
21240349 AATTTTTT
1 AATTTTTT
21240357 AATTTTTCGT
1 AATTTTT--T
21240367 AATTTGTTT
1 AATTT-TTT
*
21240376 TATTATTTT
1 AATT-TTTT
* *
21240385 TATTTTCAT
1 AATTTT-TT
21240394 ATATTTTCTT
1 A-ATTTT-TT
21240404 --TTTTTT
1 AATTTTTT
21240410 CAATTTTTT
1 -AATTTTTT
21240419 -ATTTTT
1 AATTTTT
21240425 AAAAAATTAG
Statistics
Matches: 118, Mismatches: 17, Indels: 39
0.68 0.10 0.22
Matches are distributed among these distances:
6 2 0.02
7 18 0.15
8 34 0.29
9 34 0.29
10 26 0.22
11 4 0.03
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.73
Consensus pattern (8 bp):
AATTTTTT
Found at i:21240454 original size:17 final size:19
Alignment explanation
Indices: 21240434--21240469 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
21240424 TAAAAAATTA
21240434 GATTTTTT-A-ATTTTTGG
1 GATTTTTTCATATTTTTGG
21240451 GATTTTTTCATATTTTTGG
1 GATTTTTTCATATTTTTGG
21240470 AAAATTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 1 0.06
19 8 0.47
ACGTcount: A:0.17, C:0.03, G:0.17, T:0.64
Consensus pattern (19 bp):
GATTTTTTCATATTTTTGG
Found at i:21240543 original size:17 final size:19
Alignment explanation
Indices: 21240511--21240545 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
21240501 GATTTTTAAT
21240511 TTTTTTAATTTGTCAAATG
1 TTTTTTAATTTGTCAAATG
21240530 TTTTTT-ATTT-TCAAAT
1 TTTTTTAATTTGTCAAAT
21240546 TTCTTTGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.63
Consensus pattern (19 bp):
TTTTTTAATTTGTCAAATG
Found at i:21240970 original size:11 final size:11
Alignment explanation
Indices: 21240954--21240984 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
21240944 TACTTTCCTT
21240954 TTTTTTTTTTG
1 TTTTTTTTTTG
21240965 TTTTTTTTTTG
1 TTTTTTTTTTG
21240976 TTTTGTTTT
1 TTTT-TTTT
21240985 CAATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:21240973 original size:16 final size:16
Alignment explanation
Indices: 21240952--21240984 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
21240942 GCTACTTTCC
21240952 TTTTTTTT-TTTTGTT
1 TTTTTTTTGTTTTGTT
21240967 TTTTTTTTGTTTTGTT
1 TTTTTTTTGTTTTGTT
21240983 TT
1 TT
21240985 CAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (16 bp):
TTTTTTTTGTTTTGTT
Found at i:21241932 original size:13 final size:12
Alignment explanation
Indices: 21241914--21241946 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
21241904 GCTCGATGAG
21241914 TTTCATTTTCATT
1 TTTCATTTTC-TT
21241927 TTTCATTTTCTT
1 TTTCATTTTCTT
21241939 TTT-ATTTT
1 TTTCATTTT
21241947 AATGCTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 5 0.25
13 10 0.50
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTCATTTTCTT
Found at i:21242433 original size:29 final size:30
Alignment explanation
Indices: 21242396--21242453 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
21242386 CTCTATAATT
*
21242396 TTTTTATTTTTGTTTTTCTT-TCTTTTTTA
1 TTTTCATTTTTGTTTTTCTTGTCTTTTTTA
*
21242425 TTTTCATTTTTGTTTTTTTTGTCTTTTTT
1 TTTTCATTTTTGTTTTTCTTGTCTTTTTT
21242454 TAATTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.05, C:0.07, G:0.05, T:0.83
Consensus pattern (30 bp):
TTTTCATTTTTGTTTTTCTTGTCTTTTTTA
Found at i:21242434 original size:23 final size:22
Alignment explanation
Indices: 21242394--21242444 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
21242384 TCCTCTATAA
**
21242394 TTTTTTTATTTTTGTTTTTCTT
1 TTTTTTTATTTTCATTTTTCTT
*
21242416 TCTTTTTTATTTTCATTTTTGTT
1 T-TTTTTTATTTTCATTTTTCTT
21242439 TTTTTT
1 TTTTTT
21242445 GTCTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.06, C:0.06, G:0.04, T:0.84
Consensus pattern (22 bp):
TTTTTTTATTTTCATTTTTCTT
Found at i:21249090 original size:26 final size:24
Alignment explanation
Indices: 21249060--21249109 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
21249050 CTATTTTAAC
21249060 CAACCTAAAAGCTTTCACCCTTTTTT
1 CAACCTAAAAG-TTTCA-CCTTTTTT
*
21249086 CAACCTAAAAGTTTTACCTTTTTT
1 CAACCTAAAAGTTTCACCTTTTTT
21249110 GGTTCATCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.35
25 4 0.17
26 11 0.48
ACGTcount: A:0.28, C:0.26, G:0.04, T:0.42
Consensus pattern (24 bp):
CAACCTAAAAGTTTCACCTTTTTT
Found at i:21256961 original size:36 final size:36
Alignment explanation
Indices: 21256909--21256991 Score: 121
Period size: 36 Copynumber: 2.3 Consensus size: 36
21256899 GATCGGAACA
* *
21256909 ATACTACAAGTTAAAAAATAATGGACGACTAGGACG
1 ATACCACAAGTCAAAAAATAATGGACGACTAGGACG
* *
21256945 ATACCACAAGTCAAAAAATAATGGACGACTGGGATG
1 ATACCACAAGTCAAAAAATAATGGACGACTAGGACG
*
21256981 ACACCACAAGT
1 ATACCACAAGT
21256992 TGGCAATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.46, C:0.18, G:0.19, T:0.17
Consensus pattern (36 bp):
ATACCACAAGTCAAAAAATAATGGACGACTAGGACG
Found at i:21257070 original size:107 final size:105
Alignment explanation
Indices: 21256959--21257168 Score: 255
Period size: 107 Copynumber: 2.0 Consensus size: 105
21256949 CACAAGTCAA
* * ** *
21256959 AAAATAATGGACGACTGGGATGACACCACAAGTTGGCAATAAAGAATGA-TCGAGATGACACCAC
1 AAAATAATGGACAACTAGGATGACACCACAAGTAAGAAATAAAGAATGACT-GAGATGACACCAC
21257023 AAGTCAGAAAATAACAAAATGAC-TGGA-ATGACACCACAAGTTG
65 AAGTCAG-AAATAA-AAAATGACTTGGACA--ACACCACAAGTTG
* * * *
21257066 AAAATAATGGACAACTAGGATGACATCACAAGTAAGAAATAAAGAATGACTGGGATGACATCATA
1 AAAATAATGGACAACTAGGATGACACCACAAGTAAGAAATAAAGAATGACTGAGATGACACCACA
* *
21257131 AGTTAGAAATAAAGAATGACTTGGACAACACCACAAGT
66 AGTCAGAAATAAAAAATGACTTGGACAACACCACAAGT
21257169 CAAGAAATAA
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
105 18 0.20
106 10 0.11
107 60 0.67
108 1 0.01
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.17
Consensus pattern (105 bp):
AAAATAATGGACAACTAGGATGACACCACAAGTAAGAAATAAAGAATGACTGAGATGACACCACA
AGTCAGAAATAAAAAATGACTTGGACAACACCACAAGTTG
Found at i:21257142 original size:142 final size:144
Alignment explanation
Indices: 21256914--21257215 Score: 362
Period size: 142 Copynumber: 2.1 Consensus size: 144
21256904 GAACAATACT
* * * *
21256914 ACAAGTTAAAAAATAATGGACGACTAGGACGATACCACAAGTCAAAAAATAATGGACGACTGGGA
1 ACAAGTTAAAAAATAATGGACAACTAGGACGACACCACAAGTCAAAAAATAAAGAACGACTGGGA
* * **
21256979 TGACACCACAAGTTGGCAATAAAGAATGA-TCGAGATGACACCACAAGTC-AGAAAATAACAAAA
66 TGACACCACAAGTTAGAAATAAAGAATGACTCG-GACAACACCACAAGTCAAG-AAATAACAAAA
21257042 TGACTGGAATGACACC
129 TGACTGGAATGACACC
* * * * *
21257058 ACAAGTT-GAAAATAATGGACAACTAGGATGACATCACAAGT-AAGAAATAAAGAATGACTGGGA
1 ACAAGTTAAAAAATAATGGACAACTAGGACGACACCACAAGTCAAAAAATAAAGAACGACTGGGA
* * * *
21257121 TGACATCATAAGTTAGAAATAAAGAATGACTTGGACAACACCACAAGTCAAGAAATAACAAAATA
66 TGACACCACAAGTTAGAAATAAAGAATGACTCGGACAACACCACAAGTCAAGAAATAACAAAATG
*
21257186 ACTAGG-ATGATACC
131 ACT-GGAATGACACC
* *
21257200 ATAAGTCAAAAAATAA
1 ACAAGTTAAAAAATAA
21257216 CAGATGACGA
Statistics
Matches: 133, Mismatches: 21, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
142 84 0.63
143 42 0.32
144 7 0.05
ACGTcount: A:0.49, C:0.16, G:0.19, T:0.17
Consensus pattern (144 bp):
ACAAGTTAAAAAATAATGGACAACTAGGACGACACCACAAGTCAAAAAATAAAGAACGACTGGGA
TGACACCACAAGTTAGAAATAAAGAATGACTCGGACAACACCACAAGTCAAGAAATAACAAAATG
ACTGGAATGACACC
Found at i:21257147 original size:35 final size:35
Alignment explanation
Indices: 21256971--21257785 Score: 218
Period size: 35 Copynumber: 22.9 Consensus size: 35
21256961 AATAATGGAC
* *
21256971 GACTGGGATGACACCACAAGTTGGCAATAAAGAAT
1 GACTGGGATGACACCACAAGTTAGAAATAAAGAAT
* * *
21257006 GA-TCGAGATGACACCACAAGTCAGAAAATAACAAAAT
1 GACT-GGGATGACACCACAAGTTAG-AAATAA-AGAAT
* * * *
21257043 GACTGGAATGACACCACAAGTT-GAAAATAATGGAC
1 GACTGGGATGACACCACAAGTTAG-AAATAAAGAAT
* * * *
21257078 AACTAGGATGACATCACAAGTAAGAAATAAAGAAT
1 GACTGGGATGACACCACAAGTTAGAAATAAAGAAT
* *
21257113 GACTGGGATGACATCATAAGTTAGAAATAAAGAAT
1 GACTGGGATGACACCACAAGTTAGAAATAAAGAAT
* ** * *
21257148 GACTTGGACAACACCACAAGTCAAGAAATAACAAAAT
1 GACTGGGATGACACCACAAGT-TAGAAATAA-AGAAT
* * * * * *
21257185 AACTAGGATGATACCATAAGTCAAAAAATAACAG-AT
1 GACTGGGATGACACCACAAGT-TAGAAATAA-AGAAT
** * * *
21257221 GAC-GAGGATGACATTATAAGTTAAAAATAAAGATT
1 GACTG-GGATGACACCACAAGTTAGAAATAAAGAAT
* * * * * * *
21257256 GATTAGGACGACACTACAAATCAAAAAATAACAG-AT
1 GACTGGGATGACACCACAAGT-TAGAAATAA-AGAAT
* * *
21257292 GA-TCGGGATGACACCATAAGTTTGGAAATAAGAAAAT
1 GACT-GGGATGACACCACAAG-TTAGAAATAA-AGAAT
* * * * * * *
21257329 GA-TCGAGATGATACCATAAGTAAAAAAATAATGGAT
1 GACT-GGGATGACACCACAAGT-TAGAAATAAAGAAT
** *
21257365 GA-TCGGGACAACACCACAAGTTA-AAAAAAATGAAT
1 GACT-GGGATGACACCACAAGTTAGAAATAAA-GAAT
* *
21257400 GA-TCAGGACGACACCACAAGTTAAGAAATAAA-AAT
1 GACT-GGGATGACACCACAAGTT-AGAAATAAAGAAT
* * ** * * * *
21257435 AATTAAGATGATACCATAAGTCA-AAA-AATATGGAT
1 GACTGGGATGACACCACAAGTTAGAAATAA-A-GAAT
* * *
21257470 AACTGGGATGACACTACAAG-TCGAAAAGTAAAGAAT
1 GACTGGGATGACACCACAAGTTAG-AAA-TAAAGAAT
* * * * * * * *
21257506 GA-TCGGGACGATACTATAAATCAAAAAATAAAGAAC
1 GACT-GGGATGACACCACAAGT-TAGAAATAAAGAAT
* * *
21257542 GATTGAGATGACACCACAAG-TCGAAAAGTAAAGAAT
1 GACTGGGATGACACCACAAGTTAG-AAA-TAAAGAAT
* * * *
21257578 GACTAGGATGACTCCACAAGTCA-AAA-AATACGAAC
1 GACTGGGATGACACCACAAGTTAGAAATAA-A-GAAT
** * * *
21257613 GA-TCGAAATGAAACCATAAG-TCGAAAGTAAAGAAT
1 GACT-GGGATGACACCACAAGTTAGAAA-TAAAGAAT
* * * *
21257648 GACTGGGATGACTCCACAAG-TA-AAAAAATACGGAC
1 GACTGGGATGACACCACAAGTTAGAAATAA-A-GAAT
* * * * *
21257683 AACTGAGACGATACCATAAGTT-GAAAAGTAAAGAAT
1 GACTGGGATGACACCACAAGTTAG-AAA-TAAAGAAT
* * * *
21257719 GACTGGGATGACACCACAAGTGAAAAAATAATGGAT
1 GACTGGGATGACACCACAAGT-TAGAAATAAAGAAT
* * **
21257755 GACTAGTATGACATTACAAGTTAAGAAATAA
1 GACTGGGATGACACCACAAGTT-AGAAATAA
21257786 GAAAATGATC
Statistics
Matches: 562, Mismatches: 168, Indels: 99
0.68 0.20 0.12
Matches are distributed among these distances:
32 2 0.00
33 8 0.01
34 15 0.03
35 231 0.41
36 201 0.36
37 100 0.18
38 5 0.01
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.18
Consensus pattern (35 bp):
GACTGGGATGACACCACAAGTTAGAAATAAAGAAT
Found at i:21257506 original size:106 final size:108
Alignment explanation
Indices: 21257261--21257516 Score: 281
Period size: 106 Copynumber: 2.4 Consensus size: 108
21257251 AGATTGATTA
* * * **
21257261 GGACGACACTACAAATCAAAAAATAACAG-ATGATCGGGATGACACCATAAGTTTGGAAATAAGA
1 GGACGACACTACAAGTC-AAAAATAA-AGAATGATCGGGACGACACCACAAGTTAAGAAATAAGA
* * *
21257325 AAATGATCGAGATGATACCATAAGTAAAAAAATAATGGATGATCG
64 AAATAATCAAGATGATACCATAAGTAAAAAAATAATGGATAATCG
* * * *
21257370 GGACAACACCACAAGTTAAAAA-AAATGAATGATCAGGACGACACCACAAGTTAAGAAAT-A-AA
1 GGACGACACTACAAGTCAAAAATAAA-GAATGATCGGGACGACACCACAAGTTAAGAAATAAGAA
* *
21257432 AATAATTAAGATGATACCATAAGTCAAAAAAT-ATGGATAA-CTG
65 AATAATCAAGATGATACCATAAGTAAAAAAATAATGGATAATC-G
* *
21257475 GGATGACACTACAAGTCGAAAAGTAAAGAATGATCGGGACGA
1 GGACGACACTACAAGTC-AAAAATAAAGAATGATCGGGACGA
21257517 TACTATAAAT
Statistics
Matches: 122, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
104 1 0.01
105 21 0.17
106 49 0.40
107 7 0.06
108 31 0.25
109 13 0.11
ACGTcount: A:0.49, C:0.14, G:0.20, T:0.18
Consensus pattern (108 bp):
GGACGACACTACAAGTCAAAAATAAAGAATGATCGGGACGACACCACAAGTTAAGAAATAAGAAA
ATAATCAAGATGATACCATAAGTAAAAAAATAATGGATAATCG
Found at i:21257535 original size:106 final size:106
Alignment explanation
Indices: 21257334--21257537 Score: 234
Period size: 106 Copynumber: 1.9 Consensus size: 106
21257324 AAAATGATCG
* *
21257334 AGATGATACCATAAGTAAAAAAATAATGGATGATCGGGACAACACCACAAGTTAAAAAAAATGAA
1 AGATGATACCATAAGTAAAAAAATAATGGATAATCGGGACAACACCACAAGTGAAAAAAAATGAA
* * *
21257399 TGATCAGGACGACACCACAAGTTAAGAAATAAAAATAATTA
66 TGATCAGGACGACACCACAAATCAAAAAATAAAAATAATTA
* ** * *
21257440 AGATGATACCATAAGTCAAAAAAT-ATGGATAA-CTGGGATGACACTACAAGTCGAAAAGTAAA-
1 AGATGATACCATAAGTAAAAAAATAATGGATAATC-GGGACAACACCACAAGT-GAAAA-AAAAT
* * * *
21257502 GAATGATCGGGACGATACTATAAATCAAAAAATAAA
63 GAATGATCAGGACGACACCACAAATCAAAAAATAAA
21257538 GAACGATTGA
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
104 1 0.01
105 21 0.26
106 56 0.69
107 3 0.04
ACGTcount: A:0.51, C:0.13, G:0.17, T:0.19
Consensus pattern (106 bp):
AGATGATACCATAAGTAAAAAAATAATGGATAATCGGGACAACACCACAAGTGAAAAAAAATGAA
TGATCAGGACGACACCACAAATCAAAAAATAAAAATAATTA
Found at i:21257725 original size:71 final size:70
Alignment explanation
Indices: 21257487--21257748 Score: 278
Period size: 71 Copynumber: 3.7 Consensus size: 70
21257477 ATGACACTAC
* * * * * * *
21257487 AAGTCGAAAAGTAAAGAATGA-TCGGGACGA-TACTATAAATCAAAAAATAAAGAACGATTGAGA
1 AAGTCGAAAAGTAAAGAATGACT-GGGATGACT-CCACAAGTAAAAAAAT-ACGAAC-AATGAGA
* *
21257550 TGACACCAC
62 TGAAACCAT
* * * *
21257559 AAGTCGAAAAGTAAAGAATGACTAGGATGACTCCACAAGTCAAAAAATACGAACGATCGAAATGA
1 AAGTCGAAAAGTAAAGAATGACTGGGATGACTCCACAAGTAAAAAAATACGAACAAT-GAGATGA
21257624 AACCAT
65 AACCAT
* *
21257630 AAGTCG-AAAGTAAAGAATGACTGGGATGACTCCACAAGTAAAAAAATACGGACAACTGAGACGA
1 AAGTCGAAAAGTAAAGAATGACTGGGATGACTCCACAAGTAAAAAAATACGAACAA-TGAGATGA
*
21257694 TACCAT
65 AACCAT
* * *
21257700 AAGTTGAAAAGTAAAGAATGACTGGGATGACACCACAAGTGAAAAAATA
1 AAGTCGAAAAGTAAAGAATGACTGGGATGACTCCACAAGTAAAAAAATA
21257749 ATGGATGACT
Statistics
Matches: 164, Mismatches: 21, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
70 61 0.37
71 62 0.38
72 39 0.24
73 2 0.01
ACGTcount: A:0.49, C:0.15, G:0.20, T:0.16
Consensus pattern (70 bp):
AAGTCGAAAAGTAAAGAATGACTGGGATGACTCCACAAGTAAAAAAATACGAACAATGAGATGAA
ACCAT
Found at i:21257834 original size:38 final size:38
Alignment explanation
Indices: 21257780--21257857 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
21257770 ACAAGTTAAG
* *
21257780 AAATAAGAAAATGATCG-GAACGACACTATAAGTCAAAA
1 AAATAAGAAAACGATCGAG-ACGACACTACAAGTCAAAA
* *
21257818 AAATAAGAAAACGATCGAGACGATACTACGAGTCAAAA
1 AAATAAGAAAACGATCGAGACGACACTACAAGTCAAAA
21257856 AA
1 AA
21257858 TAACGGACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 34 0.97
39 1 0.03
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (38 bp):
AAATAAGAAAACGATCGAGACGACACTACAAGTCAAAA
Found at i:21258267 original size:106 final size:107
Alignment explanation
Indices: 21258095--21258288 Score: 248
Period size: 106 Copynumber: 1.8 Consensus size: 107
21258085 GGGCTGACAC
* * * * * *
21258095 CACAAGTTAAAAAGTGAAGAATAATCGGGATGACACTACAAGTCAAAAAGTAAAGAATAACTGAG
1 CACAAGTTAAAAAGTAAACAATAATCGGAATGAAACCACAAGTCAAAAAATAAAGAATAACTGAG
21258160 ACAACACCACAAGTCAA-AAATACAAACAATCAGGATGATAT
66 ACAACACCACAAGTCAAGAAATACAAACAATCAGGATGATAT
* * * * *
21258201 CACAAGTTAAAAAGTAAACAATGATCGGAATGAAACCATAAGTCAAAAAATAACGGATGA-TCGA
1 CACAAGTTAAAAAGTAAACAATAATCGGAATGAAACCACAAGTCAAAAAATAAAGAATAACT-GA
* *
21258265 GACTACACCATAAGTCAAGAAATA
65 GACAACACCACAAGTCAAGAAATA
21258289 AAAAAATAAC
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
105 1 0.01
106 67 0.92
107 5 0.07
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (107 bp):
CACAAGTTAAAAAGTAAACAATAATCGGAATGAAACCACAAGTCAAAAAATAAAGAATAACTGAG
ACAACACCACAAGTCAAGAAATACAAACAATCAGGATGATAT
Found at i:21258360 original size:73 final size:73
Alignment explanation
Indices: 21258240--21259238 Score: 286
Period size: 73 Copynumber: 13.8 Consensus size: 73
21258230 ATGAAACCAT
* * **
21258240 AAGTCAAAAAATAACGGATGATCGAGACT-ACACCATAAGTCAAGAAATAAAAAAATAACTGGGA
1 AAGTCAAAAAATAATGGATGATCGAGA-TGACACCATAAGTCAAGAAATAAGAAAATAACTGAAA
21258304 CAACACTAC
65 CAACACTAC
* * *
21258313 AAGTCAAAAAATAATGGATGAAT-GAGATGACACCATAAGTCAGGAAATAAGAAAATGATTGAAA
1 AAGTCAAAAAATAATGGATG-ATCGAGATGACACCATAAGTCAAGAAATAAGAAAATAACTGAAA
**
21258377 TGACACTAC
65 CAACACTAC
* * * * * * *
21258386 AAGTCAGAAAATAATGAACGATCAAGATGACACCACAAGTCAAGAAATAAGAAAATGA-TCAAGA
1 AAGTCAAAAAATAATGGATGATCGAGATGACACCATAAGTCAAGAAATAAGAAAATAACTGAA-A
** *
21258450 TGACACCAC
65 CAACACTAC
* * * * ** * * * *
21258459 AAGTCAAAAAGTAAAGAATGATCGAGACGACACC-GCAGT-TAGAAAATAA-AAAGACAATTGAG
1 AAGTCAAAAAATAATGGATGATCGAGATGACACCATAAGTCAAG-AAATAAGAAA-ATAACTGAA
** *
21258521 ATGACACTAT
64 ACAACACTAC
* * * * * * * * * * * * * ** *
21258531 AAGTTAAAAAGTAAAGAATGATCGGGATAATACCACAAGTCAA-AAATTA-CAGATGATTGGGAT
1 AAGTCAAAAAATAATGGATGATCGAGATGACACCATAAGTCAAGAAATAAGAAAATAACTGAAAC
* *
21258594 GACACCAC
66 AACACTAC
* * * * * *
21258602 AAGTCAAAAAATAATGGATGATTGAGGTGACACCACAAGTCAAAAAATAAGAAAATGA-TCGAGA
1 AAGTCAAAAAATAATGGATGATCGAGATGACACCATAAGTCAAGAAATAAGAAAATAACT-GAAA
** *
21258666 TGACACCAC
65 CAACACTAC
* * * * * *
21258675 AAGTTAAAAAATAATAGATAATC-AGGATGACATCATAAGTCAAGAAATAAGAAAATGACCTG-G
1 AAGTCAAAAAATAATGGATGATCGA-GATGACACCATAAGTCAAGAAATAAGAAAAT-AACTGAA
* * *
21258738 ACGACACCAT
64 ACAACACTAC
* * * * * * * * * * *
21258748 AAGTCAAAAAACAATGGA-CAACCAGGATGACATCGTAAGTCAGGAGATAAGAAAACAA-TCAAG
1 AAGTCAAAAAATAATGGATGATCGA-GATGACACCATAAGTCAAGAAATAAGAAAATAACTGAAA
*
21258811 CGATA-AC-AT
65 C-A-ACACTAC
* * * * *
21258820 AAGTCAAAAAAT-ATGGATGATTGGGATGACACCACAAGTCAA-AAAGTAA-AGAATAA-TCAAG
1 AAGTCAAAAAATAATGGATGATCGAGATGACACCATAAGTCAAGAAA-TAAGAAAATAACTGAA-
* * *
21258881 ACGACACCAT
64 ACAACACTAC
** * * ** * * * * * *
21258891 AAGTCAAAAAACTAAAAGATGATTGGGACAACATCACAAGTTAAAAAATAA-AAAATAATTGAGA
1 AAGTCAAAAAA-TAATGGATGATCGAGATGACACCATAAGTCAAGAAATAAGAAAATAACTGAAA
** * *
21258955 TGACATTAT
65 CAACACTAC
* * * * * * * * * *
21258964 AAGTAAAAAAAT-ATGGACGACCGAAACGATACCATAAGTTAA-AAAGTAA-AGAATGACT-AGG
1 AAGTCAAAAAATAATGGATGATCGAGATGACACCATAAGTCAAGAAA-TAAGAAAATAACTGA-A
** * *
21259025 ATGACACCAT
64 ACAACACTAC
* * * * * * * * * *
21259035 AAGTCAGAAAATAACGGATGATCAAGATAATACCACAAGTCAAAAAATAAAAAAATGATTGAAAC
1 AAGTCAAAAAATAATGGATGATCGAGATGACACCATAAGTCAAGAAATAAGAAAATAACTGAAAC
* * *
21259100 AATACCAT
66 AACACTAC
* * * * * * * * **
21259108 AAGTAAAAAAATAACGGATAATCTG-GATAACACC-TCAAGTCAAAAAATGAGAAAACAATTGGG
1 AAGTCAAAAAATAATGGATGATC-GAGATGACACCAT-AAGTCAAGAAATAAGAAAATAACTGAA
**
21259171 ATGACACTAC
64 ACAACACTAC
* * * * * * *
21259181 AAGTAAAAAAAAAAAATGGATGATTGGGATGACACCACAAGTTAGGAAATAAGAAAAT
1 AAGT--CAAAAAATAATGGATGATCGAGATGACACCATAAGTCAAGAAATAAGAAAAT
21259239 GACTAGGACG
Statistics
Matches: 710, Mismatches: 176, Indels: 78
0.74 0.18 0.08
Matches are distributed among these distances:
69 1 0.00
70 17 0.02
71 137 0.19
72 111 0.16
73 393 0.55
74 12 0.02
75 39 0.05
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.17
Consensus pattern (73 bp):
AAGTCAAAAAATAATGGATGATCGAGATGACACCATAAGTCAAGAAATAAGAAAATAACTGAAAC
AACACTAC
Found at i:21258750 original size:37 final size:36
Alignment explanation
Indices: 21257003--21258758 Score: 345
Period size: 36 Copynumber: 48.8 Consensus size: 36
21256993 GGCAATAAAG
* *
21257003 AATGATCGAGATGACACCACAAGTCAGAAAATAACAA
1 AATGATCG-GATGACACCACAAGTCAAAAAATAAGAA
* *
21257040 AATGA-CTGGAATGACACCACAAGTTGAAAATAAT-GGACA
1 AATGATC-GG-ATGACACCACAAG-TCAAAA-AATAAGA-A
* * * *
21257079 ACT-A--GGATGACATCACAAGT-AAGAAATAA-AG
1 AATGATCGGATGACACCACAAGTCAAAAAATAAGAA
* * * * * *
21257110 AATGACTGGGATGACATCATAAGT-TAGAAATAA-AG
1 AATGA-TCGGATGACACCACAAGTCAAAAAATAAGAA
* ** * *
21257145 AATGACTTGGACAACACCACAAGTCAAGAAATAACAA
1 AATGA-TCGGATGACACCACAAGTCAAAAAATAAGAA
* * * * *
21257182 AATAACTAGGATGATACCATAAGTCAAAAAATAA-CA
1 AATGA-TCGGATGACACCACAAGTCAAAAAATAAGAA
* ** * * *
21257218 GATGA-CGAGGATGACATTATAAGT-TAAAAATAA-AG
1 AATGATC--GGATGACACCACAAGTCAAAAAATAAGAA
* * * * * *
21257253 ATTGATTAGGACGACACTACAAATCAAAAAATAA-CA
1 AATGA-TCGGATGACACCACAAGTCAAAAAATAAGAA
* * ****
21257289 GATGATCGGGATGACACCATAAGTTTGGAAATAAGAA
1 AATGATC-GGATGACACCACAAGTCAAAAAATAAGAA
* * *
21257326 AATGATCGAGATGATACCATAAGTAAAAAAATAATG--
1 AATGATCG-GATGACACCACAAGTCAAAAAATAA-GAA
* ** *
21257362 GATGATCGGGACAACACCACAAGTTAAAAAA-AATG--
1 AATGATC-GGATGACACCACAAGTCAAAAAATAA-GAA
* * *
21257397 AATGATCAGGACGACACCACAAGTTAAGAAAT-A-AA
1 AATGATC-GGATGACACCACAAGTCAAAAAATAAGAA
* ** * * *
21257432 AATAATTAAGATGATACCATAAGTCAAAAAATATGGATA
1 AATGA-TCGGATGACACCACAAGTCAAAAAATA-AGA-A
* * * * *
21257471 ACTG---GGATGACACTACAAGTCGAAAAGTAA-AG
1 AATGATCGGATGACACCACAAGTCAAAAAATAAGAA
* * * * * *
21257503 AATGATCGGGACGATACTATAAATCAAAAAATAA-AG
1 AATGATC-GGATGACACCACAAGTCAAAAAATAAGAA
* * * * *
21257539 AACGATTGAGATGACACCACAAGTCGAAAAGTAA-AG
1 AATGATCG-GATGACACCACAAGTCAAAAAATAAGAA
* * *
21257575 AATGACTAGGATGACTCCACAAGTCAAAAAATACG--
1 AATGA-TCGGATGACACCACAAGTCAAAAAATAAGAA
* * * * * * *
21257610 AACGATCGAAATGAAACCATAAGTC-GAAAGTAA-AG
1 AATGATCG-GATGACACCACAAGTCAAAAAATAAGAA
* * * *
21257645 AATGACTGGGATGACTCCACAAGTAAAAAAATACGGACA
1 AATGA-TCGGATGACACCACAAGTCAAAAAATA-AGA-A
* * * * ** * *
21257684 ACTGA---GACGATACCATAAGTTGAAAAGTAA-AG
1 AATGATCGGATGACACCACAAGTCAAAAAATAAGAA
* *
21257716 AATGACTGGGATGACACCACAAGTGAAAAAATAATG--
1 AATGA-TCGGATGACACCACAAGTCAAAAAATAA-GAA
* * * ** * *
21257752 GATGACTAGTATGACATTACAAGTTAAGAAATAAGAA
1 AATGA-TCGGATGACACCACAAGTCAAAAAATAAGAA
* * *
21257789 AATGATCGGAACGACACTATAAGTCAAAAAAATAAGAA
1 AATGATCGG-ATGACACCACAAGTC-AAAAAATAAGAA
* * * * * *
21257827 AACGATCGAGACGATACTACGAGTCAAAAAATAACGGAC
1 AATGATCG-GATGACACCACAAGTCAAAAAATAA--GAA
*
21257866 AA-GCAT--GATGACACCACAAGTCAAGAAATAAGAA
1 AATG-ATCGGATGACACCACAAGTCAAAAAATAAGAA
* * * * * *
21257900 AATGA-CTGGAAAGATACCATAAGTTAGAAAATATG--
1 AATGATC-GG-ATGACACCACAAGTCAAAAAATAAGAA
* * * * * ** * *
21257935 GACGACCGGGATAACAAGC-CAAGTTGAAAAGTAA-AG
1 AATGATC-GGATGAC-ACCACAAGTCAAAAAATAAGAA
** * * *
21257971 AATGATCTGGACAATACCGCAAGTCAAAAAATAA-AG
1 AATGATC-GGATGACACCACAAGTCAAAAAATAAGAA
* * * * *** *
21258007 GACGACCGGGATGACACCACAAATTGGAAAGTAA-AA
1 AATGATC-GGATGACACCACAAGTCAAAAAATAAGAA
* * * *
21258043 AATGACCAGGATGACACCATAAGTAAAAAAATATG--
1 AATGATC-GGATGACACCACAAGTCAAAAAATAAGAA
* * * * *
21258078 GATGATTGGGCTGACACCACAAGTTAAAAAGT--GAA
1 AATGA-TCGGATGACACCACAAGTCAAAAAATAAGAA
* * *
21258113 GAATAATCGGGATGACACTACAAGTCAAAAAGTAAAGAA
1 -AATGATC-GGATGACACCACAAGTCAAAAAAT-AAGAA
**
21258152 TAACTGA---GACAACACCACAAGTC-AAAAATACA-AA
1 -AA-TGATCGGATGACACCACAAGTCAAAAAATA-AGAA
* * * * * *
21258186 CA--ATCAGGATGATATCACAAGTTAAAAAGTAA-AC
1 AATGATC-GGATGACACCACAAGTCAAAAAATAAGAA
* *
21258220 AATGATCGGAATGAAACCATAAGTCAAAAAATAACG--
1 AATGATCGG-ATGACACCACAAGTCAAAAAATAA-GAA
* * * *
21258256 GATGATCGAGACT-ACACCATAAGTCAAGAAATAAAAA
1 AATGATCG-GA-TGACACCACAAGTCAAAAAATAAGAA
* * ** *
21258293 AATAACTGGGACAACACTACAAGTCAAAAAATAATG--
1 AATGA-TCGGATGACACCACAAGTCAAAAAATAA-GAA
* * **
21258329 GATGAAT-GAGATGACACCATAAGTCAGGAAATAAGAA
1 AATG-ATCG-GATGACACCACAAGTCAAAAAATAAGAA
* * * *
21258366 AATGATTGAAATGACACTACAAGTCAGAAAATAATG--
1 AATGATCG-GATGACACCACAAGTCAAAAAATAA-GAA
* * *
21258402 AACGATCAAGATGACACCACAAGTCAAGAAATAAGAA
1 AATGATC-GGATGACACCACAAGTCAAAAAATAAGAA
* * *
21258439 AATGATCAAGATGACACCACAAGTCAAAAAGTAA-AG
1 AATGATC-GGATGACACCACAAGTCAAAAAATAAGAA
* * * *
21258475 AATGATCGAGACGACACCGC-AGTTAGAAAATAA-AA
1 AATGATCG-GATGACACCACAAGTCAAAAAATAAGAA
** * * * * * *
21258510 AGACAATTGAGATGACACTATAAGTTAAAAAGTAA-AG
1 A-ATGATCG-GATGACACCACAAGTCAAAAAATAAGAA
* * *
21258547 AATGATCGGGATAATACCACAAGTCAAAAATTACAG--
1 AATGATC-GGATGACACCACAAGTCAAAAAATA-AGAA
*
21258583 -ATGATTGGGATGACACCACAAGTCAAAAAATAATG--
1 AATGA-TCGGATGACACCACAAGTCAAAAAATAA-GAA
* * *
21258618 GATGATTGAGGTGACACCACAAGTCAAAAAATAAGAA
1 AATGATCG-GATGACACCACAAGTCAAAAAATAAGAA
* *
21258655 AATGATCGAGATGACACCACAAGTTAAAAAATAA-TA
1 AATGATCG-GATGACACCACAAGTCAAAAAATAAGAA
* * * * *
21258691 GATAATCAGGATGACATCATAAGTCAAGAAATAAGAA
1 AATGATC-GGATGACACCACAAGTCAAAAAATAAGAA
* * *
21258728 AATGACCTGGACGACACCATAAGTCAAAAAA
1 AATGATC-GGATGACACCACAAGTCAAAAAA
21258759 CAATGGACAA
Statistics
Matches: 1248, Mismatches: 351, Indels: 240
0.68 0.19 0.13
Matches are distributed among these distances:
30 1 0.00
31 2 0.00
32 12 0.01
33 7 0.01
34 31 0.02
35 305 0.24
36 547 0.44
37 273 0.22
38 43 0.03
39 25 0.02
40 2 0.00
ACGTcount: A:0.50, C:0.15, G:0.19, T:0.17
Consensus pattern (36 bp):
AATGATCGGATGACACCACAAGTCAAAAAATAAGAA
Found at i:21259082 original size:36 final size:36
Alignment explanation
Indices: 21259030--21259155 Score: 101
Period size: 36 Copynumber: 3.5 Consensus size: 36
21259020 CTAGGATGAC
* *
21259030 ACCATAAGTCAGAAAATAACGGATGATCAAGATAAT
1 ACCACAAGTCAAAAAATAACGGATGATCAAGATAAT
*** * *
21259066 ACCACAAGTCAAAAAATAAAAAAATGATTGAA-ACAAT
1 ACCACAAGTCAAAAAAT-AACGGATGA-TCAAGATAAT
* * * ** *
21259103 ACCATAAGTAAAAAAATAACGGATAATCTGGATAAC
1 ACCACAAGTCAAAAAATAACGGATGATCAAGATAAT
*
21259139 ACCTCAAGTCAAAAAAT
1 ACCACAAGTCAAAAAAT
21259156 GAGAAAACAA
Statistics
Matches: 66, Mismatches: 21, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
35 1 0.02
36 37 0.56
37 25 0.38
38 3 0.05
ACGTcount: A:0.55, C:0.15, G:0.12, T:0.18
Consensus pattern (36 bp):
ACCACAAGTCAAAAAATAACGGATGATCAAGATAAT
Found at i:21259794 original size:15 final size:15
Alignment explanation
Indices: 21259774--21259803 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21259764 TGTCTTTCTT
*
21259774 GTGATGCAGATGCAA
1 GTGATGCAAATGCAA
21259789 GTGATGCAAATGCAA
1 GTGATGCAAATGCAA
21259804 ATGTCTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (15 bp):
GTGATGCAAATGCAA
Found at i:21259800 original size:41 final size:41
Alignment explanation
Indices: 21259746--21259826 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
21259736 GTACAAATGT
21259746 AAGTGATACAAATGCAAATGTCTTTCTTGTGATGCAGATGC
1 AAGTGATACAAATGCAAATGTCTTTCTTGTGATGCAGATGC
* * *
21259787 AAGTGATGCAAATGCAAATGTCTTTTTTGTGATGTAGATG
1 AAGTGATACAAATGCAAATGTCTTTCTTGTGATGCAGATG
21259827 TGAAAGCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (41 bp):
AAGTGATACAAATGCAAATGTCTTTCTTGTGATGCAGATGC
Found at i:21261530 original size:30 final size:29
Alignment explanation
Indices: 21261491--21261558 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
21261481 GTCTATTCCA
*
21261491 TTTTGCTTTCC-ACCCATTCATTTCTTTTC
1 TTTTTCTTTCCTACCCATTCATTT-TTTTC
** *
21261520 TTTTTTCTTTCCTTTCCTTTCATTTTTTTC
1 -TTTTTCTTTCCTACCCATTCATTTTTTTC
21261550 TTTTTCTTT
1 TTTTTCTTT
21261559 TTTTTTCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 9 0.27
30 15 0.45
31 9 0.27
ACGTcount: A:0.06, C:0.25, G:0.01, T:0.68
Consensus pattern (29 bp):
TTTTTCTTTCCTACCCATTCATTTTTTTC
Found at i:21261563 original size:16 final size:15
Alignment explanation
Indices: 21261511--21261616 Score: 70
Period size: 16 Copynumber: 6.5 Consensus size: 15
21261501 CACCCATTCA
21261511 TTTCTTTTCTTTTTT
1 TTTCTTTTCTTTTTT
*
21261526 CTTTCCTTTCCTTTCATTTT
1 -TTT-CTTTTC-TT--TTTT
21261546 TTTCTTTTTCTTTTTT
1 TTTC-TTTTCTTTTTT
* **
21261562 TTTCATTTTCATTCAT
1 TTTC-TTTTCTTTTTT
* *
21261578 TTTCATTTTCATTTTC
1 TTTC-TTTTCTTTTTT
21261594 TTTC-TTTCTTTTTT
1 TTTCTTTTCTTTTTT
21261608 TCTTCTTTT
1 T-TTCTTTT
21261617 ACTGTGTGGA
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
14 9 0.12
15 3 0.04
16 39 0.54
17 5 0.07
18 5 0.07
19 7 0.10
20 4 0.06
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTCTTTTCTTTTTT
Found at i:21261608 original size:22 final size:21
Alignment explanation
Indices: 21261545--21261609 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
21261535 CCTTTCATTT
*
21261545 TTTTCTTTTTCTTTTTTTTTCA
1 TTTTCTTTCT-TTTTTTTTTCA
* **
21261567 TTTTCATTCATTTTCATTTTCA
1 TTTTCTTTC-TTTTTTTTTTCA
21261589 TTTTCTTTCTTTCTTTTTTTC
1 TTTTCTTTCTTT-TTTTTTTC
21261610 TTCTTTTACT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 3 0.09
22 30 0.88
23 1 0.03
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTCTTTCTTTTTTTTTTCA
Found at i:21266049 original size:37 final size:37
Alignment explanation
Indices: 21265997--21266068 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
21265987 CATAAAATTA
*
21265997 AAATAAAGTAATAACTAACATGCAATTTATTTTATCG
1 AAATAAAATAATAACTAACATGCAATTTATTTTATCG
*
21266034 AAATAAAATATTAACTAACATGCAATTTATTTTAT
1 AAATAAAATAATAACTAACATGCAATTTATTTTAT
21266069 TTGTTAACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.38
Consensus pattern (37 bp):
AAATAAAATAATAACTAACATGCAATTTATTTTATCG
Found at i:21277523 original size:14 final size:14
Alignment explanation
Indices: 21277504--21277530 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21277494 TTTTTTCTTT
21277504 TTTTATTATCTATA
1 TTTTATTATCTATA
21277518 TTTTATTATCTAT
1 TTTTATTATCTAT
21277531 TTAATTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTATTATCTATA
Found at i:21277566 original size:21 final size:20
Alignment explanation
Indices: 21277537--21277576 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
21277527 CTATTTAATT
*
21277537 TTATGTTTATATATATATTTA
1 TTATATTTATATAT-TATTTA
*
21277558 TTATATTTATTTATTATTT
1 TTATATTTATATATTATTT
21277577 GGTATTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TTATATTTATATATTATTTA
Found at i:21277568 original size:13 final size:13
Alignment explanation
Indices: 21277505--21277574 Score: 58
Period size: 13 Copynumber: 5.6 Consensus size: 13
21277495 TTTTTCTTTT
*
21277505 TTTATTATCTATA
1 TTTATTATATATA
*
21277518 TTTTATTATCTAT-
1 -TTTATTATATATA
* *
21277531 TTAATT-T-TATG
1 TTTATTATATATA
21277542 TTTA-TATATATA
1 TTTATTATATATA
*
21277554 TTTATTATATTTA
1 TTTATTATATATA
21277567 TTTATTAT
1 TTTATTAT
21277575 TTGGTATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
10 4 0.08
11 5 0.10
12 12 0.25
13 15 0.31
14 12 0.25
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (13 bp):
TTTATTATATATA
Found at i:21277677 original size:20 final size:20
Alignment explanation
Indices: 21277648--21277698 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
21277638 ATGATCTCTC
* *
21277648 TTTTCCCTTTTCCTTTTTTT
1 TTTTCTCTTTTCCTTTGTTT
*
21277668 TTTTCTCTTTTTCTTTGTTT
1 TTTTCTCTTTTCCTTTGTTT
* *
21277688 ATTTATCTTTT
1 TTTTCTCTTTT
21277699 TTCACTTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTCTCTTTTCCTTTGTTT
Found at i:21277856 original size:12 final size:13
Alignment explanation
Indices: 21277839--21277867 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
21277829 TTTTCTTTAC
21277839 TTTTCTTTAT-GT
1 TTTTCTTTATGGT
21277851 TTTTCTTTATGGT
1 TTTTCTTTATGGT
21277864 TTTT
1 TTTT
21277868 TAAGTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.07, C:0.07, G:0.10, T:0.76
Consensus pattern (13 bp):
TTTTCTTTATGGT
Found at i:21278768 original size:30 final size:30
Alignment explanation
Indices: 21278734--21278798 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
21278724 TAAGTATTTA
* * * * *
21278734 ATTTTTTATTATATATATTTATATAATGAT
1 ATTTTTAAATATATATATTTAAAAAATAAT
*
21278764 ATTTTTAAATATTTATATTTAAAAAATAAT
1 ATTTTTAAATATATATATTTAAAAAATAAT
21278794 ATTTT
1 ATTTT
21278799 ATTTTTAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (30 bp):
ATTTTTAAATATATATATTTAAAAAATAAT
Found at i:21278796 original size:20 final size:21
Alignment explanation
Indices: 21278771--21278824 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
21278761 GATATTTTTA
21278771 AATATTTATATTT-AAAAAAT
1 AATATTTATATTTAAAAAAAT
*
21278791 AATATTTTATTTTTAAAAAAAAT
1 AATA-TTTATATTT-AAAAAAAT
21278814 AATATTT-TATT
1 AATATTTATATT
21278825 AATTTCGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 4 0.14
21 11 0.38
22 3 0.10
23 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATATTTATATTTAAAAAAAT
Found at i:21278805 original size:21 final size:22
Alignment explanation
Indices: 21278771--21278824 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
21278761 GATATTTTTA
*
21278771 AATA-TTTATATTT-AAAAAAT
1 AATATTTTATTTTTAAAAAAAT
21278791 AATATTTTATTTTTAAAAAAAAT
1 AATATTTTATTTTT-AAAAAAAT
21278814 AATATTTTATT
1 AATATTTTATT
21278825 AATTTCGGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 4 0.13
21 8 0.27
23 18 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATTTTTAAAAAAAT
Found at i:21282050 original size:26 final size:21
Alignment explanation
Indices: 21281998--21282040 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
21281988 TGAAAGAAGT
21281998 CAAAGTACAATAGATTGATGG
1 CAAAGTACAATAGATTGATGG
21282019 CAAAGTACAATAGATTGATGG
1 CAAAGTACAATAGATTGATGG
21282040 C
1 C
21282041 CTATTCAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (21 bp):
CAAAGTACAATAGATTGATGG
Found at i:21283009 original size:8 final size:8
Alignment explanation
Indices: 21282978--21283025 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
21282968 AGGTAAATAT
*
21282978 ATATATAT
1 ATATATAA
*
21282986 ATATATAT
1 ATATATAA
21282994 ATATATAA
1 ATATATAA
21283002 ATATATAA
1 ATATATAA
* *
21283010 ATTTCTAA
1 ATATATAA
*
21283018 TTATATAA
1 ATATATAA
21283026 TAACTACCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (8 bp):
ATATATAA
Found at i:21283024 original size:2 final size:2
Alignment explanation
Indices: 21282974--21283008 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
21282964 CCAGAGGTAA
*
21282974 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21283009 AATTTCTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:21283872 original size:12 final size:12
Alignment explanation
Indices: 21283855--21283892 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
21283845 GATAAGGAGA
21283855 TGATGGCAGTCT
1 TGATGGCAGTCT
21283867 TGATGGCAGTCT
1 TGATGGCAGTCT
21283879 TGATGGCAGTCT
1 TGATGGCAGTCT
21283891 TG
1 TG
21283893 GCAGTGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.16, C:0.16, G:0.34, T:0.34
Consensus pattern (12 bp):
TGATGGCAGTCT
Found at i:21286465 original size:97 final size:97
Alignment explanation
Indices: 21286276--21286492 Score: 244
Period size: 97 Copynumber: 2.2 Consensus size: 97
21286266 CAATTATAAA
* * *
21286276 ATTTACTTTGAAAAAATTCATTAAATCTTTCAATAATTTAGTAAAATTTAATTCAAAATTTTATT
1 ATTTA-TTT-AAAAAATTTATTAAATCTTTCAATAATTTAATAAAATTTAATTCAAAATTTTATC
* *
21286341 CTTTAATAGTTTAGTAGAATTAAAAAATATA-TT
64 CTCTAATAATTTAGTAGAATTAAAAAATATATTT
** *
21286374 ATTTTATTTAAAAAATTTATTAAATCTTTCAATAATTTAATAGTATTTAATTCAAGATTTTAATC
1 A-TTTATTTAAAAAATTTATTAAATCTTTCAATAATTTAATAAAATTTAATTCAAAATTTT-ATC
* * *
21286439 CTCTAATAATTTGGTA-AGATT-GAAAATTTATTT
64 CTCTAATAATTTAGTAGA-ATTAAAAAATATATTT
*
21286472 ATTT-TTTATAAAATTTTATTA
1 ATTTATTTA-AAAAATTTATTA
21286493 TAAAATTCTC
Statistics
Matches: 102, Mismatches: 12, Indels: 11
0.82 0.10 0.09
Matches are distributed among these distances:
96 4 0.04
97 69 0.68
98 25 0.25
99 4 0.04
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (97 bp):
ATTTATTTAAAAAATTTATTAAATCTTTCAATAATTTAATAAAATTTAATTCAAAATTTTATCCT
CTAATAATTTAGTAGAATTAAAAAATATATTT
Found at i:21287855 original size:12 final size:12
Alignment explanation
Indices: 21287840--21287892 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
21287830 ATTAAAACAC
21287840 TAAAATCAAAAT
1 TAAAATCAAAAT
*
21287852 TAAAATCAAATT
1 TAAAATCAAAAT
* *
21287864 TAAACT-AAAAC
1 TAAAATCAAAAT
* *
21287875 CAAAATTAAAAT
1 TAAAATCAAAAT
21287887 TAAAAT
1 TAAAAT
21287893 TTTTTAACTT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
11 7 0.22
12 25 0.78
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.26
Consensus pattern (12 bp):
TAAAATCAAAAT
Found at i:21298918 original size:259 final size:259
Alignment explanation
Indices: 21298459--21298974 Score: 906
Period size: 259 Copynumber: 2.0 Consensus size: 259
21298449 ACTAAGATTC
* **
21298459 TGTCATAAGGTGAATAAAAATGTTTTTTTCTTAAAGTTTTAGTTCTACATTTACTTTTTTACTTT
1 TGTCATAAGGTGAATAAAAATATTTTTCCCTTAAAGTTTTAGTTCTACATTTACTTTTTTACTTT
* **
21298524 ATAGTTTACTTTAAAGATACGATCAGAATAATTATTCAAGTCTCATCTCAAACAAAACAATTAGA
66 ATAGTTTACTTTAAAGATACGATCAGAATAATTATTCAAATCTCAGATCAAACAAAACAATTAGA
* * *
21298589 TTGGCTTATTGAATTTAATAAATTGACTTGAGAGTCTCTTAAATTAACTTGAAAATTTAATTGAA
131 TTGGCTTATTGAATTTAATAAATTGACTTAAGAATCTCTTAAATTAACTTGAAAATCTAATTGAA
21298654 TGATTTAAAGTATCAGCTCAGTTTAGAAATGTGAAAAAGGTTCTAACTTAAACTTTAAATATTA
196 TGATTTAAAGTATCAGCTCAGTTTAGAAATGTGAAAAAGGTTCTAACTTAAACTTTAAATATTA
* *
21298718 TGTCATAAGGTGAATAAAAATATTTTTCCCTTAAAGTTTTAGTTTTGCATTTACTTTTTTACTTT
1 TGTCATAAGGTGAATAAAAATATTTTTCCCTTAAAGTTTTAGTTCTACATTTACTTTTTTACTTT
*
21298783 ATAGTTTACTTTAAAGATATGATCAGAATAATTATTCAAATCTCAGATCAAACAAAACAATTAGA
66 ATAGTTTACTTTAAAGATACGATCAGAATAATTATTCAAATCTCAGATCAAACAAAACAATTAGA
*
21298848 TTGGCTTATTGAATTTAATAAATTGAGTTAAGAATCTCTTAAATTAACTTGAAAATCTAATTGAA
131 TTGGCTTATTGAATTTAATAAATTGACTTAAGAATCTCTTAAATTAACTTGAAAATCTAATTGAA
*
21298913 TGATTTAAAGTATTAGCTCAGTTTAGAAATGTGAAAAAGGTTCTAACTTAAACTTTAAATAT
196 TGATTTAAAGTATCAGCTCAGTTTAGAAATGTGAAAAAGGTTCTAACTTAAACTTTAAATAT
21298975 GTTATTCGAG
Statistics
Matches: 243, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
259 243 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (259 bp):
TGTCATAAGGTGAATAAAAATATTTTTCCCTTAAAGTTTTAGTTCTACATTTACTTTTTTACTTT
ATAGTTTACTTTAAAGATACGATCAGAATAATTATTCAAATCTCAGATCAAACAAAACAATTAGA
TTGGCTTATTGAATTTAATAAATTGACTTAAGAATCTCTTAAATTAACTTGAAAATCTAATTGAA
TGATTTAAAGTATCAGCTCAGTTTAGAAATGTGAAAAAGGTTCTAACTTAAACTTTAAATATTA
Found at i:21299354 original size:10 final size:10
Alignment explanation
Indices: 21299341--21299574 Score: 52
Period size: 10 Copynumber: 22.9 Consensus size: 10
21299331 GAAAAACTCA
21299341 AAAAAAATTT
1 AAAAAAATTT
21299351 AAAAGAAATCTT
1 AAAA-AAAT-TT
*
21299363 -AAAAAATCT
1 AAAAAAATTT
*
21299372 -AAAACA-TT
1 AAAAAAATTT
*
21299380 ATAACAAA-TT
1 A-AAAAAATTT
*
21299390 CAAAAAATTT
1 AAAAAAATTT
* * *
21299400 TAAAAAGTTC
1 AAAAAAATTT
21299410 AAAAAAA-TT
1 AAAAAAATTT
* *
21299419 AAAAACATAT
1 AAAAAAATTT
*
21299429 AAGAAAATTT
1 AAAAAAATTT
* *
21299439 TAAGAAATTCT
1 AAAAAAATT-T
* *
21299450 AAAATGATTTT
1 AAAA-AAATTT
***
21299461 ATAAATTTTTT
1 A-AAAAAATTT
* *
21299472 TATAAAATTT
1 AAAAAAATTT
*
21299482 TAAAAAATTCAAAT
1 AAAAAAATT----T
21299496 AAAAAACA-TT
1 AAAAAA-ATTT
21299506 -AAAAAATTT
1 AAAAAAATTT
**
21299515 TCAAAAATTT
1 AAAAAAATTT
**
21299525 TTAAAAATTCT
1 AAAAAAATT-T
21299536 -AAAAAATTT
1 AAAAAAATTT
*
21299545 TAAAAAATTT
1 AAAAAAATTT
* *
21299555 TAAAAAATTC
1 AAAAAAATTT
21299565 AAAAATAATT
1 AAAAA-AATT
21299575 AAGGAAACTT
Statistics
Matches: 166, Mismatches: 39, Indels: 37
0.69 0.16 0.15
Matches are distributed among these distances:
8 2 0.01
9 26 0.16
10 101 0.61
11 21 0.13
12 8 0.05
14 7 0.04
15 1 0.01
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAAAAATTT
Found at i:21299394 original size:19 final size:19
Alignment explanation
Indices: 21299372--21299415 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
21299362 TAAAAAATCT
*
21299372 AAAACATTATAACAAA-TTC
1 AAAAAATTATAA-AAAGTTC
*
21299391 AAAAAATTTTAAAAAGTTC
1 AAAAAATTATAAAAAGTTC
21299410 AAAAAA
1 AAAAAA
21299416 ATTAAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAAAATTATAAAAAGTTC
Found at i:21299530 original size:20 final size:20
Alignment explanation
Indices: 21299342--21299563 Score: 121
Period size: 20 Copynumber: 10.9 Consensus size: 20
21299332 AAAAACTCAA
* *
21299342 AAAAAATTTAAAAGAAATCTT
1 AAAAAATTTTAAA-AAATTTT
* * *
21299363 AAAAAA-TCTAAAACATTAT
1 AAAAAATTTTAAAAAATTTT
* *
21299382 AACAAA-TTCAAAAAATTTT
1 AAAAAATTTTAAAAAATTTT
* * *
21299401 -AAAAAGTTCAAAAAA-ATT
1 AAAAAATTTTAAAAAATTTT
*
21299419 AAAAACA-TATAAGAAAATTTT
1 AAAAA-ATTTTAA-AAAATTTT
* * *
21299440 AAGAAATTCTAAAATGATTTT
1 AAAAAATTTTAAAA-AATTTT
** *
21299461 ATAAATTTTTTTATAAAATTTT
1 A-AAA-AATTTTAAAAAATTTT
* **
21299483 AAAAAATTCAAATAAAAAACATT
1 AAAAAATT---TTAAAAAATTTT
*
21299506 AAAAAATTTTCAAAAATTTT
1 AAAAAATTTTAAAAAATTTT
* *
21299526 TAAAAATTCTAAAAAATTTT
1 AAAAAATTTTAAAAAATTTT
21299546 AAAAAATTTTAAAAAATT
1 AAAAAATTTTAAAAAATT
21299564 CAAAAATAAT
Statistics
Matches: 150, Mismatches: 39, Indels: 25
0.70 0.18 0.12
Matches are distributed among these distances:
18 6 0.04
19 34 0.23
20 55 0.37
21 25 0.17
22 8 0.05
23 22 0.15
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAAATTTTAAAAAATTTT
Found at i:21299539 original size:30 final size:30
Alignment explanation
Indices: 21299343--21299563 Score: 99
Period size: 30 Copynumber: 7.2 Consensus size: 30
21299333 AAAACTCAAA
* *
21299343 AAAAATTTAAAAGAAATCTTAAAAAA-TCTA
1 AAAAATTTTAAA-AAATTTTAAAAAATTCTA
* * * * *
21299373 AAACATTATAACAAA-TTCAAAAAATT-TT
1 AAAAATTTTAAAAAATTTTAAAAAATTCTA
* * * * * *
21299401 AAAAAGTTCAAAAAAATTAAAAACA-TATA
1 AAAAATTTTAAAAAATTTTAAAAAATTCTA
* * * *
21299430 AGAAAATTTTAAGAAATTCTAAAATGATTTTA
1 A-AAAATTTTAAAAAATTTTAAAA-AATTCTA
** *
21299462 TAAATTTTTTTATAAAATTTTAAAAAATTCAAATA
1 -AAA-AATTTTAAAAAATTTTAAAAAATTC---TA
** * * *
21299497 AAAAACATTAAAAAATTTTCAAAAATTTTT
1 AAAAATTTTAAAAAATTTTAAAAAATTCTA
* *
21299527 AAAAATTCTAAAAAATTTTAAAAAATTTTA
1 AAAAATTTTAAAAAATTTTAAAAAATTCTA
21299557 AAAAATT
1 AAAAATT
21299564 CAAAAATAAT
Statistics
Matches: 137, Mismatches: 43, Indels: 22
0.68 0.21 0.11
Matches are distributed among these distances:
28 19 0.14
29 13 0.09
30 57 0.42
31 1 0.01
32 8 0.06
33 34 0.25
34 3 0.02
35 2 0.01
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.34
Consensus pattern (30 bp):
AAAAATTTTAAAAAATTTTAAAAAATTCTA
Found at i:21299680 original size:10 final size:9
Alignment explanation
Indices: 21299655--21300136 Score: 131
Period size: 9 Copynumber: 50.8 Consensus size: 9
21299645 TAATTTTTTT
21299655 ATTTTTAAA
1 ATTTTTAAA
21299664 ATATTTTCAAA
1 AT-TTTT-AAA
21299675 ATTTTTAAA
1 ATTTTTAAA
* *
21299684 AGTTTTCAA
1 ATTTTTAAA
* * *
21299693 ATTATGATA
1 ATTTTTAAA
*
21299702 A-TTTTAGA
1 ATTTTTAAA
*
21299710 ATTTATAAA
1 ATTTTTAAA
* * * *
21299719 AATATTCAT
1 ATTTTTAAA
21299728 A-TTTT-AA
1 ATTTTTAAA
21299735 ATTTTTATAA
1 ATTTTTA-AA
***
21299745 ATTAAAAAA
1 ATTTTTAAA
* *
21299754 AATTAT-AA
1 ATTTTTAAA
*
21299762 ATTTTTATA
1 ATTTTTAAA
21299771 A-TTTTAACA
1 ATTTTTAA-A
*
21299780 ATTTTTAGA
1 ATTTTTAAA
* *
21299789 TTTTTTAGA
1 ATTTTTAAA
21299798 ATGTTTTAAA
1 AT-TTTTAAA
21299808 ATTTTTAAA
1 ATTTTTAAA
*
21299817 TTTTTTGAGAA
1 ATTTTT-A-AA
21299828 ATTTTTATAAAA
1 A-TTTT-T-AAA
*
21299840 ATTTTGAAA
1 ATTTTTAAA
**
21299849 A--TAAAAA
1 ATTTTTAAA
21299856 ATTTTTATATAAA
1 A--TTT-T-TAAA
*
21299869 ATTTTT-GA
1 ATTTTTAAA
*
21299877 ATTTTAAAA
1 ATTTTTAAA
* *
21299886 AGTTTTAGTAT
1 ATTTTTA--AA
*
21299897 TTTTTTAATA
1 ATTTTTAA-A
*
21299907 ATTTTTTTAA
1 A-TTTTTAAA
21299917 A---TTAAA
1 ATTTTTAAA
*
21299923 TTTTTTTATAA
1 -ATTTTTA-AA
21299934 ATTTTTATAA
1 ATTTTTA-AA
*
21299944 ATTTTAAAA
1 ATTTTTAAA
21299953 CATTTTTATAA
1 -ATTTTTA-AA
*
21299964 TTTTTTAAA
1 ATTTTTAAA
*
21299973 ATTCTTTTGAAT
1 A-T-TTTT-AAA
* *
21299985 TTTTTTTAA
1 ATTTTTAAA
* *
21299994 GTTTGTAAA
1 ATTTTTAAA
21300003 ATTTTGTTAAA
1 A-TTT-TTAAA
* *
21300014 GTTTTTAAC
1 ATTTTTAAA
21300023 ATTTTTAGAAA
1 ATTTTT--AAA
* *
21300034 AATTTTATA
1 ATTTTTAAA
21300043 ATTTTTAGAA
1 ATTTTTA-AA
*
21300053 TTTTTTAAA
1 ATTTTTAAA
21300062 CATATTTTGAAA
1 -AT-TTTT-AAA
*
21300074 ATTATTAAA
1 ATTTTTAAA
*
21300083 AATTTTAAA
1 ATTTTTAAA
**
21300092 ATTTTTTTA
1 ATTTTTAAA
21300101 ATGTTTTAAA
1 AT-TTTTAAA
21300111 ATTTTTAGAA
1 ATTTTTA-AA
21300121 ATTTTTAAA
1 ATTTTTAAA
*
21300130 AGTTTTA
1 ATTTTTA
21300137 GAAAAATTTT
Statistics
Matches: 341, Mismatches: 87, Indels: 90
0.66 0.17 0.17
Matches are distributed among these distances:
6 4 0.01
7 7 0.02
8 29 0.09
9 131 0.38
10 99 0.29
11 53 0.16
12 12 0.04
13 6 0.02
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:21299834 original size:29 final size:29
Alignment explanation
Indices: 21299772--21299827 Score: 87
Period size: 28 Copynumber: 1.9 Consensus size: 29
21299762 ATTTTTATAA
*
21299772 TTTTAACAATTTTTAGATTTTTTAGAATG
1 TTTTAACAATTTTTAAATTTTTTAGAATG
21299801 TTTTAA-AATTTTTAAATTTTTTGAGAA
1 TTTTAACAATTTTTAAATTTTTT-AGAA
21299828 ATTTTTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (29 bp):
TTTTAACAATTTTTAAATTTTTTAGAATG
Found at i:21299892 original size:30 final size:30
Alignment explanation
Indices: 21299829--21299892 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
21299819 TTTTGAGAAA
*
21299829 TTTT-TATAAAAATTTTGAAAATAAAAAAT
1 TTTTATATAAAAATTTTGAAAATAAAAAAG
* ** *
21299858 TTTTATATAAAATTTTTGAATTTTAAAAAG
1 TTTTATATAAAAATTTTGAAAATAAAAAAG
21299888 TTTTA
1 TTTTA
21299893 GTATTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 4 0.14
30 25 0.86
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (30 bp):
TTTTATATAAAAATTTTGAAAATAAAAAAG
Found at i:21299911 original size:67 final size:65
Alignment explanation
Indices: 21299828--21299975 Score: 147
Period size: 67 Copynumber: 2.2 Consensus size: 65
21299818 TTTTTGAGAA
* *
21299828 ATTTTTATAAAAATTTTGAAAATAAAAAATTTTTATATAAAATTTT-TGAATTTTAAAA-AGTTT
1 ATTTTT-TTAAAATTTTGAAAAT--AAAATTTTTATATAAAATTTTATAAATTTTAAAACAGTTT
21299891 TAGT
63 TA-T
** * * * *
21299895 ATTTTTTTAATAATTTTTTTAAATTAAATTTTTTTATAAATTTTTATAAATTTTAAAACATTTTT
1 ATTTTTTTAA-AA-TTTTGAAAATAAAATTTTTATATAAAATTTTATAAATTTTAAAACAGTTTT
21299960 AT
64 AT
*
21299962 AATTTTTTAAAATT
1 ATTTTTTTAAAATT
21299976 CTTTTGAATT
Statistics
Matches: 68, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
65 2 0.03
66 23 0.34
67 29 0.43
68 14 0.21
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (65 bp):
ATTTTTTTAAAATTTTGAAAATAAAATTTTTATATAAAATTTTATAAATTTTAAAACAGTTTTAT
Found at i:21300048 original size:9 final size:9
Alignment explanation
Indices: 21299925--21300136 Score: 118
Period size: 10 Copynumber: 21.7 Consensus size: 9
21299915 AAATTAAATT
21299925 TTTTTATAAA
1 TTTTTA-AAA
21299935 TTTTTATAAA
1 TTTTTA-AAA
*
21299945 TTTTAAAACA
1 TTTTTAAA-A
*
21299955 TTTTTATAAT
1 TTTTTA-AAA
21299965 TTTTTAAAA
1 TTTTTAAAA
**
21299974 TTCTTTTGAATT
1 -T-TTTT-AAAA
* *
21299986 TTTTTTAAG
1 TTTTTAAAA
*
21299995 TTTGTAAAA
1 TTTTTAAAA
*
21300004 TTTTGTTAAAG
1 -TTT-TTAAAA
*
21300015 TTTTTAACA
1 TTTTTAAAA
21300024 TTTTTAGAAAA
1 TTTTT--AAAA
* *
21300035 ATTTTATAA
1 TTTTTAAAA
*
21300044 TTTTTAGAAT
1 TTTTTA-AAA
21300054 TTTTTAAACA
1 TTTTTAAA-A
21300064 TATTTTGAAAA
1 T-TTTT-AAAA
*
21300075 TTATTAAAA
1 TTTTTAAAA
*
21300084 ATTTTAAAA
1 TTTTTAAAA
**
21300093 TTTTTTTAA
1 TTTTTAAAA
21300102 TGTTTTAAAA
1 T-TTTTAAAA
21300112 TTTTTAGAAA
1 TTTTTA-AAA
21300122 TTTTTAAAA
1 TTTTTAAAA
*
21300131 GTTTTA
1 TTTTTA
21300137 GAAAAATTTT
Statistics
Matches: 155, Mismatches: 32, Indels: 31
0.71 0.15 0.14
Matches are distributed among these distances:
9 61 0.39
10 65 0.42
11 24 0.15
12 5 0.03
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:21300135 original size:20 final size:18
Alignment explanation
Indices: 21299655--21300136 Score: 131
Period size: 19 Copynumber: 25.4 Consensus size: 18
21299645 TAATTTTTTT
21299655 ATTTTTAAAATATTTTCAAA
1 ATTTTTAAAAT-TTTT-AAA
* *
21299675 ATTTTTAAAAGTTTTCAA
1 ATTTTTAAAATTTTTAAA
* * * *
21299693 ATTATGATAA-TTTTAGA
1 ATTTTTAAAATTTTTAAA
* * * * *
21299710 ATTTATAAAAATATTCAT
1 ATTTTTAAAATTTTTAAA
21299728 A-TTTT-AAATTTTTATAA
1 ATTTTTAAAATTTTTA-AA
*** * *
21299745 ATTAAAAAAAATTAT-AA
1 ATTTTTAAAATTTTTAAA
*
21299762 ATTTTTATAA-TTTTAACA
1 ATTTTTAAAATTTTTAA-A
* * *
21299780 ATTTTTAGATTTTTTAGA
1 ATTTTTAAAATTTTTAAA
21299798 ATGTTTTAAAATTTTTAAA
1 AT-TTTTAAAATTTTTAAA
*
21299817 TTTTTTGAGAAATTTTTATAAAA
1 ATTTTT-A-AAA-TTTT-T-AAA
* **
21299840 ATTTTGAAAA--TAAAAA
1 ATTTTTAAAATTTTTAAA
*
21299856 ATTTTTATATAAAATTTTT-GA
1 A--TTT-T-TAAAATTTTTAAA
* * *
21299877 ATTTTAAAAAGTTTTAGTAT
1 ATTTTTAAAATTTTTA--AA
* *
21299897 TTTTTTAATAATTTTTTTAA
1 ATTTTTAA-AA-TTTTTAAA
*
21299917 A---TTAAATTTTTTTATAA
1 ATTTTTAAA-ATTTTTA-AA
*
21299934 ATTTTTATAAATTTTAAAA
1 ATTTTTA-AAATTTTTAAA
*
21299953 CATTTTTATAATTTTTTAAA
1 -ATTTTTA-AAATTTTTAAA
** *
21299973 ATTCTTTTGAATTTTTTTTAA
1 A-T-TTTT-AAAATTTTTAAA
* *
21299994 GTTTGTAAAATTTTGTTAAA
1 ATTTTTAAAA-TTT-TTAAA
* *
21300014 GTTTTTAACATTTTTAGAAA
1 ATTTTTAAAATTTTT--AAA
* *
21300034 AATTTTATAATTTTTAGAA
1 ATTTTTAAAATTTTTA-AA
*
21300053 TTTTTTAAACATATTTTGAAA
1 ATTTTTAAA-AT-TTTT-AAA
* *
21300074 ATTATTAAAAATTTTAAA
1 ATTTTTAAAATTTTTAAA
**
21300092 ATTTTTTTAATGTTTTAAA
1 ATTTTTAAAAT-TTTTAAA
21300111 ATTTTTAGAAATTTTTAAA
1 ATTTTTA-AAATTTTTAAA
*
21300130 AGTTTTA
1 ATTTTTA
21300137 GAAAAATTTT
Statistics
Matches: 331, Mismatches: 87, Indels: 89
0.65 0.17 0.18
Matches are distributed among these distances:
16 19 0.06
17 40 0.12
18 50 0.15
19 84 0.25
20 83 0.25
21 39 0.12
22 9 0.03
23 7 0.02
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (18 bp):
ATTTTTAAAATTTTTAAA
Found at i:21300136 original size:19 final size:19
Alignment explanation
Indices: 21300104--21300140 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
21300094 TTTTTTAATG
*
21300104 TTTTAAAATTTTTAGAAAT
1 TTTTAAAAGTTTTAGAAAT
21300123 TTTTAAAAGTTTTAGAAA
1 TTTTAAAAGTTTTAGAAA
21300141 AATTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (19 bp):
TTTTAAAAGTTTTAGAAAT
Found at i:21301138 original size:269 final size:270
Alignment explanation
Indices: 21300637--21301158 Score: 670
Period size: 269 Copynumber: 1.9 Consensus size: 270
21300627 TCGTGAGGCT
* *
21300637 TCTACCTATATGAGTACCAGGTTGCCTTTCCTTCTATTGTTATATCAAACTCTTTTATTGTAAAA
1 TCTACCTATATAAGTACCAGGTTACCTTTCCTTCTATTGTTATATCAAACTCTTTTATTGTAAAA
* * * * * ** ** *
21300702 ATTAGCTACTTTCTGTTGATAGGTTGTTATTCGGGTCAAAACTATATCTTTTTATTCTTCAGTCA
66 ATTAACTACTTTATGCTAATAGGCTACTATTCGAATCAAAACTATATCTCTTTATTCTTCAGTCA
* * ** *
21300767 AATCCAAATTAGCCCTAGTGGCCTCATCGTTCTTCTTTTCAATCCGAGCTCAACTTGTAGGCCTG
131 AATCCAAATTAGACCTAATGGCCTCATCGTTCCCCTTTTCAATCCGAGCTCAACTTATAGGCCTG
* * * * *
21300832 GAAAGCCAATCTTCATAGGTATTATGACTTGTATCCTAAATGCTAGATGAAATAGCATCTCTTCC
196 GAAAGCCAATCTTCATAGGCACTATAACCTCTATCCTAAATGCTAGATGAAATAGCATCTCTTCC
21300897 GAAAAAAAGC
261 GAAAAAAAGC
** * *
21300907 TCTACCTAT-TAAGTACCAGGTTACCTTTTTTTTTATTTTTATATCAAACTCTTTTATTGTAAAA
1 TCTACCTATATAAGTACCAGGTTACCTTTCCTTCTATTGTTATATCAAACTCTTTTATTGTAAAA
** * *
21300971 ATTAACTACTTTATGCTAATAGGCTACTATTTTAATCAAAGCTATATCTCTTTGTTCTTCAGTCA
66 ATTAACTACTTTATGCTAATAGGCTACTATTCGAATCAAAACTATATCTCTTTATTCTTCAGTCA
* *
21301036 AATCCAAATTAGACCTAATGGCCTCCTCGTTCCCCTTTTCACAT-CGAGCTCAACTTATAGGCTT
131 AATCCAAATTAGACCTAATGGCCTCATCGTTCCCCTTTTCA-ATCCGAGCTCAACTTATAGGCCT
* * * * * * *
21301100 GGGAGGTCGATCTTCATGGGCACTATAACCTCTATCCTAAATGTTAGATGAAATGGCAT
195 GGAAAGCCAATCTTCATAGGCACTATAACCTCTATCCTAAATGCTAGATGAAATAGCAT
21301159 ATTTCTTATA
Statistics
Matches: 212, Mismatches: 39, Indels: 3
0.83 0.15 0.01
Matches are distributed among these distances:
269 201 0.95
270 11 0.05
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (270 bp):
TCTACCTATATAAGTACCAGGTTACCTTTCCTTCTATTGTTATATCAAACTCTTTTATTGTAAAA
ATTAACTACTTTATGCTAATAGGCTACTATTCGAATCAAAACTATATCTCTTTATTCTTCAGTCA
AATCCAAATTAGACCTAATGGCCTCATCGTTCCCCTTTTCAATCCGAGCTCAACTTATAGGCCTG
GAAAGCCAATCTTCATAGGCACTATAACCTCTATCCTAAATGCTAGATGAAATAGCATCTCTTCC
GAAAAAAAGC
Found at i:21308544 original size:27 final size:27
Alignment explanation
Indices: 21308509--21308562 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
21308499 CTTAATTTTA
*
21308509 AAAGGCCAATCTAACTGCATTT-GACTT
1 AAAGCCCAATCTAACT-CATTTCGACTT
* *
21308536 AAAGCCCAATTTAAGTCATTTCGACTT
1 AAAGCCCAATCTAACTCATTTCGACTT
21308563 GAGAATCCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.31
Consensus pattern (27 bp):
AAAGCCCAATCTAACTCATTTCGACTT
Found at i:21312043 original size:13 final size:13
Alignment explanation
Indices: 21312008--21312045 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
21311998 CTGTTTGATT
21312008 TTTTTGTTATTTA
1 TTTTTGTTATTTA
*
21312021 TATATT-TTATTTA
1 T-TTTTGTTATTTA
21312034 TTTTTGTTATTT
1 TTTTTGTTATTT
21312046 TTAATTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 3 0.14
13 15 0.71
14 3 0.14
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (13 bp):
TTTTTGTTATTTA
Found at i:21312230 original size:6 final size:6
Alignment explanation
Indices: 21312219--21312247 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
21312209 AAACATAAAA
21312219 AAAATT AAAATT AAAATT AAAATT AAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAAT
21312248 AATTACCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:21313475 original size:14 final size:14
Alignment explanation
Indices: 21313456--21313500 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
21313446 TTTGGGGAAG
21313456 AAGAAAAAAAAAGA
1 AAGAAAAAAAAAGA
21313470 AAGAAAAAAAAAGGA
1 AAGAAAAAAAAA-GA
*
21313485 AA-AATAGAAAAAGA
1 AAGAA-AAAAAAAGA
21313499 AA
1 AA
21313501 AGATAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (14 bp):
AAGAAAAAAAAAGA
Found at i:21314057 original size:52 final size:50
Alignment explanation
Indices: 21313963--21314088 Score: 146
Period size: 52 Copynumber: 2.5 Consensus size: 50
21313953 ACTCCACCAT
* * * *
21313963 TTTTAAAAATGAACTAAAATGAAAGCTCCTCTTATTAAAGGC-TCTAGAAGC
1 TTTTAAAAATGAATTAAAATGAAAGCTCCGCTCATCAAAGGCTTC-AGAA-C
* * *
21314014 ATTTTAAAATTGAATTAAAATGAAAGCTCCGCTCATCATAGGCTTCATAAC
1 -TTTTAAAAATGAATTAAAATGAAAGCTCCGCTCATCAAAGGCTTCAGAAC
*
21314065 TTTTAAAAATGAATGAAAATGAAA
1 TTTTAAAAATGAATTAAAATGAAA
21314089 ATTCTTCTCA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
50 22 0.34
51 1 0.02
52 39 0.61
53 2 0.03
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (50 bp):
TTTTAAAAATGAATTAAAATGAAAGCTCCGCTCATCAAAGGCTTCAGAAC
Found at i:21314263 original size:49 final size:49
Alignment explanation
Indices: 21314206--21314302 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 49
21314196 TAAATAGAAG
* *
21314206 CTAAAAAACTAATCTTAAATAGAGGCTAAATAACTTTAAAAATCTCATC
1 CTAAAAAACTAATCATAAATAGAGGCTAAACAACTTTAAAAATCTCATC
** * *
21314255 CTAAAAAACTCTTCATAAATAGAGGCTAAGCAATTTTAAAAATCTCAT
1 CTAAAAAACTAATCATAAATAGAGGCTAAACAACTTTAAAAATCTCAT
21314303 TTTGGGAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.29
Consensus pattern (49 bp):
CTAAAAAACTAATCATAAATAGAGGCTAAACAACTTTAAAAATCTCATC
Found at i:21314283 original size:25 final size:24
Alignment explanation
Indices: 21314195--21314283 Score: 63
Period size: 25 Copynumber: 3.6 Consensus size: 24
21314185 AAAGCTTTTT
* *
21314195 ATAAATAGAAGCTAAAAAACTAATC
1 ATAAATAGAGGCTAAAAAACT-TTC
* *
21314220 TTAAATAGAGGCTAAATAACTTT-
1 ATAAATAGAGGCTAAAAAACTTTC
* ** **
21314243 AAAAATCTCATCCTAAAAAACTCTTC
1 ATAAAT-AGAGGCTAAAAAACT-TTC
21314269 ATAAATAGAGGCTAA
1 ATAAATAGAGGCTAA
21314284 GCAATTTTAA
Statistics
Matches: 45, Mismatches: 16, Indels: 6
0.67 0.24 0.09
Matches are distributed among these distances:
23 4 0.09
24 11 0.24
25 25 0.56
26 5 0.11
ACGTcount: A:0.51, C:0.15, G:0.09, T:0.26
Consensus pattern (24 bp):
ATAAATAGAGGCTAAAAAACTTTC
Found at i:21314587 original size:18 final size:18
Alignment explanation
Indices: 21314560--21314599 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
21314550 TGCTGAGTAT
21314560 ATGCAATAGATACGATGA
1 ATGCAATAGATACGATGA
* *
21314578 ATGCAGTAGATACGATGC
1 ATGCAATAGATACGATGA
21314596 ATGC
1 ATGC
21314600 CATGTGGTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (18 bp):
ATGCAATAGATACGATGA
Found at i:21319928 original size:25 final size:25
Alignment explanation
Indices: 21319878--21319940 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
21319868 GAATTAGTTT
*
21319878 TATTATATATAATTAATTATTAATTA
1 TATTATAT-TAATAAATTATTAATTA
21319904 TATTATATTAATAACATTATT-ATTA
1 TATTATATTAATAA-ATTATTAATTA
*
21319929 TCTTATATTAAT
1 TATTATATTAAT
21319941 CAATCATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 20 0.59
26 14 0.41
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (25 bp):
TATTATATTAATAAATTATTAATTA
Found at i:21321339 original size:24 final size:25
Alignment explanation
Indices: 21321289--21321344 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
21321279 AATGTTTTTA
*
21321289 TTTTATTAAAAATTAAAAAGATGAAT
1 TTTTA-TAAAAATTAAAAAGATAAAT
21321315 TTTTATAAAAGA-TAAAAA-ATAAAT
1 TTTTATAAAA-ATTAAAAAGATAAAT
*
21321339 TATTAT
1 TTTTAT
21321345 TTAAATAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 10 0.37
25 11 0.41
26 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (25 bp):
TTTTATAAAAATTAAAAAGATAAAT
Found at i:21323880 original size:14 final size:13
Alignment explanation
Indices: 21323851--21323882 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
21323841 ATACTTAAAA
*
21323851 TTTTTAATTACAT
1 TTTTTAAATACAT
21323864 TTTTTAAATACAT
1 TTTTTAAATACAT
21323877 TTTTTA
1 TTTTTA
21323883 TACGTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTTAAATACAT
Found at i:21323885 original size:11 final size:12
Alignment explanation
Indices: 21323851--21323892 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
21323841 ATACTTAAAA
21323851 TTTTTAATTACAT
1 TTTTTAA-TACAT
21323864 TTTTTAAATACAT
1 TTTTT-AATACAT
*
21323877 TTTTT-ATACGT
1 TTTTTAATACAT
21323888 TTTTT
1 TTTTT
21323893 TTTTCAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 10 0.37
13 15 0.56
14 2 0.07
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.64
Consensus pattern (12 bp):
TTTTTAATACAT
Found at i:21324455 original size:2 final size:2
Alignment explanation
Indices: 21324450--21324480 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
21324440 TATATATATA
21324450 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
21324481 CTAATTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:21325909 original size:17 final size:16
Alignment explanation
Indices: 21325868--21325913 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
21325858 TTTATTTTGT
21325868 AAGGATTTTTATTTTAA
1 AAGGATTTTT-TTTTAA
**
21325885 AAAAATTTTTTTATTAA
1 AAGGATTTTTTT-TTAA
21325902 AAGGATTTTTTT
1 AAGGATTTTTTT
21325914 GTTTTTATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 2 0.08
17 22 0.92
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (16 bp):
AAGGATTTTTTTTTAA
Found at i:21326087 original size:32 final size:31
Alignment explanation
Indices: 21326051--21326110 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
21326041 TAAAAACCAG
*
21326051 TAAAATA-GAATAACAATTTGAAAATAAAATCT
1 TAAAATATGAA-AACAA-ATGAAAATAAAATCT
*
21326083 TAAAATATGAAAATAAATGAAAATAAAA
1 TAAAATATGAAAACAAATGAAAATAAAA
21326111 AATAAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 11 0.44
32 11 0.44
33 3 0.12
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (31 bp):
TAAAATATGAAAACAAATGAAAATAAAATCT
Found at i:21326129 original size:17 final size:17
Alignment explanation
Indices: 21326092--21326129 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
21326082 TTAAAATATG
*
21326092 AAAATAAATGAAAATAA
1 AAAATAAATGAAAAAAA
21326109 AAAATAAAAT-AAAAAAA
1 AAAAT-AAATGAAAAAAA
21326126 AAAA
1 AAAA
21326130 AACCTTGCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (17 bp):
AAAATAAATGAAAAAAA
Found at i:21326932 original size:3 final size:3
Alignment explanation
Indices: 21326926--21327053 Score: 153
Period size: 3 Copynumber: 44.3 Consensus size: 3
21326916 AAAGGAAGAA
21326926 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
21326974 AAT AAT -AT GAT -AT AAC ACCAT -AT AAT -AT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT AAT
* *
21327016 AAT AAT AAT AAT GAT -AT AGT AAT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
21327054 TAGTATAACA
Statistics
Matches: 111, Mismatches: 5, Indels: 18
0.83 0.04 0.13
Matches are distributed among these distances:
2 14 0.13
3 96 0.86
5 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:21327204 original size:3 final size:3
Alignment explanation
Indices: 21327198--21327366 Score: 219
Period size: 3 Copynumber: 58.3 Consensus size: 3
21327188 AAAGGAAGAA
21327198 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
21327245 AAT AAT AAT AAT -AT AAT AAC AAT AAT AAT AAT AAT -AT GAT -AT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
21327290 ACCAT -AT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 A--AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
21327335 AAT AAT GAT -AT AGT AAT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
21327367 TAGTATAACA
Statistics
Matches: 149, Mismatches: 7, Indels: 20
0.85 0.04 0.11
Matches are distributed among these distances:
2 16 0.11
3 132 0.89
5 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:21327388 original size:9 final size:9
Alignment explanation
Indices: 21327196--21327388 Score: 91
Period size: 9 Copynumber: 20.3 Consensus size: 9
21327186 AAAAAGGAAG
21327196 AAAATAATA
1 AAAATAATA
*
21327205 ATAATAATA
1 AAAATAATA
*
21327214 ATAATAATA
1 AAAATAATA
*
21327223 ATAATAATA
1 AAAATAATA
21327232 ATAATATAATA
1 A-AA-ATAATA
*
21327243 ATAATAATA
1 AAAATAATA
21327252 ATAATATAATA
1 A-AA-ATAATA
*
21327263 ACAATAATA
1 AAAATAATA
*
21327272 ATAATAATA
1 AAAATAATA
* * *
21327281 TGATATAACA
1 -AAAATAATA
* *
21327291 CCATATAATA
1 -AAAATAATA
21327301 TAATAATAATA
1 -AA-AATAATA
*
21327312 ATAATAATA
1 AAAATAATA
*
21327321 ATAATAATA
1 AAAATAATA
*
21327330 ATAATAATA
1 AAAATAATA
* *
21327339 ATGATATAGTA
1 A--AAATAATA
*
21327350 ATAATAAT-
1 AAAATAATA
*
21327358 AATATAATA
1 AAAATAATA
** *
21327367 TAGTATAACA
1 -AAAATAATA
21327377 AAAATAATA
1 AAAATAATA
21327386 AAA
1 AAA
21327389 CATGGTCCAA
Statistics
Matches: 144, Mismatches: 30, Indels: 20
0.74 0.15 0.10
Matches are distributed among these distances:
8 6 0.04
9 87 0.60
10 25 0.17
11 26 0.18
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAATAATA
Found at i:21328207 original size:11 final size:11
Alignment explanation
Indices: 21328191--21328242 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
21328181 ATAACACCAT
21328191 ATAATATACTA
1 ATAATATACTA
*
21328202 ATAATATAATA
1 ATAATATACTA
* *
21328213 ATGATATAGTA
1 ATAATATACTA
21328224 ATAATAATACT-
1 ATAAT-ATACTA
21328235 ATAATATA
1 ATAATATA
21328243 ATATAACAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
10 3 0.09
11 28 0.80
12 4 0.11
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (11 bp):
ATAATATACTA
Found at i:21328296 original size:21 final size:22
Alignment explanation
Indices: 21328272--21328321 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
21328262 ACACGGTCTA
21328272 ATTGACCCT-GGACACGGTTCG
1 ATTGACCCTCGGACACGGTTCG
***
21328293 ATTGA-CCTCGGATTGGGTTCG
1 ATTGACCCTCGGACACGGTTCG
21328314 ATTGACCC
1 ATTGACCC
21328322 CGAACACAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 19 0.79
22 2 0.08
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (22 bp):
ATTGACCCTCGGACACGGTTCG
Found at i:21333273 original size:40 final size:41
Alignment explanation
Indices: 21333192--21333273 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
21333182 AGTTTAAGTT
21333192 TGAAAGTACGATTATACGTGAAAAAAGTTATAACACCCCTA
1 TGAAAGTACGATTATACGTGAAAAAAGTTATAACACCCCTA
* * * *
21333233 TGAAAGTATGATTATACGTG-AGAATGTTATAACATCCCTA
1 TGAAAGTACGATTATACGTGAAAAAAGTTATAACACCCCTA
21333273 T
1 T
21333274 AACGCCCATC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 18 0.49
41 19 0.51
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (41 bp):
TGAAAGTACGATTATACGTGAAAAAAGTTATAACACCCCTA
Found at i:21333913 original size:20 final size:18
Alignment explanation
Indices: 21333879--21333915 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
21333869 TATTTGAAAA
21333879 GTTTTTTTTTTTGTTTTT
1 GTTTTTTTTTTTGTTTTT
21333897 GTTTTTGTTTATTTGTTTT
1 GTTTTT-TTT-TTTGTTTT
21333916 CCAAAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 8 0.47
ACGTcount: A:0.03, C:0.00, G:0.14, T:0.84
Consensus pattern (18 bp):
GTTTTTTTTTTTGTTTTT
Found at i:21334846 original size:3 final size:3
Alignment explanation
Indices: 21334840--21334884 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
21334830 TTAAGAAAAA
* *
21334840 AAT AAT AA- AAT AAT AAT AAT AAT AAT -AT AAT GAT -AT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
21334885 GATACTGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
2 6 0.17
3 30 0.83
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:21338672 original size:3 final size:3
Alignment explanation
Indices: 21338664--21338707 Score: 79
Period size: 3 Copynumber: 14.3 Consensus size: 3
21338654 TTATTTCGAG
21338664 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT GTAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT T
21338708 TTGTCGGTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:21339420 original size:19 final size:20
Alignment explanation
Indices: 21339375--21339425 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
21339365 TTTTAAATCT
*
21339375 AAATAAAAAATATATGTTTA
1 AAATAAAAAATATATATTTA
***
21339395 CGTTAAAAAA-ATATATTTA
1 AAATAAAAAATATATATTTA
21339414 AAATAAAAAATA
1 AAATAAAAAATA
21339426 ATTATATATA
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (20 bp):
AAATAAAAAATATATATTTA
Found at i:21339451 original size:19 final size:18
Alignment explanation
Indices: 21339427--21339462 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
21339417 TAAAAAATAA
21339427 TTATATATATTTTATTATT
1 TTATATATATTTT-TTATT
21339446 TTATATATATTTTTTAT
1 TTATATATATTTTTTAT
21339463 ATTTCAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATATATATTTTTTATT
Done.