Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008803.1 Hibiscus syriacus cultivar Beakdansim tig00111954_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1826237
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 9
Found at i:463984 original size:31 final size:31
Alignment explanation
Indices: 463869--464051 Score: 72
Period size: 31 Copynumber: 5.9 Consensus size: 31
463859 TAGTTTATTA
*
463869 ATATAAACTATATATAAACTATATAGT-TTAT
1 ATATAAACTATATATAAACTATATA-TAGTAT
* * * * *
463900 ATTTATATTAT-TATATACTATATATA-AACT
1 ATATAAACTATATATAAACTATATATAGTA-T
* * * *
463930 ATATATATTATGTATAAACTATATATA-AACT
1 ATATAAACTATATATAAACTATATATAGTA-T
*** * * *
463961 ATATAGTGTATATATGAAGTATATATATTAT
1 ATATAAACTATATATAAACTATATATAGTAT
* **
463992 ATATATTAACTATATATATAAATTATATATTTTAT
1 ATATA--AAC--TATATATAAACTATATATAGTAT
* *
464027 ATATAAA-T-TATATGAATTATATATA
1 ATATAAACTATATATAAACTATATATA
464052 AACTATACAA
Statistics
Matches: 122, Mismatches: 22, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
29 17 0.14
30 24 0.20
31 53 0.43
32 1 0.01
33 2 0.02
35 25 0.20
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (31 bp):
ATATAAACTATATATAAACTATATATAGTAT
Found at i:464110 original size:20 final size:17
Alignment explanation
Indices: 464063--464116 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 17
464053 ACTATACAAC
* *
464063 TTATATTTATATATTAT
1 TTATAATTATAAATTAT
464080 TTATAATTATAAATTAT
1 TTATAATTATAAATTAT
464097 TTATACTATGTATAAATTAT
1 TTATA--AT-TATAAATTAT
464117 ATAGTTTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 20 0.62
19 2 0.06
20 10 0.31
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
TTATAATTATAAATTAT
Found at i:464130 original size:20 final size:19
Alignment explanation
Indices: 463949--464130 Score: 108
Period size: 20 Copynumber: 9.4 Consensus size: 19
463939 ATGTATAAAC
* *
463949 TATATATAAACTATATAGTG
1 TATATATAAATTATATA-TT
* *
463969 TATATATGAAGTATATATAT
1 TATATATAAATTATATAT-T
463989 TATATAT--ATTA-ACTA--
1 TATATATAAATTATA-TATT
464004 TATATATAAATTATATATTT
1 TATATATAAATTATATA-TT
*
464024 TATATATAAATTATATGAAT
1 TATATATAAATTATAT-ATT
* * *
464044 TATATATAAACTATACAACT
1 TATATATAAATTATA-TATT
* *
464064 TATATTTATA-TAT-TATT
1 TATATATAAATTATATATT
* *
464081 TATAATTATAAATTATTTATAC
1 TAT-A-TATAAATTATATAT-T
*
464103 TATGTATAAATTATATAGTT
1 TATATATAAATTATATA-TT
464123 TATATATA
1 TATATATA
464131 TAGTATGTAT
Statistics
Matches: 127, Mismatches: 19, Indels: 32
0.71 0.11 0.18
Matches are distributed among these distances:
15 7 0.06
17 12 0.09
18 7 0.06
19 8 0.06
20 85 0.67
21 5 0.04
22 3 0.02
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (19 bp):
TATATATAAATTATATATT
Found at i:464130 original size:79 final size:80
Alignment explanation
Indices: 463818--464118 Score: 194
Period size: 74 Copynumber: 4.0 Consensus size: 80
463808 ACAATTATAA
* * * * * *
463818 TATATATAAACTATATAA-TAATATAATATATATAAACTATATAGT-T-TATTAATATAAACTAT
1 TATATATAAACTATACAACTTATATTATATATATTAACTATATA-TATAAATT-ATATATACTAT
* *
463880 ATATAAACTATAT-AGT
64 ATATAAATTATATGAAT
* ** * *
463896 T-TATAT---TTATATTA-TTATA-TACTATATATAAACTATATATAT-TATGTATA-A-ACTAT
1 TATATATAAACTATACAACTTATATTA-TATATATTAACTATATATATAAAT-TATATATACTAT
* *
463952 ATATAAACTATAT-AGT
64 ATATAAATTATATGAAT
* * **
463968 GTATATATGAAGTAT---A--TATATTATATATATTAACTATATATATAAATTATATATTTTATA
1 -TATATATAAACTATACAACTTATATTATATATATTAACTATATATATAAATTATATATACTATA
464028 TATAAATTATATGAAT
65 TATAAATTATATGAAT
** * *
464044 TATATATAAACTATACAACTTATATT-TATATATTATTTATA-ATTATAAATTATTTATACTATG
1 TATATATAAACTATACAACTTATATTATATATATTAACTATATA-TATAAATTATATATACTATA
464107 TATAAATTATAT
65 TATAAATTATAT
464119 AGTTTATATA
Statistics
Matches: 185, Mismatches: 19, Indels: 37
0.77 0.08 0.15
Matches are distributed among these distances:
72 21 0.11
73 31 0.17
74 45 0.24
75 28 0.15
76 2 0.01
77 8 0.04
78 3 0.02
79 41 0.22
80 6 0.03
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (80 bp):
TATATATAAACTATACAACTTATATTATATATATTAACTATATATATAAATTATATATACTATAT
ATAAATTATATGAAT
Found at i:465499 original size:17 final size:18
Alignment explanation
Indices: 465475--465516 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
465465 TGGCTATTGA
*
465475 TGCC-TGTTGGATGTTGC
1 TGCCTTGTTGCATGTTGC
*
465492 TG-CTTGTTGCCTGTTGC
1 TGCCTTGTTGCATGTTGC
465509 TGCCTTGT
1 TGCCTTGT
465517 AATTTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 1 0.05
17 15 0.71
18 5 0.24
ACGTcount: A:0.02, C:0.21, G:0.31, T:0.45
Consensus pattern (18 bp):
TGCCTTGTTGCATGTTGC
Found at i:466198 original size:27 final size:28
Alignment explanation
Indices: 466166--466221 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
466156 ATTAGTATGA
466166 TTTATTATAAA-CTTAAAATCTCAT-AAT
1 TTTATTA-AAATCTTAAAATCTCATCAAT
* *
466193 TTTATTAAAATCTTATAATTTCATCAAT
1 TTTATTAAAATCTTAAAATCTCATCAAT
466221 T
1 T
466222 GTAATACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.12
27 18 0.72
28 4 0.16
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (28 bp):
TTTATTAAAATCTTAAAATCTCATCAAT
Found at i:466332 original size:16 final size:16
Alignment explanation
Indices: 466297--466347 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
466287 TCATTTACAG
* *
466297 GTCAGGTTGAAACCAG
1 GTCAGGTTGAAAACAT
* *
466313 GTCAGGTTTATAACAT
1 GTCAGGTTGAAAACAT
*
466329 GTCATGTTGAAAACAT
1 GTCAGGTTGAAAACAT
466345 GTC
1 GTC
466348 GGATAATGTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (16 bp):
GTCAGGTTGAAAACAT
Found at i:466929 original size:23 final size:23
Alignment explanation
Indices: 466894--466941 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
466884 ATCAAGTACA
* *
466894 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCACTTAT
*
466917 ATAATGTAATAGGTAGCACTTAT
1 ATAATATAATAGGTAGCACTTAT
466940 AT
1 AT
466942 TGACCAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (23 bp):
ATAATATAATAGGTAGCACTTAT
Found at i:467187 original size:20 final size:20
Alignment explanation
Indices: 467170--467208 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
467160 CCAGTATATT
467170 TTTACCGGTTACATTATAAA
1 TTTACCGGTTACATTATAAA
* *
467190 TTTACCTGTTACATAATAA
1 TTTACCGGTTACATTATAA
467209 TTATCGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (20 bp):
TTTACCGGTTACATTATAAA
Found at i:467987 original size:181 final size:181
Alignment explanation
Indices: 467683--468205 Score: 816
Period size: 182 Copynumber: 2.9 Consensus size: 181
467673 TTGGCGTTAT
*
467683 TTTTAAATTCTAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCT
1 TTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCT
* * *
467748 CTTTACCAATTTTTTCATTTCGATACCGGTTTTGTCATATTTTTACTTGTTATATTGTTATGGAT
66 CTTTACCGATTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTAC-TGTTATATTGTTATGGAT
* * *
467813 CGATACACTTTTAT-AAGTATCAACACTTTATTGGCGCTATAACTTCTTCTC
130 CAATACATTTTTATAAAGTATCAACACTTTATTAGCGCTATAACTTCTTCTC
467864 TTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCT
1 TTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCT
* * *
467929 CTTTACCGATTTTGTCCTTTCGAGGCCGGTTTTGTCATATTTTTACATGTTCTATTGTTATGGAT
66 CTTTACCGATTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTAC-TGTTATATTGTTATGGAT
*
467994 CAATACATTTTTATAAAGTATCTACACTTTATTAGCGCTATAACTTCTTCTC
130 CAATACATTTTTATAAAGTATCAACACTTTATTAGCGCTATAACTTCTTCTC
* * * * *
468046 TTTTAAATTTCAAAAGTGTCGATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAACG
1 TTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCT
** *
468111 CTTTACCTG-TTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTATCTGTTATATTGTTATGGA
66 CTTTACC-GATTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTA-CTGTTATATTGTTATGGA
*
468175 TCAATACATTTTTATAAAGTATCGACACTTT
129 TCAATACATTTTTATAAAGTATCAACACTTT
468206 CAATATATCC
Statistics
Matches: 315, Mismatches: 24, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
181 134 0.43
182 179 0.57
183 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (181 bp):
TTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCT
CTTTACCGATTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACTGTTATATTGTTATGGATC
AATACATTTTTATAAAGTATCAACACTTTATTAGCGCTATAACTTCTTCTC
Found at i:468273 original size:112 final size:112
Alignment explanation
Indices: 468076--468354 Score: 504
Period size: 112 Copynumber: 2.5 Consensus size: 112
468066 GATACTTATA
* * * *
468076 ATAAAGTATCGACACTATCAACATATCTGGTAACGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
468141 TTTGTCATTTTTTTATCTGTTATATTGTTATGGATCAATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
468188 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
468253 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
468300 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTT
468355 TTTTTACCTG
Statistics
Matches: 161, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 161 1.00
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.44
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
Found at i:468708 original size:16 final size:18
Alignment explanation
Indices: 468677--468710 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
468667 GACTAATAAC
468677 TAAAATATATTTTTAAAT
1 TAAAATATATTTTTAAAT
468695 TAAAATA-A-TTTTAAAT
1 TAAAATATATTTTTAAAT
468711 AAACTTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 1 0.06
18 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAAATATATTTTTAAAT
Found at i:469628 original size:19 final size:19
Alignment explanation
Indices: 469580--469628 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
469570 AAAAATTAGA
* *
469580 ATAATAGAAAAATAAAGAT
1 ATAATAGAAAAATAAAAAG
* *
469599 ATAACATAAAAATAAAAAG
1 ATAATAGAAAAATAAAAAG
469618 ATAATAGAAAA
1 ATAATAGAAAA
469629 CGCCGACGAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.18
Consensus pattern (19 bp):
ATAATAGAAAAATAAAAAG
Found at i:470127 original size:2 final size:2
Alignment explanation
Indices: 470122--470179 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
470112 AGTGTGTGTG
470122 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
470164 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
470180 GAACATTATG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:470734 original size:22 final size:20
Alignment explanation
Indices: 470688--470739 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
470678 TATCAATTAT
*
470688 TATTAAATATTATAATGAAAT
1 TATTAAA-ATTATAATGAAAA
*
470709 TATTAAAATTATAATATAGAAA
1 TATTAAAATTATAAT-GA-AAA
470731 TATTAAAAT
1 TATTAAAAT
470740 ATTTTTGTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 8 0.30
21 8 0.30
22 11 0.41
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (20 bp):
TATTAAAATTATAATGAAAA
Found at i:475655 original size:23 final size:23
Alignment explanation
Indices: 475619--475691 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
475609 ATACTTTACA
* *
475619 ATATAAGCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
*
475642 ATATAAACGTTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* * *
475665 ATATAAGCGCTATCTATTACATC
1 ATATAAACGCTACCTATTACATT
475688 ATAT
1 ATAT
475692 TTTTACCTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:476086 original size:23 final size:23
Alignment explanation
Indices: 476060--476122 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
476050 ATATAACCAC
476060 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
476083 TACCTATTCCATTATATAAACGC
1 TACCTATTACATTATATAAACGA
*
476106 TACCTATTACATCATAT
1 TACCTATTACATTATAT
476123 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:476444 original size:431 final size:430
Alignment explanation
Indices: 475453--476457 Score: 1825
Period size: 432 Copynumber: 2.3 Consensus size: 430
475443 ATGTTTATTG
*
475453 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATTATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
475518 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
*
475583 TAT-GAACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATA
131 TATAG-ACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATA
* * *
475647 AACGTTACCTATTACATTATATAAGCGCTATCTATTACATCATATTTTTACCTATTATATTGAAA
195 AACGATACCTATTACATTATATAAACGCTACCTATTACATCATATTTTTACCTATTATATTGAAA
* *
475712 GTGTCTATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATT
260 GTGTCTATACTTTTTATAAAAAGGACCGATACTTCTTTTAAAGTTATATAATTTATGTTTCAATT
* *
475777 TTTTTAATAGTGTTTCATGTTTTCCACCTACATTATTAATTTAATAATTTCATTTGCACAAAAAA
325 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCAGTTGCACAAAAAA
475842 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
390 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
475883 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
*
475948 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAA
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAA
476013 GTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATA
130 GTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATA
*
476078 AACGATACCTATTCCATTATATAAACGCTACCTATTACATCATATTTTTACCTATTATATTGAAA
195 AACGATACCTATTACATTATATAAACGCTACCTATTACATCATATTTTTACCTATTATATTGAAA
476143 GTGT-TCATACTTTTTATAAAAAGGACCGATACTTCTTTTAAAGTTATATAATTTATGTTTCAAT
260 GTGTCT-ATACTTTTTATAAAAAGGACCGATACTTCTTTTAAAGTTATATAATTTATGTTTCAA-
*
476207 TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTAGTTGCACAAAA
323 TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCAGTTGCACAAAA
*
476272 AATTATTTGATTGTTTTGTTATTTTATAAAATAATATTTAGAA
388 AATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
*
476315 TTTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
*
476380 AAATTAATATCTTAAAACTCAATCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
476445 TATAGACACTTTT
131 TATAGACACTTTT
476458 GTTGAGTTAA
Statistics
Matches: 555, Mismatches: 16, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
430 122 0.22
431 208 0.37
432 225 0.41
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (430 bp):
TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
ACGATACCTATTACATTATATAAACGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
TGTCTATACTTTTTATAAAAAGGACCGATACTTCTTTTAAAGTTATATAATTTATGTTTCAATTT
TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCAGTTGCACAAAAAAT
TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
Found at i:479929 original size:22 final size:21
Alignment explanation
Indices: 479882--479941 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
479872 ATTCCCTGTT
*
479882 GGGGGAATCAGTTCCCTTCAAA
1 GGGGGAATCGGTTCCC-TCAAA
*
479904 GGGGGAATCGGTTCCCTC-AG
1 GGGGGAATCGGTTCCCTCAAA
* *
479924 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
479942 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 15 0.44
ACGTcount: A:0.18, C:0.25, G:0.35, T:0.22
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:479933 original size:20 final size:20
Alignment explanation
Indices: 479861--479941 Score: 65
Period size: 20 Copynumber: 4.0 Consensus size: 20
479851 CAGAACCCAG
* **
479861 GGGGGGTATCGATTCCCTGT
1 GGGGGGAATCGATTCCCTCA
*
479881 TGGGGGAATC-AGTTCCCTTCAA
1 GGGGGGAATCGA-TTCCC-TC-A
* *
479903 AGGGGGAATCGGTTCCCTCA
1 GGGGGGAATCGATTCCCTCA
*
479923 GGGGGGGATCGATTCCCTC
1 GGGGGGAATCGATTCCCTC
479942 TGCACCAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
19 1 0.02
20 30 0.62
21 3 0.06
22 14 0.29
ACGTcount: A:0.16, C:0.23, G:0.36, T:0.25
Consensus pattern (20 bp):
GGGGGGAATCGATTCCCTCA
Found at i:486000 original size:21 final size:23
Alignment explanation
Indices: 485975--486023 Score: 84
Period size: 21 Copynumber: 2.2 Consensus size: 23
485965 AAAAGCACTA
485975 TATTACATTATA-AA-CGCTACC
1 TATTACATTATATAAGCGCTACC
485996 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAGCGCTACC
486019 TATTA
1 TATTA
486024 ATCATATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 12 0.46
22 2 0.08
23 12 0.46
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAGCGCTACC
Found at i:486405 original size:23 final size:23
Alignment explanation
Indices: 486377--486435 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
486367 TAACCCTACC
486377 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
486400 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
486423 TATTACATCATAT
1 TATTACATTATAT
486436 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:486746 original size:418 final size:415
Alignment explanation
Indices: 485970--487055 Score: 1688
Period size: 418 Copynumber: 2.6 Consensus size: 415
485960 TATCAAAAAG
485970 CACTA-TATTACATTATAAACGCTACCTATTACATTATATAAGCGCTACCTATTA-ATCATATTT
1 CACTACTATTACATTATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTT
* *
486033 TTACCTATTATATTGAAAG-GTC-CA-TTTTTAT-AAAATGATCGATAC-T-TTTTAAAATTATG
66 TTACCTATTATATTGAAAGTGTCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATG
* *
486092 TAATTTATGTTTC-ATTTTTTAATAGTGTTTCATG-TTTCCACTTAC-ATATT-A-TTAATAATT
131 TAATTTATGTTTCAATTTTTTAATAGTTTTTCATGTTTTCCACCTACAATATTAATTTAATAATT
*
486152 TCA-TTGCACAAAAATTATTTGATTGTTTTGATATTTTAT-AAATAATATTTAGAATTTTTATTT
196 TCATTTGCACAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTAATTT
*
486215 AATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAATTATATCTTA
261 AATAAT-ATATATCGTAACGTAAAAAATAAATCATTAGACGAC-ATAATTACTAATTATATCTTA
*
486280 AAACTCACTCAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAA-ATAGACACTTTTATA
324 AAACTCACTCAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGATAGACACTTTTATA
486344 AAAAGGATAGATACTTTACAATAT-AA
389 AAAAGGATAGATACTTTACAATATAAA
* * *
486370 CCCTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTACATCATA
1 CACTA-CTATTACA-T-TATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATA
*
486435 TTTTTACCTATTATATTGAAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAG
63 TTTTTACCTATTATATTG-AAAGTGTC-ATACTTTTTATAAAAATGATCGATACTTCTTTTAAAG
486500 TTATGTAATTTATGTTTCAATTTTTTAATAGTTTTTCATGTTTTCCACCTACAATATTAATTTAA
126 TTATGTAATTTATGTTTCAATTTTTTAATAGTTTTTCATGTTTTCCACCTACAATATTAATTTAA
486565 TAATTTCATTTGCACAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAG-ATTTT
191 TAATTTCATTTGCACAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTT
* *
486629 AATTTTAATAATATATATCGTAACGT-GAAAATAAATCATT-GATGAC-TAATTACTAAATTAAT
256 AA-TTTAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGACATAATTACT-AATT-AT
486691 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACA
318 ATCTTAAAACTCACTC-AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG-ATAGACA
486756 CTTTTATAAAAAGGATAGATACTTTACAATATAAA
381 CTTTTATAAAAAGGATAGATACTTTACAATATAAA
*
486791 CACTACTATTACATTATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATAATATTT
1 CACTACTATTACATTATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTT
486856 TTACC-ATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTT-AAGTTAT
66 TTACCTATTATATTGAAAGTGT-CATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTAT
*
486919 GTAATTTATGTTTCAATTTTTTTAATAG-TGTTCATGTTTTCCACCTACAATATTAATTTAATAA
130 GTAATTTATGTTTCAA-TTTTTTAATAGTTTTTCATGTTTTCCACCTACAATATTAATTTAATAA
486983 -TTCATTTGCACAAAAAATTATTTGATTG--TTGATATTTTATAAAAT-ATATTTAGAATTTTTA
194 TTTCATTTGCAC-AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA-TTTTA
*
487044 ATTTAACAATAT
257 ATTTAATAATAT
487056 TAACCAAATA
Statistics
Matches: 634, Mismatches: 20, Indels: 51
0.90 0.03 0.07
Matches are distributed among these distances:
400 4 0.01
402 7 0.01
403 1 0.00
404 39 0.06
405 24 0.04
406 4 0.01
407 3 0.00
409 1 0.00
410 7 0.01
411 13 0.02
412 9 0.01
413 53 0.08
414 37 0.06
415 92 0.15
416 59 0.09
417 33 0.05
418 116 0.18
419 57 0.09
420 69 0.11
421 6 0.01
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (415 bp):
CACTACTATTACATTATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTT
TTACCTATTATATTGAAAGTGTCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATG
TAATTTATGTTTCAATTTTTTAATAGTTTTTCATGTTTTCCACCTACAATATTAATTTAATAATT
TCATTTGCACAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTAATTT
AATAATATATATCGTAACGTAAAAAATAAATCATTAGACGACATAATTACTAATTATATCTTAAA
ACTCACTCAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGATAGACACTTTTATAAA
AAGGATAGATACTTTACAATATAAA
Found at i:486822 original size:21 final size:21
Alignment explanation
Indices: 486779--486848 Score: 97
Period size: 20 Copynumber: 3.3 Consensus size: 21
486769 GATAGATACT
* *
486779 TTACAATATAAACACTA-CTA
1 TTACATTATAAACGCTACCTA
486799 TTACATTATAAACGCTACCTA
1 TTACATTATAAACGCTACCTA
486820 TTACATTATATAAGCGCTACCTA
1 TTACATTATA-AA-CGCTACCTA
486843 TTACAT
1 TTACAT
486849 AATATTTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 15 0.33
21 13 0.29
22 2 0.04
23 15 0.33
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.34
Consensus pattern (21 bp):
TTACATTATAAACGCTACCTA
Found at i:486837 original size:23 final size:22
Alignment explanation
Indices: 486779--486853 Score: 93
Period size: 23 Copynumber: 3.5 Consensus size: 22
486769 GATAGATACT
* *
486779 TTACAATATA-AACACTA-CTA
1 TTACATTATATAACGCTACCTA
486799 TTACATTATA-AACGCTACCTA
1 TTACATTATATAACGCTACCTA
486820 TTACATTATATAAGCGCTACCTA
1 TTACATTATATAA-CGCTACCTA
*
486843 TTACATAATAT
1 TTACATTATAT
486854 TTTTACCATT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
20 15 0.31
21 13 0.27
22 2 0.04
23 19 0.39
ACGTcount: A:0.41, C:0.20, G:0.04, T:0.35
Consensus pattern (22 bp):
TTACATTATATAACGCTACCTA
Found at i:487312 original size:23 final size:23
Alignment explanation
Indices: 487253--487324 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
487243 TATACTTTCA
*
487253 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
487276 ATATAA-CGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
487298 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
487321 ATAT
1 ATAT
487325 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
22 21 0.46
23 25 0.54
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:487815 original size:23 final size:23
Alignment explanation
Indices: 487743--487807 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
487733 ACACTTTACA
* *
487743 ATATAAGCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
487766 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
487789 ATATAAACGCTACCTATTA
1 ATATAAACGCTACCTATTA
487808 TATCATATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:487859 original size:491 final size:491
Alignment explanation
Indices: 486625--488159 Score: 2600
Period size: 491 Copynumber: 3.2 Consensus size: 491
486615 AATATTTAGA
* *
486625 TTTTAATTT--TAATAATATATATCGTAACGTG-AAAATAAATCATT-GATGAC--TAATTACTA
1 TTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAGACGCCTATAATTACTA
486684 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGT
66 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGT
* *
486749 ATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAAACACTA-CTATTACA-T-TATAAA
131 ATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAA
*
486811 CGCTACCTATTACATTATATAAGCGCTACCTATTACATAATATTTTTACCATTATATTGAAAGTG
196 CGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCATTATATTGAAAGTG
*
486876 TCCATACTTTTTATAAAAATGATCGATACTTCTTTT-AAGTTATGTAATTTATGTTTCAA-TTTT
261 TCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTT
486939 TTTAATAGTG-TTCATGTTTTCCACCTACAATATTAATTTAATAA-TTCATTTGCACAAAAAATT
326 TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
487002 ATTTGATTG--TTGATATTTTATAAAAT-ATATTTAGAATTTTTAATTTAACAATATTAACCAAA
391 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAACAATATTAACCAAA
* *
487064 TAT-AT-ATAAATATATAATATATATG-TTATTGTT
456 GATAATAATAAATATGTAATATATATGTTTATTGTT
487097 TTTTAATTTAATAAT-A-ATATATCGTAACGTGAAAAATAAATCATTAGACGCCTATAATTACTA
1 TTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAGACGCCTATAATTACTA
487160 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATG-TTTCCACAGT-AAAAAAGT
66 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGT
*
487223 ATGAACAC--TTATAAAAAGGAT--ATACTTT-CAATATAAGCACTACCTATTACATTATAT-AA
131 ATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAA
487282 CGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGT
196 CGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC-ATTATATTGAAAGT
487347 GTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTT
260 GTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTT
*
487412 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTATTTGCACAAAAAAT
325 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAAT
*
487477 TATTTGATTGTTTTGATATTTTTTAAAATAATATTTAGAATTTTTAATTTAACAATATTAACCAA
390 TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAACAATATTAACCAA
487542 AGATAATAATAAATATGTAATATATATGTTTATTGTT
455 AGATAATAATAAATATGTAATATATATGTTTATTGTT
* *
487579 TTTTAATTTAATAATAATATATATCGTAACATGAAAAATAAATCTTTAGACGCCTATAATTACTA
1 TTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAGACGCCTATAATTACTA
487644 AATTAATATCTT-AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGT
66 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGT
* *
487708 ATGGACACTTTTATAAAAAAGATAGACACTTTACAATATAAGCACTACCTATTACATTATATAAA
131 ATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAA
* *
487773 CGCTACCTATTACATTATATAAACGCTACCTATTATATCATATTTTTACCAATTATATTGAAAGT
196 CGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC-ATTATATTGAAAGT
* *
487838 GTACATACTTTTTACAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTT
260 GTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTT
*
487903 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
325 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAAT
*
487968 TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA-TTTAAATTTAACAATATTAACCAA
390 TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAACAATATTAACCAA
488032 AGATAATAAT-AATATGT-A-ATATATGTTTATTG-T
455 AGATAATAATAAATATGTAATATATATGTTTATTGTT
* *
488065 TTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTA
1 TTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAGACGCCTATAATTACTA
488130 AATTAATATCTTAAAACTCACTCAAAAGAT
66 AATTAATATCTTAAAACTCACTCAAAAGAT
488160 GTATATACCT
Statistics
Matches: 1003, Mismatches: 29, Indels: 47
0.93 0.03 0.04
Matches are distributed among these distances:
469 13 0.01
470 15 0.01
471 52 0.05
472 90 0.09
473 37 0.04
474 36 0.04
475 44 0.04
476 81 0.08
478 16 0.02
479 38 0.04
480 2 0.00
481 19 0.02
482 23 0.02
483 33 0.03
484 67 0.07
485 15 0.01
486 74 0.07
487 43 0.04
488 1 0.00
489 13 0.01
490 62 0.06
491 229 0.23
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (491 bp):
TTTTAATTTAATAATAATATATATCGTAACGTGAAAAATAAATCATTAGACGCCTATAATTACTA
AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGT
ATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAA
CGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCATTATATTGAAAGTG
TCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTT
TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAACAATATTAACCAAA
GATAATAATAAATATGTAATATATATGTTTATTGTT
Found at i:488187 original size:25 final size:25
Alignment explanation
Indices: 488159--488223 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
488149 ACTCAAAAGA
* *
488159 TGTATATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAATTAT
488184 TGTACATACCTAAATATGTAATTAT
1 TGTACATACCTAAATATGTAATTAT
488209 TGTACATACCTAAAT
1 TGTACATACCTAAAT
488224 TTAATGATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (25 bp):
TGTACATACCTAAATATGTAATTAT
Found at i:492010 original size:3 final size:3
Alignment explanation
Indices: 492002--492097 Score: 75
Period size: 3 Copynumber: 32.0 Consensus size: 3
491992 ACTTGTTTGG
* * * * *
492002 ATC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GTC AGC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * * * * *
492050 GTC GTC ATC ATC GTC AGC TTC ATC GTC GTC ATC ATC ATC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
492098 GTCAGCTTCA
Statistics
Matches: 71, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.22, C:0.33, G:0.09, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:492106 original size:12 final size:12
Alignment explanation
Indices: 492031--492109 Score: 90
Period size: 12 Copynumber: 6.6 Consensus size: 12
492021 TCGTCATCAT
492031 CTTCATCGTCAG
1 CTTCATCGTCAG
492043 CTTCATCGTC-G
1 CTTCATCGTCAG
*
492054 TCATCATCGTCAG
1 -CTTCATCGTCAG
492067 CTTCATCGTC-G
1 CTTCATCGTCAG
* * *
492078 TCATCATCATCAT
1 -CTTCATCGTCAG
492091 CTTCATCGTCAG
1 CTTCATCGTCAG
492103 CTTCATC
1 CTTCATC
492110 TTCATTGACC
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
11 2 0.04
12 52 0.95
13 1 0.02
ACGTcount: A:0.18, C:0.34, G:0.13, T:0.35
Consensus pattern (12 bp):
CTTCATCGTCAG
Found at i:492109 original size:24 final size:24
Alignment explanation
Indices: 492003--492100 Score: 115
Period size: 24 Copynumber: 4.0 Consensus size: 24
491993 CTTGTTTGGA
* *
492003 TCATCATCATCATCATCATCGTCA
1 TCATCATCATCATCTTCATCGTCG
* *
492027 TCATCTTCATCGTCAGCTTCATCGTCG
1 TCA---TCATCATCATCTTCATCGTCG
* *
492054 TCATCATCGTCAGCTTCATCGTCG
1 TCATCATCATCATCTTCATCGTCG
492078 TCATCATCATCATCTTCATCGTC
1 TCATCATCATCATCTTCATCGTC
492101 AGCTTCATCT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
24 45 0.69
27 20 0.31
ACGTcount: A:0.20, C:0.34, G:0.10, T:0.36
Consensus pattern (24 bp):
TCATCATCATCATCTTCATCGTCG
Found at i:493921 original size:200 final size:200
Alignment explanation
Indices: 493578--494549 Score: 1824
Period size: 200 Copynumber: 4.9 Consensus size: 200
493568 TTTAAATTAG
493578 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
493643 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
493708 TCGGCACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTAGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
*
493773 AAAAC
196 AAAAA
* *
493778 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATCGATATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
493843 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
493908 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTTTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
493973 AAAAA
196 AAAAA
493978 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
494043 CTTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
494106 TCGACACTTTTTATATATGGATTGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
494171 AAAAA
196 AAAAA
494176 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
494241 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
494306 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
494371 AAAAA
196 AAAAA
*
494376 TATCGACACAAACTAAAAAAGTGTAGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
494440 CTTGTACTGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
494505 TCGACACTTTTTATTATATGGTTCGACACTTTATGGTTGCACCCT
131 TCGACACTTTTTA-TATATGGATCGACACTTTATGGTTGCACCCT
494550 TAATGTGTAT
Statistics
Matches: 755, Mismatches: 14, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
198 159 0.21
199 162 0.21
200 434 0.57
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (200 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
AAAAA
Found at i:494316 original size:398 final size:400
Alignment explanation
Indices: 493578--494549 Score: 1817
Period size: 398 Copynumber: 2.4 Consensus size: 400
493568 TTTAAATTAG
493578 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
493643 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
493708 TCGGCACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTAGACC
131 TCGACACTTTTTATATATGGATTGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTAGACC
* *
493773 AAAACTATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATCG
196 AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
493838 ATATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
261 ATATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
*
493903 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTTT
326 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCT
493968 GGACCAAAAA
391 GGACCAAAAA
493978 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
494043 CTTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
494106 TCGACACTTTTTATATATGGATTGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATTGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTAGACC
494171 AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
*
494236 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
261 ATATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
494301 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCT
326 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCT
494366 GGACCAAAAA
391 GGACCAAAAA
*
494376 TATCGACACAAACTAAAAAAGTGTAGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
494440 CTTGTACTGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
494505 TCGACACTTTTTATTATATGG-TTCGACACTTTATGGTTGCACCCT
131 TCGACACTTTTTA-TATATGGATT-GACACTTTATGGTTGCACCCT
494550 TAATGTGTAT
Statistics
Matches: 559, Mismatches: 9, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
397 28 0.05
398 360 0.64
399 60 0.11
400 111 0.20
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (400 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATTGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTAGACC
AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
ATATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCT
GGACCAAAAA
Found at i:494653 original size:18 final size:18
Alignment explanation
Indices: 494630--494674 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
494620 TTTCATTCAT
*
494630 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
494648 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
494667 AATTATAA
1 AATTATAA
494675 ATCTTATACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.33
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:494666 original size:19 final size:19
Alignment explanation
Indices: 494642--494686 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
494632 TTATATTCAC
494642 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
494661 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
494680 ATACAAA
1 ATACAAA
494687 TTAACCCTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:496549 original size:21 final size:21
Alignment explanation
Indices: 496524--496588 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
496514 CCCCTTATGC
* *
496524 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
496545 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
496566 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
496587 CT
1 CT
496589 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:498651 original size:24 final size:24
Alignment explanation
Indices: 498614--498666 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
498604 CCGTTCTATC
498614 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
498638 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
498662 TATTT
1 TATTT
498667 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:498828 original size:17 final size:18
Alignment explanation
Indices: 498806--498848 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
498796 ATATATCCGG
498806 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
498823 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
498843 TATCAT
1 TATCAT
498849 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:498866 original size:20 final size:19
Alignment explanation
Indices: 498811--498857 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
498801 TCCGGTATCA
498811 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
498830 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
498851 TTTTACC
1 TTTTACC
498858 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:499082 original size:181 final size:182
Alignment explanation
Indices: 498778--499229 Score: 647
Period size: 181 Copynumber: 2.5 Consensus size: 182
498768 CGTACTTACG
* * *
498778 AAAGTATCGACAATTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* ** * *
498843 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCATACTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
*
498908 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * *
498959 AAAGTATCGACACGTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTATCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
499024 TATCATATTTTTACCTGGTATATCATACTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCATACTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
499089 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * * *
499141 AAAGTACCGACACTTTAAATGTATCTGGTAGCGCTTTACCGGTTTTATCATTTCT-ATACCGATT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* *
499205 TTGTCATAGTTTTACCTGTTATATC
65 TTATCATATTTTTACCTGTTATATC
499230 GTTTTGGATC
Statistics
Matches: 239, Mismatches: 30, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
181 163 0.68
182 75 0.31
183 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCATACTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:499694 original size:228 final size:228
Alignment explanation
Indices: 499296--499789 Score: 911
Period size: 228 Copynumber: 2.2 Consensus size: 228
499286 ACCTATTTTT
*
499296 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTTA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
499361 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
66 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
499426 AAATTATTTGATTGTTTTAATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTAATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
*
499491 CAAATATAATAATAAATATGTTTTCCACAGTGAA
196 CAAATATAATAATAAATATATTTT-CACAGTGAA
499525 ATAAGTATGGACACTTTTATAAAAATGATATATA-TTTTTTT-AAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
499588 ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
66 A-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
*
499653 AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
130 AAAATTATTTGATTGTTTTAATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
499718 CCAAATATAATAATAAATATATTTTCACAGTGAA
195 CCAAATATAATAATAAATATATTTTCACAGTGAA
* *
499752 ATAAGTATGGACACTTTTATAAAAAGGATAGATACTTT
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTT
499790 ACAATATAAC
Statistics
Matches: 258, Mismatches: 5, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
227 63 0.24
228 161 0.62
229 34 0.13
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (228 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
AAATTATTTGATTGTTTTAATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
CAAATATAATAATAAATATATTTTCACAGTGAA
Found at i:514846 original size:39 final size:39
Alignment explanation
Indices: 514778--514885 Score: 112
Period size: 39 Copynumber: 2.8 Consensus size: 39
514768 TCTTATTGGT
* * *
514778 CTGAAGACG-CAGTTCACTCGTGG-GATCTTCTCAATTTGT
1 CTGAAGACGACA-TGCAGTCGTGGAG-TCTTCTCAATTTGC
** * **
514817 CTGAAGACGTTATGCAGTTGTGGAGTCTTCTTTATTTGC
1 CTGAAGACGACATGCAGTCGTGGAGTCTTCTCAATTTGC
514856 CTGAAGACGACATGCAGTCGTGGAGTCTTC
1 CTGAAGACGACATGCAGTCGTGGAGTCTTC
514886 ATATTTAACT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
39 55 0.96
40 2 0.04
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.33
Consensus pattern (39 bp):
CTGAAGACGACATGCAGTCGTGGAGTCTTCTCAATTTGC
Found at i:514900 original size:39 final size:38
Alignment explanation
Indices: 514778--514907 Score: 104
Period size: 39 Copynumber: 3.3 Consensus size: 38
514768 TCTTATTGGT
* * **
514778 CTGAAGACGCAGTTCACTCGTGG-GATCTTCTCA-ATTTGT
1 CTGAAGACGCA-TGCAGTCGTGGAG-TCTTCT-ATATTTAC
* * * *
514817 CTGAAGACGTTATGCAGTTGTGGAGTCTTCTTTATTTGC
1 CTGAAGACG-CATGCAGTCGTGGAGTCTTCTATATTTAC
514856 CTGAAGACGACATGCAGTCGTGGAGTCTTC-ATATTTAAC
1 CTGAAGACG-CATGCAGTCGTGGAGTCTTCTATATTT-AC
*
514895 TTGAAGACGCATG
1 CTGAAGACGCATG
514908 GAGCACCTGA
Statistics
Matches: 75, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
38 9 0.12
39 64 0.85
40 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (38 bp):
CTGAAGACGCATGCAGTCGTGGAGTCTTCTATATTTAC
Found at i:519815 original size:24 final size:24
Alignment explanation
Indices: 519733--519827 Score: 102
Period size: 24 Copynumber: 4.0 Consensus size: 24
519723 TAAATGAGAT
* *
519733 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGATATCAGAACAGAATTCAG
* * *
519757 ATCAGATATCATAATAGAATCCAG
1 ATCAGATATCAGAACAGAATTCAG
*
519781 ATCAGAAATCAGAACAGAATTCAG
1 ATCAGATATCAGAACAGAATTCAG
* *
519805 GTCATG-TATCAGAACAAAATTCA
1 ATCA-GATATCAGAACAGAATTCA
519828 AGTCGAAATC
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 58 0.98
25 1 0.02
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (24 bp):
ATCAGATATCAGAACAGAATTCAG
Found at i:523704 original size:54 final size:54
Alignment explanation
Indices: 523622--523727 Score: 203
Period size: 54 Copynumber: 2.0 Consensus size: 54
523612 GGGGTGTTAC
523622 ACACAAGTTACATCATGGAAGGTTAAAATGTTGGAATAAGAAAACACTTAGAAA
1 ACACAAGTTACATCATGGAAGGTTAAAATGTTGGAATAAGAAAACACTTAGAAA
*
523676 ACACAAGTTACATCATGGAAGGTTAAAATGTTGGAATAGGAAAACACTTAGA
1 ACACAAGTTACATCATGGAAGGTTAAAATGTTGGAATAAGAAAACACTTAGA
523728 TTATATAACA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (54 bp):
ACACAAGTTACATCATGGAAGGTTAAAATGTTGGAATAAGAAAACACTTAGAAA
Found at i:523751 original size:3 final size:3
Alignment explanation
Indices: 523743--523778 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
523733 TAACAAATAT
523743 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
523779 GTCTCAGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:524891 original size:14 final size:14
Alignment explanation
Indices: 524844--524927 Score: 55
Period size: 14 Copynumber: 5.8 Consensus size: 14
524834 ATATCGTATA
524844 ATATATTATATTCAAT
1 ATATATTATATT--AT
* *
524860 ATATAGTTCTA-TAC
1 ATATA-TTATATTAT
524874 ATATATTATATTAT
1 ATATATTATATTAT
**
524888 ATATGGTATATTATTT
1 ATATATTATATTA--T
* *
524904 ATATGTTATATAAT
1 ATATATTATATTAT
524918 ATAT-TTATAT
1 ATATATTATAT
524928 ATCATAGTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
13 10 0.18
14 24 0.43
16 18 0.32
17 4 0.07
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.52
Consensus pattern (14 bp):
ATATATTATATTAT
Found at i:524906 original size:16 final size:17
Alignment explanation
Indices: 524882--524914 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
524872 ACATATATTA
524882 TATTATATATGGTATAT
1 TATTATATATGGTATAT
*
524899 TATT-TATATGTTATAT
1 TATTATATATGGTATAT
524915 AATATATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (17 bp):
TATTATATATGGTATAT
Found at i:525403 original size:2 final size:2
Alignment explanation
Indices: 525398--525445 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
525388 AAAGGAAAAA
*
525398 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
525440 AT AT AT
1 AT AT AT
525446 CAAAGTATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:525991 original size:60 final size:60
Alignment explanation
Indices: 525871--525991 Score: 167
Period size: 60 Copynumber: 2.0 Consensus size: 60
525861 TATTAAAGAA
* *
525871 ATATATATATATATATATAATAATAATATAGTAAAAAAATAAATGAAAATAATTTAATAT
1 ATATATATATATACATATAATAATAATATAGTAAAAAAATAAATGAAAATAATATAATAT
*
525931 ATATATATATATACATATAATAATAATGA-A-TAATAAAAATAAATGAATAA-AATATCATAT
1 ATATATATATATACATATAATAATAAT-ATAGTAA-AAAAATAAATGAA-AATAATATAATAT
525991 A
1 A
525992 ATAAATAAAG
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
59 3 0.05
60 49 0.89
61 3 0.05
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (60 bp):
ATATATATATATACATATAATAATAATATAGTAAAAAAATAAATGAAAATAATATAATAT
Found at i:526388 original size:37 final size:37
Alignment explanation
Indices: 526338--526442 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
526328 GTGCTTGTGG
* * * *
526338 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
526375 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
526412 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
526443 GACGAAAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:527286 original size:105 final size:105
Alignment explanation
Indices: 526985--527609 Score: 919
Period size: 105 Copynumber: 6.0 Consensus size: 105
526975 GCATTGTTCC
* * ** *
526985 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAA
* * * * *
527049 CCAGCTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
527090 GAGTCCAATATCCATCGCTGTGAAGTTGAAATTGACTCTGA-A-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
527150 CAGCGGTCCCTTCGTCGTGGAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
527190 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
527255 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
527295 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
527360 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
527400 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
527465 CAGCGGTCCC-TCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
527504 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA---ATTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* * * *
527566 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
527606 GAGT
1 GAGT
527610 GTCACGATAT
Statistics
Matches: 482, Mismatches: 31, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
100 83 0.17
101 20 0.04
102 37 0.08
104 82 0.17
105 260 0.54
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:527856 original size:36 final size:36
Alignment explanation
Indices: 527809--527884 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
527799 TGTTTGGAGA
* * *
527809 GAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
*
527845 GAAACTATCTCAAGCGAGATAAAATTCATTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
527881 GAAA
1 GAAA
527885 TGTTTTCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (36 bp):
GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
Found at i:528005 original size:106 final size:105
Alignment explanation
Indices: 527784--528104 Score: 499
Period size: 106 Copynumber: 3.1 Consensus size: 105
527774 TTCGTTAAAT
* ** *
527784 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAA--TTC-GTTTCAAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
527846 AAACTATCTCA-AGCGAGATAAAATTCATTTCAAGGGAAA
66 AAACTATCTCAGAGAGAGAAAAAATTCATTTCAAGGGAAA
*
527885 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
*
527950 AAACTATCTCAAGAGAGAGAAAAAAATCATTTCAAGGGAAA
66 AAACTATCTC-AGAGAGAGAAAAAATTCATTTCAAGGGAAA
*
527991 TGTTTTCAATGTTTATGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAAGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCG-AGG
*
528056 GAAACTATCTCAG-GAGAGAAAAAATTAATTTCAAGGGAAA
65 GAAACTATCTCAGAGAGAGAAAAAATTCATTTCAAGGGAAA
528096 TGTTTTCAA
1 TGTTTTCAA
528105 GAGAAACTGT
Statistics
Matches: 202, Mismatches: 12, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
101 45 0.22
103 3 0.01
104 19 0.09
105 35 0.17
106 86 0.43
107 14 0.07
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (105 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
AAACTATCTCAGAGAGAGAAAAAATTCATTTCAAGGGAAA
Found at i:528151 original size:39 final size:39
Alignment explanation
Indices: 528099--528175 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
528089 AGGGAAATGT
* * ** *
528099 TTTCAAGAGAAACTGTCTCAAGGGAGATAAAATTTTCTG
1 TTTCAAGAGAAACTATCTAAAGCAAGATAAAATCTTCTG
*
528138 TTTCGAGAGAAACTATCTAAAGCAAGATAAAATCTTCT
1 TTTCAAGAGAAACTATCTAAAGCAAGATAAAATCTTCT
528176 TAAAAAAAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (39 bp):
TTTCAAGAGAAACTATCTAAAGCAAGATAAAATCTTCTG
Found at i:528261 original size:36 final size:36
Alignment explanation
Indices: 528221--528334 Score: 104
Period size: 36 Copynumber: 3.2 Consensus size: 36
528211 CTTTCGAGTG
* *
528221 AAAACGGTCTCAAGCGAGACAAATCTTGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
* ** * * * **
528257 AAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
* *
528293 AAAATAGTCTCAAGTGAGACAAAGT-ATGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAA-TCTTGTTTTAAGA
528329 AAAACA
1 AAAACA
528335 AATTTGAGTG
Statistics
Matches: 56, Mismatches: 21, Indels: 2
0.71 0.27 0.03
Matches are distributed among these distances:
36 55 0.98
37 1 0.02
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.26
Consensus pattern (36 bp):
AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
Found at i:528323 original size:72 final size:75
Alignment explanation
Indices: 528175--528345 Score: 208
Period size: 72 Copynumber: 2.3 Consensus size: 75
528165 TAAAATCTTC
* ** * *
528175 TTAAAAAAAACAGCCTTGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAACGGTCTCAAGCGAGA
1 TTAAGAAAAACAATCTTGAGTGAAATGAAAT-CCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGA
*
528240 CAAATCTTGTT
65 CAAATCATGTT
* *
528251 TTAAGAAAAACAATCTTGAGTGAAAT-AAAT-CTTCTTTCGAG-AAAAATAGTCTCAAGTGAGAC
1 TTAAGAAAAACAATCTTGAGTGAAATGAAATCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGAC
528313 AAAGT-ATGTT
66 AAA-TCATGTT
528323 TTAAGAAAAACAAAT-TTGAGTGA
1 TTAAGAAAAAC-AATCTTGAGTGA
528346 GATAGTCATC
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
72 43 0.51
73 15 0.18
75 4 0.05
76 23 0.27
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (75 bp):
TTAAGAAAAACAATCTTGAGTGAAATGAAATCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGAC
AAATCATGTT
Found at i:529748 original size:183 final size:182
Alignment explanation
Indices: 529373--529908 Score: 921
Period size: 183 Copynumber: 2.9 Consensus size: 182
529363 ATCAGGTTTA
* * *
529373 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGGAGAAAACATCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACAACGAATT
* * * **
529438 TCCAAGTGTCCGAGCAATGTCATGATTTGAATGTAATCTATTCATAAAGCCA-GGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCAAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
* *
529502 TCGTCTATAACCAATTGGCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
130 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
* *
529555 ACTGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACAACGAATT
529620 GCCAAGTGTCCGAGCAGTGTCACAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCA-AGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
529685 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
130 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
529738 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACAACGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACAACGAATT
*
529803 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTTGAGTT
66 GCCAAGTGTCCGAGCAGTGTCA-AGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
529868 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
130 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
529909 CGGATTTAAT
Statistics
Matches: 337, Mismatches: 15, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
182 106 0.31
183 231 0.69
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (182 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACAACGAATT
GCCAAGTGTCCGAGCAGTGTCAAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTT
CCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:533840 original size:5 final size:5
Alignment explanation
Indices: 533830--533878 Score: 70
Period size: 5 Copynumber: 10.6 Consensus size: 5
533820 ATACAAGGGA
533830 AAAAT AAAAT -AAAT AAAAT -AAAT AAAAT -AAAT AAAAT -AAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
533876 AAA
1 AAA
533879 TAAGTAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
4 16 0.40
5 24 0.60
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:533845 original size:9 final size:9
Alignment explanation
Indices: 533831--533881 Score: 102
Period size: 9 Copynumber: 5.7 Consensus size: 9
533821 TACAAGGGAA
533831 AAATAAAAT
1 AAATAAAAT
533840 AAATAAAAT
1 AAATAAAAT
533849 AAATAAAAT
1 AAATAAAAT
533858 AAATAAAAT
1 AAATAAAAT
533867 AAATAAAAT
1 AAATAAAAT
533876 AAATAA
1 AAATAA
533882 GTAAGATAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAATAAAAT
Found at i:533892 original size:5 final size:4
Alignment explanation
Indices: 533831--533881 Score: 57
Period size: 4 Copynumber: 11.5 Consensus size: 4
533821 TACAAGGGAA
533831 AAAT AAAAT AAAT AAAAT AAAT AAAAT AAAT AAAAT AAAT AAAAT AAAT
1 AAAT -AAAT AAAT -AAAT AAAT -AAAT AAAT -AAAT AAAT -AAAT AAAT
533880 AA
1 AA
533882 GTAAGATAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
4 22 0.52
5 20 0.48
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:534453 original size:67 final size:63
Alignment explanation
Indices: 534352--534528 Score: 238
Period size: 61 Copynumber: 2.8 Consensus size: 63
534342 ATATTAAGAA
* * *
534352 ATATATATATATAATAATAA-AATAT-AGTAA-AAAAATAAATGAAAATAATTTAATATATATAT
1 ATATATACATATAATAATAATAACATGAATAATAAAAATAAATGAAAA-AA--TAATATA-ATAT
534414 AT
62 AT
*
534416 ATATATACATATAATAATAATAACATGAATAATAAAAATAAAT--AAAAATAATTTAATATAT
1 ATATATACATATAATAATAATAACATGAATAATAAAAATAAATGAAAAAATAATATAATATAT
*
534477 ATATATACATATAATAATAATAACATGAATAATAAAAATAAATGAATAAATA
1 ATATATACATATAATAATAATAACATGAATAATAAAAATAAATGAAAAAATA
534529 TCCATATAAT
Statistics
Matches: 103, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
61 49 0.48
62 6 0.06
63 6 0.06
64 21 0.20
65 7 0.07
66 4 0.04
67 10 0.10
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (63 bp):
ATATATACATATAATAATAATAACATGAATAATAAAAATAAATGAAAAAATAATATAATATAT
Found at i:534528 original size:18 final size:18
Alignment explanation
Indices: 534487--534525 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
534477 ATATATACAT
*
534487 ATAATAATAATAACATGA
1 ATAATAAAAATAACATGA
534505 ATAATAAAAATAA-ATGA
1 ATAATAAAAATAACATGA
534522 ATAA
1 ATAA
534526 ATATCCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (18 bp):
ATAATAAAAATAACATGA
Found at i:535029 original size:17 final size:18
Alignment explanation
Indices: 535007--535040 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
534997 TGTATTGACA
535007 ATATTATA-TTTAAAAAT
1 ATATTATATTTTAAAAAT
535024 ATATTATATTTTAAAAA
1 ATATTATATTTTAAAAA
535041 GTAATAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTATATTTTAAAAAT
Found at i:536157 original size:14 final size:14
Alignment explanation
Indices: 536138--536166 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
536128 AAACATTATC
536138 ATCTAAAATATATA
1 ATCTAAAATATATA
536152 ATCTAAAATATATA
1 ATCTAAAATATATA
536166 A
1 A
536167 AGAAACCAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
ATCTAAAATATATA
Found at i:543807 original size:241 final size:241
Alignment explanation
Indices: 543384--543866 Score: 948
Period size: 241 Copynumber: 2.0 Consensus size: 241
543374 TAGATGTGAT
543384 TCTTTAGGGCATGATTGAAATCTAGCACATAAGCAAATACTAAACATAATGTTCGGTCTACTTGC
1 TCTTTAGGGCATGATTGAAATCTAGCACATAAGCAAATACTAAACATAATGTTCGGTCTACTTGC
*
543449 GGTTAGATAAAGCAAAGAACCAATCATTGACCTATATAATTTTACATCCACACATTTACCTCCTT
66 GGTTAGATAAAGCAAAGAACCAATCATTGACCTATATAATTTAACATCCACACATTTACCTCCTT
543514 CATCTTTGTCAAGCTTTGTAGATGAGCTCATTAGAGTGGCTTGTGGTTTTCCATTTTCCAATCCA
131 CATCTTTGTCAAGCTTTGTAGATGAGCTCATTAGAGTGGCTTGTGGTTTTCCATTTTCCAATCCA
543579 AACCTTTTGAGCATATCCTTGACGTATTTTGCTTGATTTATGAAGA
196 AACCTTTTGAGCATATCCTTGACGTATTTTGCTTGATTTATGAAGA
543625 TCTTTAGGGCATGATTGAAATCTAGCACATAAGCAAATACTAAACATAATGTTCGGTCTACTTGC
1 TCTTTAGGGCATGATTGAAATCTAGCACATAAGCAAATACTAAACATAATGTTCGGTCTACTTGC
543690 GGTTAGATAAAGCAAAGAACCAATCATTGACCTATATAATTTAACATCCACACATTTACCTCCTT
66 GGTTAGATAAAGCAAAGAACCAATCATTGACCTATATAATTTAACATCCACACATTTACCTCCTT
*
543755 CATCTTTGTCAAGCTTTGTAGATGAGCTCATTGGAGTGGCTTGTGGTTTTCCATTTTCCAATCCA
131 CATCTTTGTCAAGCTTTGTAGATGAGCTCATTAGAGTGGCTTGTGGTTTTCCATTTTCCAATCCA
543820 AACCTTTTGAGCATATCCTTGACGTATTTTGCTTGATTTATGAAGA
196 AACCTTTTGAGCATATCCTTGACGTATTTTGCTTGATTTATGAAGA
543866 T
1 T
543867 GCCATCTTTT
Statistics
Matches: 240, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
241 240 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (241 bp):
TCTTTAGGGCATGATTGAAATCTAGCACATAAGCAAATACTAAACATAATGTTCGGTCTACTTGC
GGTTAGATAAAGCAAAGAACCAATCATTGACCTATATAATTTAACATCCACACATTTACCTCCTT
CATCTTTGTCAAGCTTTGTAGATGAGCTCATTAGAGTGGCTTGTGGTTTTCCATTTTCCAATCCA
AACCTTTTGAGCATATCCTTGACGTATTTTGCTTGATTTATGAAGA
Found at i:551077 original size:2 final size:2
Alignment explanation
Indices: 551070--551100 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
551060 AGTGGGGCTA
551070 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
551101 AGTGTCAATG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:552252 original size:25 final size:24
Alignment explanation
Indices: 552192--552252 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
552182 AAGTATTCAC
* *
552192 TATTAATAATTCAATAATATTATTT
1 TATTAATAA-TAAATAATATAATTT
**
552217 TAAAAATTAATAAATAATATAACTTT
1 TATTAA-TAATAAATAATATAA-TTT
552243 TATTAATAAT
1 TATTAATAAT
552253 TTATTATATA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (24 bp):
TATTAATAATAAATAATATAATTT
Found at i:561809 original size:27 final size:27
Alignment explanation
Indices: 561779--561839 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
561769 AGTAGGAGAA
*
561779 AGGAGTACTGAGCAACCTAATGTATCG-
1 AGGAGTACTGAGCAACCTAAAGTAT-GT
561806 AGGAGTACTGAGCAACCTAAAGTATGT
1 AGGAGTACTGAGCAACCTAAAGTATGT
561833 AGGAGTA
1 AGGAGTA
561840 TATTACAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (27 bp):
AGGAGTACTGAGCAACCTAAAGTATGT
Found at i:572956 original size:55 final size:55
Alignment explanation
Indices: 572801--572956 Score: 158
Period size: 52 Copynumber: 2.9 Consensus size: 55
572791 ATGGGACGAG
* * * ** * *
572801 GTGTGCAAAAATTAAGAAATTCGTAATAGGTTTATGAATTTATGTATGGGCACTTT
1 GTGTGC-AAAACTAAGAAATTCATAATAAGTTTATGAATTTACATATGGGAACTAT
* * * *
572857 GTGTGAAAAAACTAAG--A--CATAATAAGTTTATGAAATTCCTTATGGGAACTAT
1 GTGTG-CAAAACTAAGAAATTCATAATAAGTTTATGAATTTACATATGGGAACTAT
*
572909 GTGTGCAAAACTAAGAAATTCATAATAAATTTATGAATTTACATATGG
1 GTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTACATATGG
572957 CTAGTGGGTG
Statistics
Matches: 80, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
51 9 0.11
52 32 0.40
53 1 0.01
54 1 0.01
55 24 0.30
56 13 0.16
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (55 bp):
GTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTACATATGGGAACTAT
Found at i:573255 original size:81 final size:81
Alignment explanation
Indices: 573103--573756 Score: 902
Period size: 81 Copynumber: 8.1 Consensus size: 81
573093 TGTTCTAAAA
* * * * * *
573103 TAAAAGATTAATGGCCTAGTTGTACATTTGACAAAAAGGTGTC-ATTATGCCAGTTAAATGAAAT
1 TAAAAGATTAATGGCCTAGATGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
573167 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
573183 AAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTATCAATTATGCAAGTTAGATGAAAT
1 TAAAAGATTAATGGCCTAGATGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
573248 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * * *
573264 TAAAAGATTAATGGTCTAG-TCGTGTATTTGACA-AAAAGAGGTCAATTATGCTAGTTAGATTAA
1 TAAAAGATTAATGGCCTAGAT-GTGCATTTGACAGAAATG-TGTCAATTATGCCAGTTAGATGAA
*
573327 AGGTTAAATACATTTGAG
64 AGGTTAAATACCTTTGAG
* * * *
573345 TAAAAGATTAATGGCCTAGCTATGCATTTGATAGAAATGTGTCAGTTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGATGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
573410 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * *
573426 TAAAAGATTAATGGTCAAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGATGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
573491 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
573507 TAAAAGATTAATGGCCTAGATGTGCATTTGACAGAAA-GATGTCAATTATGCCAGTTAGATGAAA
1 TAAAAGATTAATGGCCTAGATGTGCATTTGACAGAAATG-TGTCAATTATGCCAGTTAGATGAAA
*
573571 GGTTAAATATCTTTGAG
65 GGTTAAATACCTTTGAG
* *
573588 TAAAAGATTAATGGCCTAGATTTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGATGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
*
573653 ATTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* ** * * * * * *
573669 TAAAAGACTAAAAGTCTAAATGTGCCTTTGGCAGAAAAGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGATGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
*
573734 GTTAAATACCTTTGGG
66 GTTAAATACCTTTGAG
573750 TAAAAGA
1 TAAAAGA
573757 CTAAATTTCT
Statistics
Matches: 515, Mismatches: 52, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
80 43 0.08
81 466 0.90
82 6 0.01
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (81 bp):
TAAAAGATTAATGGCCTAGATGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:573908 original size:2 final size:2
Alignment explanation
Indices: 573901--573953 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
573891 GAAGAATGCC
573901 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
573943 AT AT AT AT AT A
1 AT AT AT AT AT A
573954 AACAGTGCAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:578354 original size:55 final size:56
Alignment explanation
Indices: 578172--578337 Score: 262
Period size: 56 Copynumber: 3.0 Consensus size: 56
578162 ATTACCAAAT
*
578172 GGCACTAGGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTATGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * * * *
578228 GGCACTTTGTGTGCAAAAACTAACAAATTCATAATAAGTTTATGAAATCCCTTATG
1 GGCACTATGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
*
578284 GGCACTATGTGTGC-AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
1 GGCACTATGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
578338 AGGTAGTGCT
Statistics
Matches: 98, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
55 35 0.36
56 63 0.64
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (56 bp):
GGCACTATGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
Found at i:578624 original size:81 final size:81
Alignment explanation
Indices: 578485--578952 Score: 588
Period size: 81 Copynumber: 5.8 Consensus size: 81
578475 TGTTCTAAAA
* * * * *
578485 TAAAATATTAATGACCTAGTTGTGCATTTGACAGAAATG-TGTCACTTATGCCAATTAGATGAAA
1 TAAAAGATTAATGGCCTAGATGTGCATTTGACAGAAA-GATGTCAATTATGCCAGTTAGATGAAA
578549 GGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* * *
578566 TAAAAGATTAATGGCCTAGCTGTGCATTTGACATAAAGATGTCAATTATGTCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGATGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAAAG
578631 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* *
578647 TAAAATATTAATGGCCTAGATTTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGATGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAAAG
*
578712 GTTAAATATCTTTGAG
66 GTTAAATACCTTTGAG
*
578728 TAAAAGATTAATGGCCTAGAAT-TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
1 TAAAAGATTAATGGCCTAG-ATGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAAA
*
578792 GATTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* ** * * * *
578809 TAAAAGACTAAAAGTCTAAATGTGCCTTTGGCAGAAA-AGTGTCAATTATGCCAGTTAGATGAAA
1 TAAAAGATTAATGGCCTAGATGTGCATTTGACAGAAAGA-TGTCAATTATGCCAGTTAGATGAAA
*
578873 GGTTAAATACCTTTGGG
65 GGTTAAATACCTTTGAG
* ** * * * *
578890 TAAAAGACTAAAT-TTCTA-ACGGTTCATTTGGCAGAAAGATGTCAATAATG-CATGTTAGATGA
1 TAAAAGA-TTAATGGCCTAGA-TGTGCATTTGACAGAAAGATGTCAATTATGCCA-GTTAGATGA
578952 A
63 A
578953 GGACTAATTG
Statistics
Matches: 344, Mismatches: 35, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
80 6 0.02
81 333 0.97
82 5 0.01
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (81 bp):
TAAAAGATTAATGGCCTAGATGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:583459 original size:55 final size:56
Alignment explanation
Indices: 583277--583442 Score: 262
Period size: 56 Copynumber: 3.0 Consensus size: 56
583267 ATTACCAAAT
*
583277 GGCACTAGGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTATGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * * * *
583333 GGCACTTTGTGTGCAAAAACTAACAAATTCATAATAAGTTTATGAAATCCCTTATG
1 GGCACTATGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
*
583389 GGCACTATGTGTGC-AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
1 GGCACTATGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
583443 AGGTAGTGCT
Statistics
Matches: 98, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
55 35 0.36
56 63 0.64
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (56 bp):
GGCACTATGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
Found at i:584836 original size:81 final size:81
Alignment explanation
Indices: 583590--584811 Score: 1725
Period size: 81 Copynumber: 15.1 Consensus size: 81
583580 TGTTCTAAAA
* * * * *
583590 TAAAATATTAATGACCTAGTTGTGCATTTGACAGAAATGTGTCACTTATGCCAATTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
*
583655 GTTAAATACTTTTGAG
66 GTTAAATACCTTTGAG
* *
583671 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAA-GATGTCAATTATGTCAGTTAGATGATA
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATG-TGTCAATTATGCCAGTTAGATGAAA
583735 GGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* * *
583752 TAAAATATTAATGGCCTAGCAGTCCATTTGACAGAAA-GATGTCAATTATG-CATGTTAGATGAA
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATG-TGTCAATTATGCCA-GTTAGATGAA
* *
583815 AAGTTGAATACCTTTGAG
64 AGGTTAAATACCTTTGAG
* * * * * *
583833 TAAAAGATTAATGGCCTAGCTGTGCAATTGATAGAAAGGTGTGAATTATGCCAGTTATATGAAAT
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
583898 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
583914 TAAAAGATTAATGGCCTAGCTGTGCATTTGATAGAAATGTGTCGATTATGCTAGTTAGATGAAAT
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
583979 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
583995 TAAAAGATTAATGGCCTACCTGTGTATTTGACAAAAAGGTGTCAATTATGTCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
584060 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* *
584076 TAAAATATTAATGGCCTAGCTGTGCATTTGACAAAAATGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
*
584141 GTTAAATACCGTTGAG
66 GTTAAATACCTTTGAG
* *
584157 TAAAAGATTAATGGCCTAGCTGTGCATTTGATAGAAATGTGTCAATTATACCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
584222 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
584238 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
*
584303 GTTAAATAGCTTTGAG
66 GTTAAATACCTTTGAG
* * ** * *
584319 TAAAAGACTAATGG-CTAAGTTGTGCATTTGACAGAAATGTGTTTATTATGCCAATTAAATGAAA
1 TAAAAGATTAATGGCCT-AGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAA
584383 GGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* * *
584400 TAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCAAGTTAGATG-AAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
584464 GTTTAAATACCTTTGAG
66 G-TTAAATACCTTTGAG
* ** * *
584481 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATATCAGTCAGATGAAAT
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
584546 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * * *
584562 TAAAAGATTAATTGCCTAGCTTTGCATTTGACATAAATATGTCAATTACGCCAGTTTGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
584627 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
584643 TAAAAGATTAATGGCCTAGTTGTCCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
584708 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* ** * * * * * * * *
584724 TAAAAGACTAAAAGCGTAACAGTTCCTTTGGCGGAAATGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
* *
584789 GTTAAATACATTTGGG
66 GTTAAATACCTTTGAG
584805 TAAAAGA
1 TAAAAGA
584812 CTAAATGTCT
Statistics
Matches: 1024, Mismatches: 109, Indels: 16
0.89 0.09 0.01
Matches are distributed among these distances:
80 9 0.01
81 1007 0.98
82 8 0.01
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (81 bp):
TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:586733 original size:19 final size:18
Alignment explanation
Indices: 586705--586741 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
586695 TTCCAAACAC
*
586705 TAGCTATAATTATTATAA
1 TAGCTATAATAATTATAA
586723 TAGCTTATAATAATTATAA
1 TAGC-TATAATAATTATAA
586742 ATATCAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (18 bp):
TAGCTATAATAATTATAA
Found at i:589323 original size:17 final size:17
Alignment explanation
Indices: 589295--589342 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
589285 GTTTCTCATC
589295 ATTTTATATTATTTAATT
1 ATTTT-TATTATTTAATT
*
589313 ATTTTTATTATTTTATT
1 ATTTTTATTATTTAATT
* *
589330 ACTTTCATTATTT
1 ATTTTTATTATTT
589343 TAAACCCCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 22 0.81
18 5 0.19
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTATTATTTAATT
Found at i:593973 original size:20 final size:20
Alignment explanation
Indices: 593945--593982 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
593935 GATTTTTAAA
* *
593945 TATAGTAGTATTGATACTAC
1 TATAATAGTATTAATACTAC
593965 TATAATAGTATTAATACT
1 TATAATAGTATTAATACT
593983 TGTCAATAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (20 bp):
TATAATAGTATTAATACTAC
Found at i:600064 original size:13 final size:13
Alignment explanation
Indices: 600042--600103 Score: 106
Period size: 13 Copynumber: 4.8 Consensus size: 13
600032 CCTCGATAAG
*
600042 GTATCGATACTCA
1 GTATCAATACTCA
600055 GTATCAATACTCA
1 GTATCAATACTCA
*
600068 ATATCAATACTCA
1 GTATCAATACTCA
600081 GTATCAATACTCA
1 GTATCAATACTCA
600094 GTATCAATAC
1 GTATCAATAC
600104 CGTCCAGTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
GTATCAATACTCA
Found at i:602019 original size:20 final size:20
Alignment explanation
Indices: 601991--602028 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
601981 GATTTTTAAA
*
601991 TATAGTAGTATCGATACTAC
1 TATAATAGTATCGATACTAC
602011 TATAATAGTATCGATACT
1 TATAATAGTATCGATACT
602029 TGTTAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (20 bp):
TATAATAGTATCGATACTAC
Found at i:604106 original size:17 final size:17
Alignment explanation
Indices: 604062--604098 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
604052 CAACTGTTGT
*
604062 AAAAAAT-GAAAAATTA
1 AAAAAATAGAAAAATGA
604078 AAAAAATAGAAAAATGA
1 AAAAAATAGAAAAATGA
604095 AAAA
1 AAAA
604099 GTTAGAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (17 bp):
AAAAAATAGAAAAATGA
Found at i:604668 original size:20 final size:20
Alignment explanation
Indices: 604608--604670 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
604598 ATTGACGAGT
*
604608 TTCATAATGAGAAGAACTTG
1 TTCATAACGAGAAGAACTTG
* *
604628 TCCATAGAAGGAGAA-AA--TG
1 TTCAT--AACGAGAAGAACTTG
604647 TTCATAACGAGAAGAACTTG
1 TTCATAACGAGAAGAACTTG
604667 TTCA
1 TTCA
604671 ACCTTGGCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 7 0.21
18 2 0.06
19 6 0.18
20 10 0.29
21 2 0.06
22 7 0.21
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (20 bp):
TTCATAACGAGAAGAACTTG
Found at i:604769 original size:116 final size:116
Alignment explanation
Indices: 604608--604973 Score: 381
Period size: 116 Copynumber: 3.2 Consensus size: 116
604598 ATTGACGAGT
* *
604608 TTCATAATGAGAAGAACTTGTCCATAGAAGGAGAA-AATGTTCATAACGAGAAGAACTTGTTCAA
1 TTCATAATGAGAAGAACTTGTCCAAAGAAGGAGAAGAA-GTTCATAATGAGAAGAACTTGTTCAA
* * *
604672 CCTTGGCCCATCCATCACAAAAGGAGATG-A-ATCA-TCATTTCCAATGAATGAG
65 CTTTGGCTCATCCATCACAAAA--AGATGTATATCAGT-ATTTCCAATGAAGGAG
** *
604724 TTCATAATGAGATTAACTTGTCCAAAG-AGGAAGAAGAAGTTCATAATAAGAAGAGA-TTGTTCA
1 TTCATAATGAGAAGAACTTGTCCAAAGAAGG-AGAAGAAGTTCATAATGAGAAGA-ACTTGTTCA
* * * * *
604787 ACTTTAGCTCATCCATCAGAGAAAGATGTATATCAGTATTTTCAATGGAGGAG
64 ACTTTGGCTCATCCATCACAAAAAGATGTATATCAGTATTTCCAATGAAGGAG
* * * * *
604840 TTCATAATGAGAAGAACTTATCCAGAGAAGGAGAAGAAGTTCATAATGAGAAGAACCTGCTCAAT
1 TTCATAATGAGAAGAACTTGTCCAAAGAAGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
* * * *
604905 TTTGGCTCATCCATCACAGAATGAGGTGGAT-TC-GTATTACCAATGGAAGG-G
66 TTTGGCTCATCCATCACA-AA-AAGATGTATATCAGTATTTCCAAT-GAAGGAG
*
604956 TTCATAATGAGAAAAACT
1 TTCATAATGAGAAGAACT
604974 CAAACGATGA
Statistics
Matches: 208, Mismatches: 31, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
114 5 0.02
115 5 0.02
116 178 0.86
117 14 0.07
118 6 0.03
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.26
Consensus pattern (116 bp):
TTCATAATGAGAAGAACTTGTCCAAAGAAGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
TTTGGCTCATCCATCACAAAAAGATGTATATCAGTATTTCCAATGAAGGAG
Found at i:607413 original size:138 final size:139
Alignment explanation
Indices: 607213--607599 Score: 327
Period size: 140 Copynumber: 2.8 Consensus size: 139
607203 CGCTGAACTT
* * * * * * * **
607213 TTTAATTTAGTTGAATATTCGCTTTGGTCCTCTCTTCTAT-ACTCAAGGTTCCATTTGGATTATT
1 TTTAATTTAGTTGAATATTTGATTTGATCCTCACTTTTATGCCT-GAGGTTCCATTTCAATTATT
* * * *
607277 AGACTCAAAAATTTGA-TAAAAATAACTAGGGTTAAT-ATTAGAGCTTCAACTTAAGTTTAATTT
65 AGACTCAAAAA-TTCATTAAAAATAACTAGGATTAATAATTAGAGCTTCAACTTAAGATAAATTT
*
607340 CACTTTACTCC
129 CACTCTACTCC
* *
607351 TTTAATTTAGTTGAATATTTGATTTGATCCTCACTTTTATGCCTGAGGTTCAATTTCAATTATTC
1 TTTAATTTAGTTGAATATTTGATTTGATCCTCACTTTTATGCCTGAGGTTCCATTTCAATTATTA
* * * *** * * *
607416 GATTCAATAATTCATTAAAATTGGTTAGGATTAATAATTAGAGCTTCTATTTTAGATAAATTTCA
66 GACTCAAAAATTCATTAAAAATAACTAGGATTAATAATTAGAGCTTCAACTTAAGATAAATTTCA
*
607481 CTCTAGTCC
131 CTCTACTCC
* * * * *
607490 TTTAACTTTAGGTGAATTTTTTATTT-AGTCCTCA-TATTTTTGCCCGAGGTTCCATTTCAATTA
1 TTTAA-TTTAGTTGAATATTTGATTTGA-TCCTCACT-TTTATGCCTGAGGTTCCATTTCAATTA
* * * * * ***
607553 TTCGATTCCATAATTCGTT-AAAATCGGTTAGGATTAATAATTAGAGC
63 TTAGACTCAAAAATTCATTAAAAAT-AACTAGGATTAATAATTAGAGC
607600 CTAAATTTTA
Statistics
Matches: 207, Mismatches: 35, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
137 3 0.01
138 74 0.36
139 44 0.21
140 86 0.42
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.43
Consensus pattern (139 bp):
TTTAATTTAGTTGAATATTTGATTTGATCCTCACTTTTATGCCTGAGGTTCCATTTCAATTATTA
GACTCAAAAATTCATTAAAAATAACTAGGATTAATAATTAGAGCTTCAACTTAAGATAAATTTCA
CTCTACTCC
Found at i:607547 original size:140 final size:139
Alignment explanation
Indices: 607303--607599 Score: 393
Period size: 140 Copynumber: 2.1 Consensus size: 139
607293 TAAAAATAAC
* * * * *
607303 TAGGGTTAAT-ATTAGAGCTTCAACTTAAGTTTAATTTCACTTTACTCCTTTAATTTAGTTGAAT
1 TAGGATTAATAATTAGAGCTTCAACTTAAGATAAATTTCACTCTACTCCTTTAATTTAGGTGAAT
*
607367 ATTTGATTTGATCCTCACTTTTATGCCTGAGGTTCAATTTCAATTATTCGATTCAATAATTCATT
66 ATTTGATTTGATCCTCACTTTTATGCCCGAGGTTCAATTTCAATTATTCGATTCAATAATTCATT
*
607432 AAAATTGGT
131 AAAATCGGT
* * * *
607441 TAGGATTAATAATTAGAGCTTCTATTTTAGATAAATTTCACTCTAGTCCTTTAACTTTAGGTGAA
1 TAGGATTAATAATTAGAGCTTCAACTTAAGATAAATTTCACTCTACTCCTTTAA-TTTAGGTGAA
* * * * *
607506 TTTTTTATTT-AGTCCTCA-TATTTTTGCCCGAGGTTCCATTTCAATTATTCGATTCCATAATTC
65 TATTTGATTTGA-TCCTCACT-TTTATGCCCGAGGTTCAATTTCAATTATTCGATTCAATAATTC
*
607569 GTTAAAATCGGT
128 ATTAAAATCGGT
607581 TAGGATTAATAATTAGAGC
1 TAGGATTAATAATTAGAGC
607600 CTAAATTTTA
Statistics
Matches: 138, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
138 9 0.07
139 38 0.28
140 91 0.66
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (139 bp):
TAGGATTAATAATTAGAGCTTCAACTTAAGATAAATTTCACTCTACTCCTTTAATTTAGGTGAAT
ATTTGATTTGATCCTCACTTTTATGCCCGAGGTTCAATTTCAATTATTCGATTCAATAATTCATT
AAAATCGGT
Found at i:609420 original size:72 final size:72
Alignment explanation
Indices: 609335--609637 Score: 299
Period size: 72 Copynumber: 4.2 Consensus size: 72
609325 TCTGCACCCA
* * * * * *
609335 CTTCAACTTTTTCTTCCTTCCCGTTTGCTGATTCTGCTTGTTCTTGACTTTCAGG-GACCATATT
1 CTTCAACTGTTTCCTGCTTCCCCTTTGCTGATTCTGCTTGTACATGACTTTCAGGAG-CCATATT
609399 TGCTTCCT
65 TGCTTCCT
* ** *** * *
609407 CTTCAACTGTTTCTTGCTT-CCCTTGTGCTTCTTCTGCTTGTACAACTCTTTTAGGATCCATATT
1 CTTCAACTGTTTCCTGCTTCCCCTT-TGCTGATTCTGCTTGTACATGACTTTCAGGAGCCATATT
*
609471 TGTTTCCT
65 TGCTTCCT
* *
609479 CTTCAACTGTTTCCTGCTTCCCCTCTT-CTGGTTCTGCTTGTACACGACTTTCAGGAGCCATATT
1 CTTCAACTGTTTCCTGCTTCCCCT-TTGCTGATTCTGCTTGTACATGACTTTCAGGAGCCATATT
*
609543 TGTTTCCT
65 TGCTTCCT
* * ** * * * *
609551 CTTCAACTATTTCCTGTTTCCCCTCCGCT-ACTTCTGCTTGTACTTGACTTTCAGGAACGACATT
1 CTTCAACTGTTTCCTGCTTCCCCTTTGCTGA-TTCTGCTTGTACATGACTTTCAGGAGCCATATT
609615 TGCTTCCT
65 TGCTTCCT
*
609623 GTTCAACTGTTTCCT
1 CTTCAACTGTTTCCT
609638 TTTCCCCATC
Statistics
Matches: 191, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
71 4 0.02
72 181 0.95
73 5 0.03
74 1 0.01
ACGTcount: A:0.13, C:0.29, G:0.14, T:0.45
Consensus pattern (72 bp):
CTTCAACTGTTTCCTGCTTCCCCTTTGCTGATTCTGCTTGTACATGACTTTCAGGAGCCATATTT
GCTTCCT
Found at i:609616 original size:144 final size:144
Alignment explanation
Indices: 609335--609637 Score: 340
Period size: 144 Copynumber: 2.1 Consensus size: 144
609325 TCTGCACCCA
* * * * **
609335 CTTCAACTTTTTCTTCCTTCCCGTTTGCTGATTCTGCTTGTTCTTGACTTTCAGGGACCATATTT
1 CTTCAACTGTTTCCTCCTTCCCCTTTGCTGATTCTGCTTGTACACGACTTTCAGGGACCATATTT
* * * ** * * * *
609400 GCTTCCTCTTCAACTGTTTCTTGCTTCCCTTGTGCTTCTTCTGCTTGTACAACTCTTTTAGGATC
66 GCTTCCTCTTCAACTATTTCCTGCTTCCCCTCCGCTACTTCTGCTTGTACAACACTTTCAGGAAC
* *
609465 CATATTTGTTTCCT
131 CACATTTGCTTCCT
* *
609479 CTTCAACTGTTTCCTGCTTCCCCTCTT-CTGGTTCTGCTTGTACACGACTTTCA-GGAGCCATAT
1 CTTCAACTGTTTCCTCCTTCCCCT-TTGCTGATTCTGCTTGTACACGACTTTCAGGGA-CCATAT
* * ***
609542 TTGTTTCCTCTTCAACTATTTCCTGTTTCCCCTCCGCTACTTCTGCTTGTACTTGACTTTCAGGA
64 TTGCTTCCTCTTCAACTATTTCCTGCTTCCCCTCCGCTACTTCTGCTTGTACAACACTTTCAGGA
*
609607 ACGACATTTGCTTCCT
129 ACCACATTTGCTTCCT
*
609623 GTTCAACTGTTTCCT
1 CTTCAACTGTTTCCT
609638 TTTCCCCATC
Statistics
Matches: 131, Mismatches: 26, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
143 3 0.02
144 126 0.96
145 2 0.02
ACGTcount: A:0.13, C:0.29, G:0.14, T:0.45
Consensus pattern (144 bp):
CTTCAACTGTTTCCTCCTTCCCCTTTGCTGATTCTGCTTGTACACGACTTTCAGGGACCATATTT
GCTTCCTCTTCAACTATTTCCTGCTTCCCCTCCGCTACTTCTGCTTGTACAACACTTTCAGGAAC
CACATTTGCTTCCT
Found at i:609667 original size:72 final size:72
Alignment explanation
Indices: 609366--609703 Score: 320
Period size: 72 Copynumber: 4.7 Consensus size: 72
609356 CGTTTGCTGA
* * * * *
609366 TTCTGCTTGTTCTTGACTTTCAGGGACCATATTTGCTTCCTCTTCAACTGTTTCTTGCTT-CCCT
1 TTCTGCTTGTACTTGACTTTCAGGAACCACATTTGCTTCCTCTTCAACTGTTTCCTGTTTCCCCT
** *
609430 TGTGCTTC
66 CCT-CTGC
**** * * * * *
609438 TTCTGCTTGTACAACTCTTTTAGGATCCATATTTGTTTCCTCTTCAACTGTTTCCTGCTTCCCCT
1 TTCTGCTTGTACTTGACTTTCAGGAACCACATTTGCTTCCTCTTCAACTGTTTCCTGTTTCCCCT
* *
609503 CTTCTGG
66 CCTCTGC
** * * * *
609510 TTCTGCTTGTACACGACTTTCAGGAGCCATATTTGTTTCCTCTTCAACTATTTCCTGTTTCCCCT
1 TTCTGCTTGTACTTGACTTTCAGGAACCACATTTGCTTCCTCTTCAACTGTTTCCTGTTTCCCCT
* *
609575 CCGCTAC
66 CCTCTGC
* *
609582 TTCTGCTTGTACTTGACTTTCAGGAACGACATTTGCTTCCTGTTCAACTGTTTCCT-TTTCCCCA
1 TTCTGCTTGTACTTGACTTTCAGGAACCACATTTGCTTCCTCTTCAACTGTTTCCTGTTTCCCC-
*
609646 TCCTCTGT
65 TCCTCTGC
* * * * * *
609654 TTCGGCTTCTACTTGGCTTTGAGAAACCACATTGGCTTCCTCTTCAACTG
1 TTCTGCTTGTACTTGACTTTCAGGAACCACATTTGCTTCCTCTTCAACTG
609704 ATTCAATCCC
Statistics
Matches: 220, Mismatches: 44, Indels: 4
0.82 0.16 0.01
Matches are distributed among these distances:
71 7 0.03
72 208 0.95
73 5 0.02
ACGTcount: A:0.14, C:0.29, G:0.14, T:0.43
Consensus pattern (72 bp):
TTCTGCTTGTACTTGACTTTCAGGAACCACATTTGCTTCCTCTTCAACTGTTTCCTGTTTCCCCT
CCTCTGC
Found at i:618827 original size:22 final size:22
Alignment explanation
Indices: 618802--618868 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
618792 GAAAAAATGC
618802 AAATGGGTACCGATACCCCTAT
1 AAATGGGTACCGATACCCCTAT
** * **
618824 AAATGGGTGTCAATACCCAAGAT
1 AAATGGGTACCGATACCC-CTAT
* *
618847 GAATGGGTACCGATTCCCCTAT
1 AAATGGGTACCGATACCCCTAT
618869 GTGTATCGAT
Statistics
Matches: 32, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
22 17 0.53
23 15 0.47
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (22 bp):
AAATGGGTACCGATACCCCTAT
Found at i:618910 original size:22 final size:22
Alignment explanation
Indices: 618882--618925 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
618872 TATCGATGCC
*
618882 CTGGGTATCGATACCCCTATGA
1 CTGGGTATCAATACCCCTATGA
618904 CTGGGTATCAATACCCCTATGA
1 CTGGGTATCAATACCCCTATGA
618926 AGGCTTAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (22 bp):
CTGGGTATCAATACCCCTATGA
Found at i:618977 original size:18 final size:19
Alignment explanation
Indices: 618950--619003 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
618940 AATTCAAAAA
*
618950 GGGTACCGATACCCCT-AT
1 GGGTATCGATACCCCTAAT
618968 GGGTATCGATACCCCTACAT
1 GGGTATCGATACCCCTA-AT
*
618988 GGGTATCAATACCCCT
1 GGGTATCGATACCCCT
619004 TAGCTCCAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 15 0.47
20 17 0.53
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (19 bp):
GGGTATCGATACCCCTAAT
Found at i:619437 original size:33 final size:33
Alignment explanation
Indices: 619368--619437 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
619358 TTTTGTAAAG
* * *
619368 GGGAAAGGTTCTAGCTGATCCCGTGAAAAGCTA
1 GGGAAAGGTTCTAGCTGAGCCCGTGAAAAACAA
* *
619401 GGGAAAGGTTCTAGTTTAGCCCGTGAAAAACAA
1 GGGAAAGGTTCTAGCTGAGCCCGTGAAAAACAA
619434 GGGA
1 GGGA
619438 GTTTGTAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.20
Consensus pattern (33 bp):
GGGAAAGGTTCTAGCTGAGCCCGTGAAAAACAA
Found at i:621292 original size:33 final size:34
Alignment explanation
Indices: 621247--621312 Score: 98
Period size: 33 Copynumber: 1.9 Consensus size: 34
621237 AATGCAAAAA
621247 GGGTACCAATACCCCT-ATGGGTATCAATACCTT
1 GGGTACCAATACCCCTCATGGGTATCAATACCTT
* *
621280 GGGTACCGATACCCCTGCGTGGGTATCAATACC
1 GGGTACCAATACCCCT-CATGGGTATCAATACC
621313 CCCTGGCTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 15 0.52
35 14 0.48
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (34 bp):
GGGTACCAATACCCCTCATGGGTATCAATACCTT
Found at i:621745 original size:33 final size:33
Alignment explanation
Indices: 621703--621772 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
621693 TTTTGTAAAG
* *
621703 GGGAAAGGTTCTAGCTGATCCCGTGAAAATCTA
1 GGGAAAGGTTCTAGCTGAGCCCGTGAAAAACTA
* *
621736 GGGAAAGGTTCTAGTTTAGCCCGTGAAAAACTA
1 GGGAAAGGTTCTAGCTGAGCCCGTGAAAAACTA
621769 GGGA
1 GGGA
621773 GTTTGTAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (33 bp):
GGGAAAGGTTCTAGCTGAGCCCGTGAAAAACTA
Found at i:623295 original size:20 final size:20
Alignment explanation
Indices: 623267--623304 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
623257 AGTTTATAAG
623267 AACTCAAAATAATATAAATA
1 AACTCAAAATAATATAAATA
*
623287 AACTTAAAATAATATAAA
1 AACTCAAAATAATATAAA
623305 ATAATATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (20 bp):
AACTCAAAATAATATAAATA
Found at i:629516 original size:18 final size:19
Alignment explanation
Indices: 629493--629528 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
629483 AATAAAATTC
*
629493 TTTCACAT-AAAGCAAGTA
1 TTTCACATCAAACCAAGTA
629511 TTTCACATCAAACCAAGT
1 TTTCACATCAAACCAAGT
629529 CTAGATCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (19 bp):
TTTCACATCAAACCAAGTA
Found at i:635229 original size:21 final size:21
Alignment explanation
Indices: 635180--635229 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
635170 TCCAGATTCA
635180 CAATGCGAACTTCGACTATCG
1 CAATGCGAACTTCGACTATCG
*
635201 CAACGCGAACTTCGACTATCG
1 CAATGCGAACTTCGACTATCG
*
635222 CATTGCGA
1 CAATGCGA
635230 TTTACATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (21 bp):
CAATGCGAACTTCGACTATCG
Found at i:635264 original size:21 final size:21
Alignment explanation
Indices: 635238--635403 Score: 113
Period size: 21 Copynumber: 7.6 Consensus size: 21
635228 GATTTACATA
635238 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
635259 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* ** *
635280 TTCGCGTTGCGATTTTCCAAA
1 TTCGCATTGCGATAGTCCAAG
* * * *
635301 TTCGACTATTGCAACGCGA-ACTTCGAC
1 TTCG-C-ATT-----GCGATAGTCCAAG
* *
635328 TATCGCATTGCGAT-TTACATA-
1 T-TCGCATTGCGATAGTCCA-AG
635349 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
635370 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
**
635391 TTCGTGTTGCGAT
1 TTCGCATTGCGAT
635404 TTTTCAAATT
Statistics
Matches: 115, Mismatches: 18, Indels: 24
0.73 0.11 0.15
Matches are distributed among these distances:
20 13 0.11
21 83 0.72
22 2 0.02
23 2 0.02
26 3 0.03
27 5 0.04
28 7 0.06
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:635384 original size:111 final size:111
Alignment explanation
Indices: 635190--635494 Score: 495
Period size: 111 Copynumber: 2.7 Consensus size: 111
635180 CAATGCGAAC
635190 TTCGACTATCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTC
1 TTCGACTATCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTC
635255 CAAGTTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAA
66 CAAGTTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAA
*
635301 TTCGACTATTGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTC
1 TTCGACTATCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTC
* * *
635366 CAAGTTCGCATTGCGATAGTCGAAGTTCGTGTTGCGATTTTTCAAA
66 CAAGTTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAA
* * * * *
635412 TTCGACTATCGCAACGCGAACATCGACTATCGCAATGCGATTTTCCAAATTTGCATTGCGATAG-
1 TTCGACTATCGCAACGCGAACTTCGACTATCGCATTGCGA-TTTACATATTCGCATTGCGATAGT
*
635476 CCGAAGTTCGCGTTGCGAT
65 CC-AAGTTCGCATTGCGAT
635495 TTATTCCAAA
Statistics
Matches: 181, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
111 146 0.81
112 35 0.19
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (111 bp):
TTCGACTATCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTC
CAAGTTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAA
Found at i:636040 original size:19 final size:20
Alignment explanation
Indices: 635997--636041 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
635987 TGCTATGCTG
* *
635997 GAAATTTATGTTAGAGTGTT
1 GAAATTGATGTTAGAATGTT
636017 GAAATTGATGTTAGAATG-T
1 GAAATTGATGTTAGAATGTT
636036 GAAATT
1 GAAATT
636042 AGGTCATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (20 bp):
GAAATTGATGTTAGAATGTT
Found at i:637691 original size:18 final size:18
Alignment explanation
Indices: 637664--637724 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 18
637654 TGATATTAAG
637664 AAAA-AAAATAATAGAAA
1 AAAATAAAATAATAGAAA
*
637681 AAAATAAAATAA-AG-TA
1 AAAATAAAATAATAGAAA
* *
637697 AAAATATAATATATATAAA
1 AAAATAAAATA-ATAGAAA
*
637716 TAAATAAAA
1 AAAATAAAA
637725 ACAAAAATAG
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 11 0.32
17 7 0.21
18 8 0.24
19 8 0.24
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.21
Consensus pattern (18 bp):
AAAATAAAATAATAGAAA
Found at i:637840 original size:2 final size:2
Alignment explanation
Indices: 637828--637878 Score: 61
Period size: 2 Copynumber: 26.0 Consensus size: 2
637818 TTAATACATC
*
637828 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TGA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
*
637870 -A GA TA TA TA
1 TA TA TA TA TA
637879 AAATAAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
1 2 0.05
2 39 0.91
3 2 0.05
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (2 bp):
TA
Found at i:640277 original size:67 final size:65
Alignment explanation
Indices: 640161--640481 Score: 234
Period size: 65 Copynumber: 4.8 Consensus size: 65
640151 AAGATATCTG
* * **
640161 TTGTTTCATGA-AAA-TGGTCTCAAGGGAAACAAAATTTTGTTTTAAGGGAAATAAATTTGAAGA
1 TTGTTTCAAGAGAAACT-GTCTCAAGGGAGACAAAA-TTTGTTTTAAGGGAAATAAATTCAAAGA
640224 TTT
64 -TT
*
640227 TGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
640292 T
65 T
* * * * * *
640293 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAG
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA-----T--A-A-AT
* **
640358 ACAAA-ACG
57 TCAAAGATT
* * * * * * * *** * * *
640366 TAGTTCCAAAAGAAAATGTCTCAAGGGAGACGAAATTTATTTCAAATAAAACATATTCAAATATT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
* * *
640431 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA
640482 CTGTCTCAAG
Statistics
Matches: 200, Mismatches: 42, Indels: 27
0.74 0.16 0.10
Matches are distributed among these distances:
64 5 0.03
65 85 0.43
66 5 0.03
67 34 0.17
68 20 0.10
69 1 0.00
70 1 0.00
72 1 0.00
73 43 0.22
74 5 0.03
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:640329 original size:65 final size:67
Alignment explanation
Indices: 640125--640343 Score: 232
Period size: 65 Copynumber: 3.3 Consensus size: 67
640115 AAAGAGATAG
* * * * *
640125 AATTCGTTTCAAGGGAAA-AGATCTCAAAGATATCTGTTGTTTCATGA-AAA-TGGTCTCAAGGG
1 AATTTGTTTTAAGGGAAATAAAT-TCAAAGAT-TTTG-TGTTTCAAGAGAAACT-GTCTCAAGGG
*
640187 AAACAA
62 AGACAA
**
640193 AATTTTGTTTTAAGGGAAATAAATTTGAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGA
1 AA-TTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGA
640258 CAA
65 CAA
* * *
640261 AATTTGTTTTAGGGGAAATAAATTCAAAGA-TTT-TGTTTCAAGGGAAACTGTCTCAAGAGAGAC
1 AATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGAC
*
640324 GA
66 AA
* *
640326 AATTTGTTTCAAGAGAAA
1 AATTTGTTTTAAGGGAAA
640344 CTGTCTCAAG
Statistics
Matches: 130, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
65 44 0.34
66 3 0.02
67 34 0.26
68 25 0.19
69 21 0.16
70 3 0.02
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (67 bp):
AATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGAC
AA
Found at i:640344 original size:36 final size:36
Alignment explanation
Indices: 640292--640598 Score: 216
Period size: 36 Copynumber: 8.9 Consensus size: 36
640282 ATTCAAAGAT
640292 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
* *
640328 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
* * * ** * *
640364 CGTAGTTCCAAAAGAAAATGTCTCAAGGGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
* *** * * *
640401 TTTATTTCAAATAAAACATAT-TC---A-A-A--TAT
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACGAAA
*
640430 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
640466 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
* * * *
640502 TTTATTTCAAGGGAAA-TGTTTTC-----A-ATG--T
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACGAAA
* * *
640530 TTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
1 TT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
* *
640567 TTTTGTTTCAAGGGAAACTATCTCAAGCGAGA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
640599 TAAAATCTTC
Statistics
Matches: 208, Mismatches: 41, Indels: 43
0.71 0.14 0.15
Matches are distributed among these distances:
28 4 0.02
29 31 0.15
30 4 0.02
31 2 0.01
32 2 0.01
33 1 0.00
34 2 0.01
35 3 0.01
36 100 0.48
37 57 0.27
38 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
Found at i:640389 original size:37 final size:36
Alignment explanation
Indices: 640304--640396 Score: 114
Period size: 37 Copynumber: 2.6 Consensus size: 36
640294 TGTTTCAAGG
* * * * *
640304 GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAAGTAGTTCCAAAA
640340 GAAACTGTCTCAAGAGAGACAAAACGTAGTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAA-GTAGTTCCAAAA
* *
640377 GAAAATGTCTCAAGGGAGAC
1 GAAACTGTCTCAAGAGAGAC
640397 GAAATTTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 23 0.47
37 26 0.53
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACAAAAGTAGTTCCAAAA
Found at i:640391 original size:138 final size:138
Alignment explanation
Indices: 640238--640497 Score: 403
Period size: 138 Copynumber: 1.9 Consensus size: 138
640228 GTGTTTCAAG
* * * ** * *
640238 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAG
1 AGAAAATGTCTCAAGGGAGACAAAATTTATTTCAAAGAAAACAAATTCAAAGATTTTGTTTCAAG
*
640303 GGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACGTA
66 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACGTA
640368 GTTCCAAA
131 GTTCCAAA
* * * *
640376 AGAAAATGTCTCAAGGGAGACGAAATTTATTTCAAATAAAACATATTCAAATATTTTGTTTCAAG
1 AGAAAATGTCTCAAGGGAGACAAAATTTATTTCAAAGAAAACAAATTCAAAGATTTTGTTTCAAG
*
640441 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
66 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
640498 GAAATTTATT
Statistics
Matches: 109, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
138 109 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.26
Consensus pattern (138 bp):
AGAAAATGTCTCAAGGGAGACAAAATTTATTTCAAAGAAAACAAATTCAAAGATTTTGTTTCAAG
GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACGTA
GTTCCAAA
Found at i:640537 original size:101 final size:102
Alignment explanation
Indices: 640328--640598 Score: 348
Period size: 101 Copynumber: 2.7 Consensus size: 102
640318 AGAGACGAAA
* * * ** * *
640328 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACGTAGTTCCAAAAGAAAATGTCTCAAGGG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAG
*
640393 AGACGAAATTTATTTCAAATAAAACATATTCAAATAT
66 AGACGAAATTTATTTCAAAGAAAACATATTCAAATAT
*
640430 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAG
* * ** * *
640494 AGACGAAATTTATTTCAAGGGAAATGTTTTC-AATGT
66 AGACGAAATTTATTTCAAAGAAAACATATTCAAATAT
* * * *
640530 TTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGC
1 TT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGA
640595 GAGA
65 GAGA
640599 TAAAATCTTC
Statistics
Matches: 148, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
100 6 0.04
101 78 0.53
102 64 0.43
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (102 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAG
AGACGAAATTTATTTCAAAGAAAACATATTCAAATAT
Found at i:640584 original size:37 final size:37
Alignment explanation
Indices: 640533--640604 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
640523 TCAATGTTTA
* *
640533 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATTT
* *
640570 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAAT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAAT
640605 CTTCTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATTT
Found at i:641211 original size:10 final size:11
Alignment explanation
Indices: 641183--641211 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
641173 AAAATATCAA
641183 TTGAAAAAGTT
1 TTGAAAAAGTT
641194 TTGAAAAAGTT
1 TTGAAAAAGTT
641205 TTGAAAA
1 TTGAAAA
641212 TATTGCCCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.34
Consensus pattern (11 bp):
TTGAAAAAGTT
Found at i:642099 original size:28 final size:23
Alignment explanation
Indices: 642063--642126 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 23
642053 TTCTTGTCTC
642063 TTTTTCTTTTTGATTTTTGTTATTTCT
1 TTTTTC-TTTTG-TTTTT-TTA-TTCT
642090 TTTTTCCTTTTGTTTTTTTATTCT
1 TTTTT-CTTTTGTTTTTTTATTCT
642114 TTTCTT-TTTTGTT
1 TTT-TTCTTTTGTT
642127 CTTGATTGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
23 7 0.20
24 7 0.20
25 5 0.14
26 5 0.14
27 10 0.29
28 1 0.03
ACGTcount: A:0.05, C:0.09, G:0.06, T:0.80
Consensus pattern (23 bp):
TTTTTCTTTTGTTTTTTTATTCT
Found at i:645068 original size:22 final size:22
Alignment explanation
Indices: 645023--645070 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
645013 CGAATTAGGG
***
645023 AAAATAACAAAAAAACACTTAA
1 AAAATAACAAAAAAACAAAAAA
*
645045 AAAATAATAAAAAAACAAAAAA
1 AAAATAACAAAAAAACAAAAAA
645067 AAAA
1 AAAA
645071 CAAAATGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.10
Consensus pattern (22 bp):
AAAATAACAAAAAAACAAAAAA
Found at i:645160 original size:18 final size:17
Alignment explanation
Indices: 645128--645174 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
645118 TATTAATGGA
645128 GTAAAAAAATAAAAAAG
1 GTAAAAAAATAAAAAAG
*
645145 GTAAAAGAAATTAAAAAG
1 GTAAAA-AAATAAAAAAG
645163 G-AATAAAAATAA
1 GTAA-AAAAATAA
645175 TGTGTACATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (17 bp):
GTAAAAAAATAAAAAAG
Found at i:645259 original size:35 final size:37
Alignment explanation
Indices: 645200--645281 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 37
645190 TAGTATTTAC
*
645200 TAAAATAAT-AAAAATAATAAATAT-ATAATACTAAG
1 TAAAAAAATAAAAAATAATAAATATAATAATACTAAG
* * *
645235 TAAAAAAATAAAAAATAA-AGATATACATGATATTAAG
1 TAAAAAAATAAAAAATAATAAATATA-ATAATACTAAG
645272 -AAAAAAATAA
1 TAAAAAAATAA
645282 TAGAAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 13 0.32
36 18 0.45
37 9 0.22
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.24
Consensus pattern (37 bp):
TAAAAAAATAAAAAATAATAAATATAATAATACTAAG
Found at i:645298 original size:15 final size:13
Alignment explanation
Indices: 645270--645294 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
645260 CATGATATTA
645270 AGAAAAAAATAAT
1 AGAAAAAAATAAT
645283 AGAAAAAAATAA
1 AGAAAAAAATAA
645295 AATAAAGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
AGAAAAAAATAAT
Found at i:645298 original size:18 final size:18
Alignment explanation
Indices: 645275--645331 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 18
645265 TATTAAGAAA
645275 AAAATAATAGAAAAAAAT
1 AAAATAATAGAAAAAAAT
*
645293 AAAATAA-AG-TAAAAAT
1 AAAATAATAGAAAAAAAT
* * *
645309 ATAATATATATAAATAAAT
1 AAAATA-ATAGAAAAAAAT
645328 AAAA
1 AAAA
645332 ACAAAAATAG
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
16 11 0.37
17 3 0.10
18 8 0.27
19 8 0.27
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAATAATAGAAAAAAAT
Found at i:645484 original size:21 final size:21
Alignment explanation
Indices: 645441--645502 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
645431 TCTATACATC
* *
645441 TATATATATATATAATGATATAA
1 TATATATATA-ATAA-AAAATAA
645464 TATATATATAATAAAAAATAA
1 TATATATATAATAAAAAATAA
645485 TATA-ATATAAATAAAAAA
1 TATATATAT-AATAAAAAA
645503 AAGGAATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.11
21 18 0.50
22 4 0.11
23 10 0.28
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
TATATATATAATAAAAAATAA
Found at i:645498 original size:24 final size:24
Alignment explanation
Indices: 645458--645530 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 24
645448 ATATATAATG
645458 ATATAATATATATATAATAAAAAATA
1 ATATAATATA-A-ATAATAAAAAATA
*
645484 ATATAATATAAATAA-AAAAAAGGA
1 ATATAATATAAATAATAAAAAA-TA
*
645508 ATAT-A-GTAAATAAATAAAAAATA
1 ATATAATATAAAT-AATAAAAAATA
645531 TAATTAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
22 5 0.12
23 10 0.24
24 15 0.37
25 1 0.02
26 10 0.24
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.27
Consensus pattern (24 bp):
ATATAATATAAATAATAAAAAATA
Done.