Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold202
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: 2706578
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 4 of 16
Found at i:581345 original size:21 final size:21
Alignment explanation
Indices: 581270--581345 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 21
581260 GTTTCCCCTC
* *
581270 TTTTTTTTTATTTTGCTTTTGCAC
1 TTTTTTTTTTTTTTG-TTTTG--T
*
581294 TTTTTATTTTTTTTGTTTTGT
1 TTTTTTTTTTTTTTGTTTTGT
581315 TTTTTATTTTTTTTTGTTTT-T
1 TTTTT-TTTTTTTTTGTTTTGT
*
581336 TTCTTTTTTT
1 TTTTTTTTTT
581346 CCATCATTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
20 5 0.11
21 10 0.22
22 13 0.28
23 5 0.11
24 13 0.28
ACGTcount: A:0.05, C:0.05, G:0.07, T:0.83
Consensus pattern (21 bp):
TTTTTTTTTTTTTTGTTTTGT
Found at i:581356 original size:1 final size:1
Alignment explanation
Indices: 581294--581345 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
581284 GCTTTTGCAC
* * * * * *
581294 TTTTTATTTTTTTTGTTTTGTTTTTTATTTTTTTTTGTTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
581346 CCATCATTTT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.04, C:0.02, G:0.06, T:0.88
Consensus pattern (1 bp):
T
Found at i:592681 original size:20 final size:19
Alignment explanation
Indices: 592658--592712 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
592648 TGAATATAAG
*
592658 AATATAAAAAAATATATGTA
1 AATATAAAAAAATACAT-TA
592678 AATATAATAAAAATACATTA
1 AATATAA-AAAAATACATTA
*
592698 AACAATAAAAAAATA
1 AA-TATAAAAAAATA
592713 ACATGAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (19 bp):
AATATAAAAAAATACATTA
Found at i:593935 original size:14 final size:14
Alignment explanation
Indices: 593918--593945 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
593908 CTACATGAGC
593918 AAAATTAATAAGAT
1 AAAATTAATAAGAT
593932 AAAATTAATAAGAT
1 AAAATTAATAAGAT
593946 GACATGTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
AAAATTAATAAGAT
Found at i:598622 original size:18 final size:18
Alignment explanation
Indices: 598595--598629 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
598585 TTGAGGATAT
*
598595 TCCTCTTCCTCTTCCCCC
1 TCCTCCTCCTCTTCCCCC
598613 TCCTCCTCCTCTTCCCC
1 TCCTCCTCCTCTTCCCC
598630 GTAATAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (18 bp):
TCCTCCTCCTCTTCCCCC
Found at i:599255 original size:2 final size:2
Alignment explanation
Indices: 599248--599293 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
599238 ATACTAGGAA
*
599248 AT AT AT AT -T AT A- AT AT TT 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
599288 AT AT AT
1 AT AT AT
599294 GTAATGATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:599551 original size:18 final size:18
Alignment explanation
Indices: 599502--599554 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
599492 TAATTTTGGT
*
599502 AATTATTTATTTTATTTTA
1 AATTATTT-TTTTATTTAA
** **
599521 TTTTATTAATTTATTTAA
1 AATTATTTTTTTATTTAA
599539 AATTATTTTTTTATTT
1 AATTATTTTTTTATTT
599555 TTATATATTT
Statistics
Matches: 25, Mismatches: 9, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
AATTATTTTTTTATTTAA
Found at i:601353 original size:17 final size:17
Alignment explanation
Indices: 601320--601369 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 17
601310 AATTTATATA
*
601320 ATTTAAATTATTAA-TAT
1 ATTTAAAATA-TAATTAT
601337 A-TTAAAATA-AATTAT
1 ATTTAAAATATAATTAT
*
601352 ATTTTAAATATAATTAT
1 ATTTAAAATATAATTAT
601369 A
1 A
601370 ATATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 2 0.07
15 4 0.14
16 14 0.50
17 8 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTAAAATATAATTAT
Found at i:601614 original size:26 final size:25
Alignment explanation
Indices: 601585--601672 Score: 90
Period size: 26 Copynumber: 3.4 Consensus size: 25
601575 TATTAATAAT
*
601585 ATATTTATATTATAATTACATTTAAA
1 ATATTTATATTAT-ATTAAATTTAAA
**
601611 ATATTTTATATT-TATATAAATTTTTA
1 ATA-TTTATATTATAT-TAAATTTAAA
601637 ATAATTTATATTATA-TAAATTTTAAA
1 AT-ATTTATATTATATTAAA-TTTAAA
601663 ATATTTATAT
1 ATATTTATAT
601673 ATTTTATATT
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
25 14 0.27
26 27 0.52
27 11 0.21
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (25 bp):
ATATTTATATTATATTAAATTTAAA
Found at i:601656 original size:25 final size:26
Alignment explanation
Indices: 601581--601672 Score: 100
Period size: 25 Copynumber: 3.5 Consensus size: 26
601571 CGGTTATTAA
* *
601581 TAATATATTTATATTATAATTACATTTA
1 TAATATATTTATATTAT-A-TAAATTTT
*
601609 AAATAT-TTTATATTTATATAAATTTT
1 TAATATATTTATA-TTATATAAATTTT
601635 TAATA-ATTTATATTATATAAA-TTT
1 TAATATATTTATATTATATAAATTTT
*
601659 TAAAATATTTATAT
1 TAATATATTTATAT
601673 ATTTTATATT
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
24 7 0.12
25 17 0.30
26 16 0.29
27 7 0.12
28 9 0.16
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (26 bp):
TAATATATTTATATTATATAAATTTT
Found at i:601687 original size:12 final size:12
Alignment explanation
Indices: 601670--601706 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
601660 AAAATATTTA
601670 TATATTTTATAT
1 TATATTTTATAT
*
601682 TATATTTTATTT
1 TATATTTTATAT
*
601694 TATTTTTTATAT
1 TATATTTTATAT
601706 T
1 T
601707 TTATAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TATATTTTATAT
Found at i:602745 original size:17 final size:18
Alignment explanation
Indices: 602720--602754 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
602710 TATAACAATC
602720 GTAAATGAG-CTAATTTT
1 GTAAATGAGCCTAATTTT
*
602737 GTAATTGAGCCTAATTTT
1 GTAAATGAGCCTAATTTT
602755 AATTATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (18 bp):
GTAAATGAGCCTAATTTT
Found at i:602788 original size:22 final size:22
Alignment explanation
Indices: 602755--602796 Score: 68
Period size: 21 Copynumber: 1.9 Consensus size: 22
602745 GCCTAATTTT
602755 AATTATTTTTTTAAACCAATTAA
1 AATTATTTTTTT-AACCAATTAA
602778 AATT-TTTTTTTAACCAATT
1 AATTATTTTTTTAACCAATT
602797 GAATCTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (22 bp):
AATTATTTTTTTAACCAATTAA
Found at i:608097 original size:20 final size:21
Alignment explanation
Indices: 608064--608102 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
608054 TTTCATTGAG
608064 ATTAAACAAACAAA-AAAAAA
1 ATTAAACAAACAAAGAAAAAA
* *
608084 ATTAAAGAATCAAAGAAAA
1 ATTAAACAAACAAAGAAAA
608103 GAATGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.74, C:0.08, G:0.05, T:0.13
Consensus pattern (21 bp):
ATTAAACAAACAAAGAAAAAA
Found at i:613030 original size:13 final size:13
Alignment explanation
Indices: 613012--613037 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
613002 CAATTTTTTG
613012 TGTATCGATACAT
1 TGTATCGATACAT
613025 TGTATCGATACAT
1 TGTATCGATACAT
613038 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:613052 original size:32 final size:33
Alignment explanation
Indices: 612992--613055 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
612982 TACAAGCCAA
** *
612992 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
613025 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
613056 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:613826 original size:23 final size:23
Alignment explanation
Indices: 613796--613845 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
613786 TCATATAAAA
613796 AATTTTCTCCCCCTTAATCAAGT
1 AATTTTCTCCCCCTTAATCAAGT
613819 AATTTTCTCCCCCTTAATCAAGT
1 AATTTTCTCCCCCTTAATCAAGT
613842 AATT
1 AATT
613846 CATATCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.40
Consensus pattern (23 bp):
AATTTTCTCCCCCTTAATCAAGT
Found at i:616365 original size:23 final size:23
Alignment explanation
Indices: 616340--616382 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
616330 TTTAGATTTT
616340 TTTTACAC-ATATTATTACAAAA
1 TTTTACACAATATTATTACAAAA
*
616362 TTTTAGACAATATTATTACAA
1 TTTTACACAATATTATTACAA
616383 TTCTATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (23 bp):
TTTTACACAATATTATTACAAAA
Found at i:616865 original size:20 final size:20
Alignment explanation
Indices: 616849--616893 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
616839 TCAAAATTGC
616849 ATAAAACATTACCAAATTAA
1 ATAAAACATTACCAAATTAA
* * *
616869 ATATAACATTA-CAAGTTAT
1 ATAAAACATTACCAAATTAA
616888 ATAAAA
1 ATAAAA
616894 ACTTATCCGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.29
Consensus pattern (20 bp):
ATAAAACATTACCAAATTAA
Found at i:617127 original size:19 final size:20
Alignment explanation
Indices: 617080--617133 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
617070 TTTTTCAGAA
*
617080 AAAACATTTCCTAATTTACAT
1 AAAACATTACC-AATTTACAT
*
617101 ATAAACATTGCCAA-TTACAT
1 A-AAACATTACCAATTTACAT
617121 AAAACATTACCAA
1 AAAACATTACCAA
617134 AAAAATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 11 0.37
20 7 0.23
21 3 0.10
22 9 0.30
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAACATTACCAATTTACAT
Found at i:618201 original size:29 final size:29
Alignment explanation
Indices: 617995--618202 Score: 102
Period size: 29 Copynumber: 7.1 Consensus size: 29
617985 CATTATGATC
*
617995 AATTACTAAAATTA-CCTTAAAATGCATAA
1 AATTACTAAAA-TAGCCTTAAAATGCATGA
* *
618024 AATTTC-ATAAATAGCCCT-AAA-GCATGTCA
1 AATTACTA-AAATAGCCTTAAAATGCATG--A
* *
618053 AATTACTAAAATAACTCTAAAATATG--TGA
1 AATTACTAAAATAGC-CTTAAA-ATGCATGA
*
618082 AATTGC-ATAAATAGTCC-T-AAAT-CATGATA
1 AATTACTA-AAATAG-CCTTAAAATGCATG--A
*
618111 AATTACTAAAAT-GACCTTCAAATGCATGA
1 AATTACTAAAATAG-CCTTAAAATGCATGA
* *
618140 AATTATATAAAATGGTCC--AAAAT-CATGACA
1 AATTA-CTAAAATAG-CCTTAAAATGCATG--A
618170 AATTACTAAAATAGCCTTAAAATGCATGA
1 AATTACTAAAATAGCCTTAAAATGCATGA
618199 AATT
1 AATT
618203 GCATAAATGG
Statistics
Matches: 136, Mismatches: 17, Indels: 52
0.66 0.08 0.25
Matches are distributed among these distances:
26 2 0.01
27 8 0.06
28 16 0.12
29 68 0.50
30 25 0.18
31 15 0.11
32 1 0.01
33 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.29
Consensus pattern (29 bp):
AATTACTAAAATAGCCTTAAAATGCATGA
Found at i:618209 original size:59 final size:58
Alignment explanation
Indices: 617964--618219 Score: 243
Period size: 58 Copynumber: 4.4 Consensus size: 58
617954 TACATATATT
* * * * *
617964 AAATTGTATAAAAAGTCCGTACATTATGATC-AATTACTAAAATTA-CCTTAAAATGCATA
1 AAATTGCATAAATAGTCC-TAAATCATGA-CAAATTACTAAAA-TAGCCTTAAAATGCATG
* * * * * *
618023 AAATTTCATAAATAGCCCTAAAGCATGTCAAATTACTAAAATAACTCTAAAATATG--TG
1 AAATTGCATAAATAGTCCTAAATCATGACAAATTACTAAAATAGC-CTTAAA-ATGCATG
* *
618081 AAATTGCATAAATAGTCCTAAATCATGATAAATTACTAAAAT-GACCTTCAAATGCATG
1 AAATTGCATAAATAGTCCTAAATCATGACAAATTACTAAAATAG-CCTTAAAATGCATG
** * *
618139 AAATTATATAAAATGGTCCAAAATCATGACAAATTACTAAAATAGCCTTAAAATGCATG
1 AAATTGCAT-AAATAGTCCTAAATCATGACAAATTACTAAAATAGCCTTAAAATGCATG
* *
618198 AAATTGCATAAATGGTCTTAAA
1 AAATTGCATAAATAGTCCTAAA
618220 AGATGGAAAA
Statistics
Matches: 160, Mismatches: 28, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
56 3 0.02
57 7 0.04
58 77 0.48
59 69 0.43
60 4 0.03
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (58 bp):
AAATTGCATAAATAGTCCTAAATCATGACAAATTACTAAAATAGCCTTAAAATGCATG
Found at i:618238 original size:117 final size:117
Alignment explanation
Indices: 617989--618266 Score: 273
Period size: 117 Copynumber: 2.4 Consensus size: 117
617979 TCCGTACATT
* * * * * * *
617989 ATGATCAATTACTAAAATTACCTTAAAATGCATAAAATT-TCAT-AAATAGCCCTAAAGCATGTC
1 ATGATAAATAACTAAAATGACCTTCAAATGCATGAAATTAT-ATAAAATAGCCCAAAAGCATGAC
*
618052 AAATTACTAAAATAACTCTAAAATATGTGAAATTGCATAAATAGTCCTAAATC
65 AAATTACTAAAATAACTCTAAAATATGTGAAATTGCATAAATAGTCCTAAAAC
* * * *
618105 ATGATAAATTACTAAAATGACCTTCAAATGCATGAAATTATATAAAATGGTCCAAAATCATGACA
1 ATGATAAATAACTAAAATGACCTTCAAATGCATGAAATTATATAAAATAGCCCAAAAGCATGACA
* * * * *
618170 AATTACTAAAATAGC-CTTAAA-ATGCATGAAATTGCATAAATGGTCTTAAAAG
66 AATTACTAAAATAACTCTAAAATATG--TGAAATTGCATAAATAGTCCTAAAAC
* * *
618222 ATGGA-AAATAATTAAAATGA--TGCAAAAATGCATGAAATTACATAA
1 AT-GATAAATAACTAAAATGACCTTC--AAATGCATGAAATTATATAA
618267 TAACGCTTAA
Statistics
Matches: 136, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
115 5 0.04
116 42 0.31
117 87 0.64
118 2 0.01
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.28
Consensus pattern (117 bp):
ATGATAAATAACTAAAATGACCTTCAAATGCATGAAATTATATAAAATAGCCCAAAAGCATGACA
AATTACTAAAATAACTCTAAAATATGTGAAATTGCATAAATAGTCCTAAAAC
Found at i:618276 original size:58 final size:57
Alignment explanation
Indices: 618079--618316 Score: 146
Period size: 58 Copynumber: 4.1 Consensus size: 57
618069 CTAAAATATG
* * * * *
618079 TGAAATTGCATAAATA-GTCCTAAATCATGATAAATTACTAAAATGACCTTC--AAATGCA
1 TGAAATTACATAAA-ACGTCTTAAAACATGA-AAATAACTAAAATGA--TACAAAAATGCA
* * * * ** *
618137 TGAAATTATATAAAATGGTC-CAAAATCATGACAAATTACTAAAAT-AGCCTTAAAATGCA
1 TGAAATTACATAAAA-CGTCTTAAAA-CATGA-AAATAACTAAAATGATAC-AAAAATGCA
* ** * * *
618196 TGAAATTGCATAAATGGTCTTAAAAGATGGAAAATAATTAAAATGATGCAAAAATGCA
1 TGAAATTACATAAAACGTCTTAAAACAT-GAAAATAACTAAAATGATACAAAAATGCA
* * * *
618254 TGAAATTACATAATAACG-CTTAAATCATGAAGATAACTAAAATGATACTAAAATGAA
1 TGAAATTACATAA-AACGTCTTAAAACATGAAAATAACTAAAATGATACAAAAATGCA
618311 TGAAAT
1 TGAAAT
618317 GATAAAAAAA
Statistics
Matches: 143, Mismatches: 27, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
56 1 0.01
57 31 0.22
58 61 0.43
59 50 0.35
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.27
Consensus pattern (57 bp):
TGAAATTACATAAAACGTCTTAAAACATGAAAATAACTAAAATGATACAAAAATGCA
Found at i:619636 original size:32 final size:31
Alignment explanation
Indices: 619598--619683 Score: 109
Period size: 32 Copynumber: 2.7 Consensus size: 31
619588 ATGACTAAGA
619598 CAAAACCTATTAGTCAAAAGAAGTAACCAAGG
1 CAAAACCTATTAGTCAAAAGAA-TAACCAAGG
* * *
619630 CCAAACCTATTAGTCGAAAGATATGACCAAGG
1 CAAAACCTATTAGTCAAAAGA-ATAACCAAGG
* *
619662 CAAAACTTATTACTCAAAAGAA
1 CAAAACCTATTAGTCAAAAGAA
619684 ACGACTAGGG
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
31 1 0.02
32 44 0.96
33 1 0.02
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.19
Consensus pattern (31 bp):
CAAAACCTATTAGTCAAAAGAATAACCAAGG
Found at i:628077 original size:5 final size:5
Alignment explanation
Indices: 628067--628095 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
628057 TGCTTGGGTC
628067 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
628096 TTCTCTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:636670 original size:20 final size:20
Alignment explanation
Indices: 636645--636717 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
636635 AAACCCTTGA
636645 ATGTATCGATACACACCCAG
1 ATGTATCGATACACACCCAG
* ** *
636665 ATGTATCGATACATTATGC-T
1 ATGTATCGATACA-CACCCAG
*
636685 TTGTATCGATACACACCCAG
1 ATGTATCGATACACACCCAG
636705 ATGTATCGATACA
1 ATGTATCGATACA
636718 TTATGCTTTG
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
19 2 0.05
20 37 0.90
21 2 0.05
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACACACCCAG
Found at i:636701 original size:40 final size:40
Alignment explanation
Indices: 636646--636737 Score: 184
Period size: 40 Copynumber: 2.3 Consensus size: 40
636636 AACCCTTGAA
636646 TGTATCGATACACACCCAGATGTATCGATACATTATGCTT
1 TGTATCGATACACACCCAGATGTATCGATACATTATGCTT
636686 TGTATCGATACACACCCAGATGTATCGATACATTATGCTT
1 TGTATCGATACACACCCAGATGTATCGATACATTATGCTT
636726 TGTATCGATACA
1 TGTATCGATACA
636738 TTGTATCGAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (40 bp):
TGTATCGATACACACCCAGATGTATCGATACATTATGCTT
Found at i:636729 original size:20 final size:20
Alignment explanation
Indices: 636666--636739 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 20
636656 CACACCCAGA
636666 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
* ** **
636686 TGTATCGATACA-CACCCAGA
1 TGTATCGATACATTATGC-TT
636706 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
636726 TGTATCGATACATT
1 TGTATCGATACATT
636740 GTATCGATAC
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
19 2 0.05
20 38 0.90
21 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTATGCTT
Found at i:636743 original size:13 final size:13
Alignment explanation
Indices: 636725--636751 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
636715 ACATTATGCT
636725 TTGTATCGATACA
1 TTGTATCGATACA
636738 TTGTATCGATACA
1 TTGTATCGATACA
636751 T
1 T
636752 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:636748 original size:33 final size:32
Alignment explanation
Indices: 636706--636767 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
636696 CACACCCAGA
*
636706 TGTATCGATACAT-TATGCTTTGTATCGATACAT
1 TGTATCGATACATGT-T-CATTGTATCGATACAT
636739 TGTATCGATACATGTTCATTGTATCGATA
1 TGTATCGATACATGTTCATTGTATCGATA
636768 AATAGACAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 12 0.44
33 14 0.52
34 1 0.04
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTATCGATACAT
Found at i:636857 original size:13 final size:13
Alignment explanation
Indices: 636836--636866 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
636826 CGATACATGG
*
636836 TACAATGTATCGA
1 TACATTGTATCGA
636849 TACATTGTATCGA
1 TACATTGTATCGA
636862 TACAT
1 TACAT
636867 GATGAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:636880 original size:33 final size:33
Alignment explanation
Indices: 636820--636889 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
636810 CTACCACTGT
* *
636820 TTGTATCGATACATGGTACAATGTATCGATACA
1 TTGTATCGATACATGATACAATATATCGATACA
* *
636853 TTGTATCGATACATGATGA-ATTATATCGATACC
1 TTGTATCGATACATGAT-ACAATATATCGATACA
636886 TTGT
1 TTGT
636890 TTGTAACGGC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (33 bp):
TTGTATCGATACATGATACAATATATCGATACA
Found at i:638218 original size:30 final size:29
Alignment explanation
Indices: 638184--638260 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 29
638174 AACACATGAC
* *
638184 TTAGGCAAAACAAATAGTCATATAAGGGAA
1 TTAGGCAAAACCAATAGTCAAAT-AGGGAA
* * *
638214 TTAGGCAACACCAA-AGTCAAATAGTGAC
1 TTAGGCAAAACCAATAGTCAAATAGGGAA
*
638242 TTAGGTAAAACCAATAGTC
1 TTAGGCAAAACCAATAGTC
638261 TAAACAATAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 16 0.41
29 11 0.28
30 12 0.31
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (29 bp):
TTAGGCAAAACCAATAGTCAAATAGGGAA
Found at i:639663 original size:17 final size:17
Alignment explanation
Indices: 639631--639664 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
639621 ATATTTTGCT
639631 ACTTTATTAAATAAATA
1 ACTTTATTAAATAAATA
639648 ACTTATATTAAA-AAATA
1 ACTT-TATTAAATAAATA
639665 CTAGTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
ACTTTATTAAATAAATA
Found at i:641494 original size:2 final size:2
Alignment explanation
Indices: 641487--641513 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
641477 GGAAAACCAA
641487 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 A
641514 AAGAATATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:644091 original size:18 final size:19
Alignment explanation
Indices: 644061--644098 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
644051 TATCAAAATT
644061 TTTTTAAATATTAAATAAA
1 TTTTTAAATATTAAATAAA
644080 TTTTTAAA-ATTAAATAAA
1 TTTTTAAATATTAAATAAA
644098 T
1 T
644099 AATTTAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTTTAAATATTAAATAAA
Found at i:644104 original size:19 final size:19
Alignment explanation
Indices: 644063--644116 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
644053 TCAAAATTTT
*
644063 TTTAAATATTAAATAAATT
1 TTTAAATATTAAATAAATA
644082 TTTAAA-ATTAAATAAATAA
1 TTTAAATATTAAATAAAT-A
* *
644101 TTTAACTTTTAAATAA
1 TTTAAATATTAAATAA
644117 TTTAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 11 0.37
19 11 0.37
20 8 0.27
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TTTAAATATTAAATAAATA
Found at i:647753 original size:8 final size:8
Alignment explanation
Indices: 647735--647766 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
647725 AGAGTGTTTG
647735 AAAAAATAT
1 AAAAAA-AT
647744 AAAAAAAT
1 AAAAAAAT
647752 AAAAAAAT
1 AAAAAAAT
647760 AAAAAAA
1 AAAAAAA
647767 AAATTTATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.74
9 6 0.26
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:647802 original size:21 final size:21
Alignment explanation
Indices: 647778--647833 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
647768 AATTTATCCA
647778 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
647799 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
647820 AATGTATCGATACA
1 AATGTATCGATACA
647834 GGGTCCCAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:647893 original size:19 final size:19
Alignment explanation
Indices: 647869--647936 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
647859 AATTCAACAA
647869 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
647888 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
647903 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
647920 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
647937 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:647908 original size:13 final size:13
Alignment explanation
Indices: 647890--647914 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
647880 ACATAAGTTT
647890 TGTATCGATACAA
1 TGTATCGATACAA
647903 TGTATCGATACA
1 TGTATCGATACA
647915 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:647912 original size:32 final size:32
Alignment explanation
Indices: 647871--647933 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
647861 TTCAACAATT
*
647871 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
647903 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
647934 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:650441 original size:27 final size:28
Alignment explanation
Indices: 650411--650486 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
650401 AATTTTCACA
650411 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
* *
650438 ATCGGGGATACTTCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
650466 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
650487 ACTTTATTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:650586 original size:52 final size:51
Alignment explanation
Indices: 650508--650690 Score: 188
Period size: 52 Copynumber: 3.5 Consensus size: 51
650498 AAAATATTGA
* *
650508 TTTTTCATAATCGGGGATACTCCAACCCTGGTTTTATTGCTAAAACACTAAT
1 TTTTTCACAATCGGGGATACTCCAACCCTGGTTTTATT-CTAAAACACCAAT
** *
650560 TTTTTCACAATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAAT
1 TTTTTCACAATCGGGGATACTCCAACCCTGGTTTTATTCT-AAAACACCAAT
* ** ** * * *
650612 TTTTCCTTTAATCGGGGATACTCCAATTCTGATTTTATTTCCAAAAATACCAA-
1 TTTTTC-ACAATCGGGGATACTCCAACCCTGGTTTTA-TT-CTAAAACACCAAT
*
650665 TTTTTCACAATCGAGGATACTCCAAC
1 TTTTTCACAATCGGGGATACTCCAAC
650691 TCCGTTACTT
Statistics
Matches: 106, Mismatches: 21, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
51 1 0.01
52 66 0.62
53 28 0.26
54 11 0.10
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (51 bp):
TTTTTCACAATCGGGGATACTCCAACCCTGGTTTTATTCTAAAACACCAAT
Found at i:650648 original size:53 final size:52
Alignment explanation
Indices: 650469--650690 Score: 184
Period size: 52 Copynumber: 4.3 Consensus size: 52
650459 TTATTTCCGA
* * * ***
650469 GGGGATACTCCAACCCCGACTTTATTTCC-AAAATATTGATTTTT-CATAATC
1 GGGGATACTCCAA-CCTGATTTTATTTCCAAAAACACCAATTTTTCCATAATC
* * * * * *
650520 GGGGATACTCCAACCCTGGTTTTA-TTGCTAAAACACTAATTTTTTCACAATC
1 GGGGATACTCCAA-CCTGATTTTATTTCCAAAAACACCAATTTTTCCATAATC
** * *
650572 GGGGATACTCCAACCCCAGTTTTATTTTC-AAAACACCAATTTTTCCTTTAATC
1 GGGGATACTCCAACCTGA-TTTTATTTCCAAAAACACCAATTTTTCC-ATAATC
* * *
650625 GGGGATACTCCAATTCTGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAA-CCTGATTTTATTTCCAAAAACACCAATTTTTCCATAATC
*
650677 GAGGATACTCCAAC
1 GGGGATACTCCAAC
650691 TCCGTTACTT
Statistics
Matches: 139, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
50 3 0.02
51 35 0.25
52 55 0.40
53 30 0.22
54 16 0.12
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (52 bp):
GGGGATACTCCAACCTGATTTTATTTCCAAAAACACCAATTTTTCCATAATC
Found at i:650711 original size:28 final size:28
Alignment explanation
Indices: 650679--650750 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
650669 TCACAATCGA
* *
650679 GGATACTCCAACTCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCCGAAG
* *
650707 GGATACTCCAACCCCGTTATTTTCGAAG
1 GGATACTCCAACCCCGTTACTTCCGAAG
*
650735 GGATACTCCAATCCCG
1 GGATACTCCAACCCCG
650751 ATTTTTTTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCCGAAG
Found at i:655695 original size:52 final size:52
Alignment explanation
Indices: 655614--655734 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
655604 TGAAGAGTTA
*
655614 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
655666 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
655718 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
655735 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:655747 original size:52 final size:51
Alignment explanation
Indices: 655614--655754 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
655604 TGAAGAGTTA
655614 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
655666 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
655718 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
655755 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:655761 original size:13 final size:13
Alignment explanation
Indices: 655743--655767 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
655733 CAAAGATCAG
655743 TGTATCGATACAA
1 TGTATCGATACAA
655756 TGTATCGATACA
1 TGTATCGATACA
655768 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:655853 original size:33 final size:33
Alignment explanation
Indices: 655811--655877 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
655801 AGTAGCTTAA
*
655811 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGAAACAAAAAAATATGTATCGATAC
***
655844 ATTGTATCGAAACAAAATTTTATGTATCGATAC
1 ATTGTATCGAAACAAAAAAATATGTATCGATAC
655877 A
1 A
655878 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGAAACAAAAAAATATGTATCGATAC
Found at i:656868 original size:171 final size:171
Alignment explanation
Indices: 656676--657070 Score: 682
Period size: 171 Copynumber: 2.3 Consensus size: 171
656666 TTTTAGAGAT
*
656676 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
656741 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
656806 TGTCAACGTGCTGATTCAAAGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAAGCCAGCTACATTGAACTTAAA
* * *
656847 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
* *
656912 GTGATAAAGATGCCAATATGTTGATTCATGGCCAATGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
*
656977 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAAGCCAGCTACATTGAACTTAAA
* *
657018 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
657071 GTGCCAATGT
Statistics
Matches: 211, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
171 167 0.79
172 4 0.02
174 40 0.19
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAAGCCAGCTACATTGAACTTAAA
Found at i:656893 original size:49 final size:49
Alignment explanation
Indices: 656747--656905 Score: 138
Period size: 49 Copynumber: 3.1 Consensus size: 49
656737 AAAAGTGATA
* * * * *
656747 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * * *
656798 AAAAAGGATGTCAACGTGCTGATTCAAAGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
656851 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
656900 ATGATG
1 AAGATG
656906 AGAAAAGTGA
Statistics
Matches: 83, Mismatches: 21, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
49 44 0.53
50 2 0.02
53 1 0.01
54 2 0.02
55 34 0.41
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:657127 original size:49 final size:49
Alignment explanation
Indices: 656985--657358 Score: 481
Period size: 49 Copynumber: 7.6 Consensus size: 49
656975 GATGTCAACG
* *
656985 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATA
* *
657037 TGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
657080 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * * *
657129 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
*
657178 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * * *
657227 TGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* *
657276 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATA
* *
657328 TGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTA
657359 GAGGGGTTGC
Statistics
Matches: 282, Mismatches: 31, Indels: 18
0.85 0.09 0.05
Matches are distributed among these distances:
43 36 0.13
44 2 0.01
45 1 0.00
46 1 0.00
48 2 0.01
49 169 0.60
50 2 0.01
51 2 0.01
52 67 0.24
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
Found at i:657210 original size:98 final size:99
Alignment explanation
Indices: 656918--657358 Score: 574
Period size: 98 Copynumber: 4.4 Consensus size: 99
656908 AAAAGTGATA
* * ** * * *
656918 AAGATGCCAATATGTTGATTCATGGCCAATGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG--GTG---AAGG-TGCCAA
* * *
656983 CGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG
60 TGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
* *
657023 AAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A----AAGGTGCCAATGTG
1 AAGA--TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTG
*
657082 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G
64 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
657117 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCT
657182 GAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
* *
657215 AAGATGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCT
657280 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
66 GAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
* * *
657314 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 --AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
657359 GAGGGGTTGC
Statistics
Matches: 306, Mismatches: 19, Indels: 26
0.87 0.05 0.07
Matches are distributed among these distances:
92 37 0.12
94 5 0.02
95 41 0.13
96 4 0.01
98 143 0.47
99 1 0.00
101 39 0.13
105 4 0.01
107 32 0.10
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (99 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCT
GAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
Found at i:657402 original size:33 final size:33
Alignment explanation
Indices: 657363--657457 Score: 128
Period size: 33 Copynumber: 3.0 Consensus size: 33
657353 GGCTTAGAGG
657363 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
657396 GGTTGCCACCGACTTGTGTGGGCTTTGGGAA-AA
1 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
**
657429 GG-TGCCA-CGAAGT-TGTGGGCTTT-GAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
657458 AAAATGCCAC
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
28 3 0.05
29 2 0.03
30 10 0.17
31 4 0.07
32 5 0.09
33 30 0.52
34 4 0.07
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
Found at i:657466 original size:31 final size:31
Alignment explanation
Indices: 657412--657503 Score: 82
Period size: 31 Copynumber: 3.0 Consensus size: 31
657402 CACCGACTTG
* **
657412 TGTGGGCTTTG-GGAAAAGGTGCCAC-GAAGT
1 TGTGGGCTTTGAAGAAAAAATGCCACTG-AGT
657442 TGTGGGCTTTGAAGAAAAAATGCCACTGAGT
1 TGTGGGCTTTGAAGAAAAAATGCCACTGAGT
* * * *
657473 CGTGGACTTTG-AGAAGAGATTGCCACTGAGT
1 TGTGGGCTTTGAAGAA-AAAATGCCACTGAGT
657504 CATGGACTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
30 15 0.29
31 36 0.69
32 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.34, T:0.25
Consensus pattern (31 bp):
TGTGGGCTTTGAAGAAAAAATGCCACTGAGT
Found at i:662680 original size:55 final size:54
Alignment explanation
Indices: 662586--663019 Score: 530
Period size: 55 Copynumber: 7.8 Consensus size: 54
662576 TTTTCTTTTT
* ** ** *
662586 AAAGCCTACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCCTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTCCAGTCCTCAAAGAGCAGGACACCTTTC
662640 AAAGCCCACACAAGTTGGTGGCATCCTCCAGTCCTCAAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCA-CCTCCAGTCCTCAAAGAGCAGGACACCTTTC
** *
662695 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTC
1 AAAGCCCACACAAGTTGGTGGCA-CCTCCAGTCCTCAAAGAGCAGGACACCTTTC
* * *
662750 AAAGCCCACACAAGTTGGTGGCACCTTTC-GTCCCCAAAGAGCAGGACGCCTTCTCC
1 AAAGCCCACACAAGTTGGTGGCACC-TCCAGTCCTCAAAGAGCAGGACACCTT-T-C
662806 TTTTAAAGCCCACACAAGTTGGTGGCATCCTCCAGTCCTCAAAGAGCAGGACACCTTTC
1 ----AAAGCCCACACAAGTTGGTGGCA-CCTCCAGTCCTCAAAGAGCAGGACACCTTTC
**
662865 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCA-CCTCCAGTCCTCAAAGAGCAGGACACCT-TTC
* * **
662920 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGATGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACC-TCCAGTCCTCAAAGAGCAGGACACCTTTC
* * **
662975 AAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAG
1 AAAGCCCACACAAGTTGGTGGCAC-CTCCAGTCCTCAAAGAGCAG
663020 AATACACTTT
Statistics
Matches: 336, Mismatches: 30, Indels: 27
0.85 0.08 0.07
Matches are distributed among these distances:
54 44 0.13
55 239 0.71
56 3 0.01
59 1 0.00
60 26 0.08
61 23 0.07
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (54 bp):
AAAGCCCACACAAGTTGGTGGCACCTCCAGTCCTCAAAGAGCAGGACACCTTTC
Found at i:662836 original size:170 final size:168
Alignment explanation
Indices: 662586--663019 Score: 663
Period size: 170 Copynumber: 2.6 Consensus size: 168
662576 TTTTCTTTTT
* * *
662586 AAAGCCTACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGA----TGCCTTTTAAAGCCC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCGTCCTCAAAGAGCAGGAGCCTTTCCTTTTAAAGCCC
662647 ACACAAGTTGGTGGCATCCTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
66 ACACAAGTTGGTGGCATCCTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
662712 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTC
131 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTC
*
662750 AAAGCCCACACAAGTTGGTGGCACCTTTCGTCCCCAAAGAGCAGGACGCCTTCTCCTTTTAAAGC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCGTCCTCAAAGAGCAGGA-GCCTT-TCCTTTTAAAGC
662815 CCACACAAGTTGGTGGCATCCTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGT
64 CCACACAAGTTGGTGGCATCCTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGT
*
662880 TGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT
129 TGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTC
*
662920 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGATGCCTTT-C----AAAGC
1 AAAGCCCACACAAGTTGGTGGCACCTTTC-GTCCTCAAAGAGCAGGA-GCCTTTCCTTTTAAAGC
* * **
662980 CCACACGAGTTGGTGGCA-CTTTTTAGTCCTCAAAGAGCAG
64 CCACACAAGTTGGTGGCATC-CTCCAGTCCTCAAAGAGCAG
663020 AATACACTTT
Statistics
Matches: 250, Mismatches: 12, Indels: 15
0.90 0.04 0.05
Matches are distributed among these distances:
164 44 0.18
165 39 0.16
169 2 0.01
170 145 0.58
171 20 0.08
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (168 bp):
AAAGCCCACACAAGTTGGTGGCACCTTTCGTCCTCAAAGAGCAGGAGCCTTTCCTTTTAAAGCCC
ACACAAGTTGGTGGCATCCTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTC
Found at i:662979 original size:225 final size:226
Alignment explanation
Indices: 662552--663019 Score: 701
Period size: 225 Copynumber: 2.1 Consensus size: 226
662542 TAGCCCTTCC
* * * **
662552 AGTCCTCAAAGAGCAGGACGCCTTTTTTCTTTTTAAAGCCTACACAAGTTGGTGGCACCTTTAGT
1 AGTCCTCAAAGAGCAGGACGCC-TTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCAGT
** *
662617 CCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTCCAGTCCTCAAAGAG
65 CCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATCCTCCAGTCCTCAAAGAG
*
662682 CAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCT
130 CAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACACCT
662747 CTCAAAGCCCACACAAGTTGGTGGCAC-CTTT
195 CTCAAAGCCCACACAAGTTGGTGGCACTCTTT
* *
662778 CGTCCCCAAAGAGCAGGACGCC-TTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTCCAGT
1 AGTCCTCAAAGAGCAGGACGCCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTCCAGT
**
662842 CCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAG
65 CCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATCCTCCAGTCCTCAAAGAG
* **
662907 CAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCTTCAAAGAGCAGGATGC
130 CAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACAC
* * *
662970 CTTTCAAAGCCCACACGAGTTGGTGGCACTTTTT
193 CTCTCAAAGCCCACACAAGTTGGTGGCACTCTTT
663004 AGTCCTCAAAGAGCAG
1 AGTCCTCAAAGAGCAG
663020 AATACACTTT
Statistics
Matches: 217, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
224 30 0.14
225 145 0.67
226 42 0.19
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (226 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCAGTC
CTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATCCTCCAGTCCTCAAAGAGC
AGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACACCTC
TCAAAGCCCACACAAGTTGGTGGCACTCTTT
Found at i:663175 original size:42 final size:43
Alignment explanation
Indices: 663111--663202 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 43
663101 TGGGACGTAC
* * *
663111 TCTTCT-TTCACTTTGTCCTCAAGAAGCAGGA-CACTTTCCTTT
1 TCTTCTCTTCACTTGGTCCTCAAGAAGCAAGACCA-TTTCATTT
* *
663153 TCTTCTCTTC-CTTGGTCTTCAAGGAGCAAGACCTATTTCATTT
1 TCTTCTCTTCACTTGGTCCTCAAGAAGCAAGACC-ATTTCATTT
663196 TCTTCTC
1 TCTTCTC
663203 CTTTGTCCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
42 23 0.55
43 18 0.43
44 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.12, T:0.42
Consensus pattern (43 bp):
TCTTCTCTTCACTTGGTCCTCAAGAAGCAAGACCATTTCATTT
Found at i:663875 original size:19 final size:19
Alignment explanation
Indices: 663851--663918 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
663841 AATTCAACAA
663851 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
663870 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
663885 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
663902 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
663919 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:663890 original size:13 final size:13
Alignment explanation
Indices: 663872--663896 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
663862 ACATAAGTTT
663872 TGTATCGATACAA
1 TGTATCGATACAA
663885 TGTATCGATACA
1 TGTATCGATACA
663897 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:663894 original size:32 final size:32
Alignment explanation
Indices: 663853--663915 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
663843 TTCAACAATT
*
663853 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
663885 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
663916 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:666391 original size:27 final size:28
Alignment explanation
Indices: 666361--666434 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 28
666351 AATTTTCACA
666361 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
666388 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
666416 CGAGGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
666435 TGAATTTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:666485 original size:51 final size:51
Alignment explanation
Indices: 666419--666640 Score: 216
Period size: 52 Copynumber: 4.3 Consensus size: 51
666409 TTATTTCCGA
* * *** *
666419 GGGGATACTCCAACCCTGAATTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTTCACAATC
* * * * *
666470 GGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTTCACAATC
1 GGGGATACTCCAACCCTGATTTTATTTCCAAAACACCAA-TTTTTCACAATC
* *
666522 GGGGATACTCCAACCC-CAGTTTTATTTTCAAAACACCAATTTTTC-CTTTAATC
1 GGGGATACTCCAACCCTGA-TTTTATTTCCAAAACACCAATTTTTCAC---AATC
** *
666575 GGGGATACTCCAATTCTGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCTGATTTTATTTCC-AAAACACCAATTTTTCACAATC
*
666627 GAGG-TACTCCAACC
1 GGGGATACTCCAACC
666641 TCGTTTCTCA
Statistics
Matches: 140, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
50 1 0.01
51 45 0.32
52 50 0.36
53 27 0.19
54 16 0.11
55 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTTCACAATC
Found at i:666647 original size:27 final size:27
Alignment explanation
Indices: 666617--666672 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
666607 AATACCAATT
*
666617 TTTCACAATCGAGG-TACTCCAACCTCG
1 TTTCAC-ATCGAGGATACTCCAACCCCG
* *
666644 TTTCTCATCGGGGATACTCCAACCCCG
1 TTTCACATCGAGGATACTCCAACCCCG
666671 TT
1 TT
666673 ACTTCCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.21, C:0.34, G:0.16, T:0.29
Consensus pattern (27 bp):
TTTCACATCGAGGATACTCCAACCCCG
Found at i:666695 original size:28 final size:28
Alignment explanation
Indices: 666653--666726 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
666643 GTTTCTCATC
666653 GGGGATACTCCAACCCCGTTACTTCCGA
1 GGGGATACTCCAACCCCGTTACTTCCGA
* * *
666681 GGGGATACTCTAACCCCGTTATTTTCGA
1 GGGGATACTCCAACCCCGTTACTTCCGA
* *
666709 AGGGATACTCCAATCCCG
1 GGGGATACTCCAACCCCG
666727 ATTTTTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTACTTCCGA
Found at i:677581 original size:51 final size:52
Alignment explanation
Indices: 677497--677620 Score: 182
Period size: 51 Copynumber: 2.4 Consensus size: 52
677487 ATCAATATTT
* * *
677497 TGAAAAATGTATCGATAC-TTTGGGTCAACAACCCATAATGT-CCTGATACAA
1 TGAAAAATGTATCGATACATTTAGGTCAACAACCCAGAATGTATC-GATACAA
677548 TGAAAAATGTATCGATACATTTAGGTCAA-AACCCAGAATGTATCGATACAA
1 TGAAAAATGTATCGATACATTTAGGTCAACAACCCAGAATGTATCGATACAA
*
677599 TGAAAAATGTATTGATACATTT
1 TGAAAAATGTATCGATACATTT
677621 TCATTCCAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
51 57 0.85
52 10 0.15
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (52 bp):
TGAAAAATGTATCGATACATTTAGGTCAACAACCCAGAATGTATCGATACAA
Found at i:677723 original size:21 final size:20
Alignment explanation
Indices: 677676--677725 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
677666 CATTTCAGAC
*
677676 ATGTATTAATACATTCACTT
1 ATGTATCAATACATTCACTT
677696 ATGTATCAATACATTCACTT
1 ATGTATCAATACATTCACTT
677716 ATTGTATCAA
1 A-TGTATCAA
677726 AACAAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.36, C:0.16, G:0.06, T:0.42
Consensus pattern (20 bp):
ATGTATCAATACATTCACTT
Found at i:678385 original size:39 final size:39
Alignment explanation
Indices: 678287--678400 Score: 140
Period size: 38 Copynumber: 2.9 Consensus size: 39
678277 GGTTAATTAA
**
678287 AATCTAAAAGATATGACTAATGCATAAATTTTTTATTGG
1 AATCTAAAAGATATGACTAATATATAAATTTTTTATTGG
* * * * * *
678326 -ATTTGAAAGATATTAGTAATATATAGATTATTTATTGG
1 AATCTAAAAGATATGACTAATATATAAATTTTTTATTGG
*
678364 AATCTAAAAGATGTGACTAATATATAAATTTTTTATT
1 AATCTAAAAGATATGACTAATATATAAATTTTTTATT
678401 AAAATTCGAA
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
38 30 0.51
39 29 0.49
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.42
Consensus pattern (39 bp):
AATCTAAAAGATATGACTAATATATAAATTTTTTATTGG
Found at i:678413 original size:39 final size:38
Alignment explanation
Indices: 678293--678420 Score: 114
Period size: 39 Copynumber: 3.3 Consensus size: 38
678283 TTAAAATCTA
** * *
678293 AAAGATATGACTAATGCATAAATTTTTTATTGGATTTG
1 AAAGATATGACTAATATATAAATTTTTTATTGAATTCG
* * * * *
678331 AAAGATATTAGTAATATATAGATTATTTATTGGAA-TCTA
1 AAAGATATGACTAATATATAAATTTTTTATT-GAATTC-G
* *
678370 AAAGATGTGACTAATATATAAATTTTTTATTAAAATTCG
1 AAAGATATGACTAATATATAAATTTTTTATT-GAATTCG
*
678409 AAAGATAAGACT
1 AAAGATATGACT
678421 GATGCATGAA
Statistics
Matches: 68, Mismatches: 19, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
38 26 0.38
39 40 0.59
40 2 0.03
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.39
Consensus pattern (38 bp):
AAAGATATGACTAATATATAAATTTTTTATTGAATTCG
Found at i:678611 original size:163 final size:164
Alignment explanation
Indices: 678417--678722 Score: 386
Period size: 163 Copynumber: 1.9 Consensus size: 164
678407 CGAAAGATAA
* * *
678417 GACTGATGCATGAATTCTGTTTTTGAATAAATAAGATAAATGAATAGATTC-AAT-GGAATCAGA
1 GACTAATGCATGAATTCTGTTTTTAAATAAATAAGATAAATGAATAGATTCTAATAGGAATCAAA
* * * * * * *
678480 TT-TTTTCTAATATGAAAGAAGTTGATAAGACTAATGCATGGATTGTAAATGTTAGACTACAAGG
66 TTCGTTT-TAATATGAAAGAAGTTAAGAAGACTAATGCA-GGATTATAAATATCAAACTACAAGG
678544 AATAGACCAATGCAAAAACTGAAGATCAAAAGATGG
129 AATAGACCAATGCAAAAACTGAAGATCAAAAGATGG
* * * * *
678580 GACTAATGCAT-AGATTCTGTTTTTAAATAAATATGATAAATGCATCGGTTCTTAATAGGACTCA
1 GACTAATGCATGA-ATTCTGTTTTTAAATAAATAAGATAAATGAATAGATTC-TAATAGGAATCA
* *
678644 AATTCGTTTTGATATGAAAGAAGTTAAGAAGACTAATGCAGGATTATAAATATCAAACTGCAAGG
64 AATTCGTTTTAATATGAAAGAAGTTAAGAAGACTAATGCAGGATTATAAATATCAAACTACAAGG
*
678709 AATAGACTAATGCA
129 AATAGACCAATGCA
678723 TGGATTCTAT
Statistics
Matches: 120, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
162 1 0.01
163 43 0.36
165 36 0.30
166 37 0.31
167 3 0.03
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.30
Consensus pattern (164 bp):
GACTAATGCATGAATTCTGTTTTTAAATAAATAAGATAAATGAATAGATTCTAATAGGAATCAAA
TTCGTTTTAATATGAAAGAAGTTAAGAAGACTAATGCAGGATTATAAATATCAAACTACAAGGAA
TAGACCAATGCAAAAACTGAAGATCAAAAGATGG
Found at i:679079 original size:92 final size:92
Alignment explanation
Indices: 678887--679081 Score: 227
Period size: 92 Copynumber: 2.1 Consensus size: 92
678877 TAATGCATGG
* *
678887 ATTGTAAATGTTAAACTATAATGATTAGACTAATACATGAATTATATTTGAGAATCGAATTCTTT
1 ATTGTAAATGTTAAACTATAAAGATTAGACTAATACATGAATTATATTTGAGAATAGAATTCTTT
*
678952 TTAGTAAAAAGAAAGAAAAGTCTATTG
66 TTAGTAAAAAGAAAGAAAAGTCTATTA
* ** * * * * *
678979 ATTATAAATGTTTGACTCTAAAGATTAGACTAATGCATGGATTATTTTTGAGAATTAGATTTC-T
1 ATTGTAAATGTTAAACTATAAAGATTAGACTAATACATGAATTATATTTGAGAA-TAGAATTCTT
679043 TTTAGTAGAAAAGCAAA-AAAA-T-TGATTA
65 TTTAGTA-AAAAG-AAAGAAAAGTCT-ATTA
679071 ATTGTAAATGT
1 ATTGTAAATGT
679082 CACGGTTGAA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
91 1 0.01
92 68 0.78
93 15 0.17
94 3 0.03
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.37
Consensus pattern (92 bp):
ATTGTAAATGTTAAACTATAAAGATTAGACTAATACATGAATTATATTTGAGAATAGAATTCTTT
TTAGTAAAAAGAAAGAAAAGTCTATTA
Found at i:683426 original size:19 final size:19
Alignment explanation
Indices: 683404--683470 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 19
683394 TTTTTTTTCC
*
683404 CCTTTCTTTCTTTTTCTCT
1 CCTTTCTTTCTTTTTCTTT
* *
683423 CCTTCCTCATTCTTCTTCTTT
1 CCTT--TCTTTCTTTTTCTTT
683444 CC-TTCTTTCCTTTTTCTTT
1 CCTTTCTTT-CTTTTTCTTT
683463 CCTTTCTT
1 CCTTTCTT
683471 CTCTGAAGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 4 0.10
19 15 0.38
20 6 0.15
21 14 0.36
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.64
Consensus pattern (19 bp):
CCTTTCTTTCTTTTTCTTT
Found at i:683644 original size:71 final size:70
Alignment explanation
Indices: 683529--683719 Score: 195
Period size: 71 Copynumber: 2.7 Consensus size: 70
683519 TTTAAGTTCT
* * * *
683529 ATAATAAAATCAAAAAACAAATCCTAAATTTTTAAAAATAAAAATAAATTACACCATCAAAAATT
1 ATAATCAAAT-AAAAAACAAAT-TTAAATTTCTACAAAT-AAAATAAATTACACCAT-AAAAATT
*
683594 TAAACTCAT
62 TAAACTCAC
* * * * * * *
683603 ATCATC-CATAAAATACACATTTAAATTTCTACAAATCAAAATTAATTATACCCTAAAAATTTAA
1 ATAATCAAATAAAAAACAAATTTAAATTTCTACAAAT-AAAATAAATTACACCATAAAAATTTAA
683667 ACTCAC
65 ACTCAC
* *
683673 ATAATCAAATAAAAAATAAATTTAAACTTCTACAAATAGAAATAAAT
1 ATAATCAAATAAAAAACAAATTTAAATTTCTACAAATA-AAATAAAT
683720 AATACCTTTA
Statistics
Matches: 95, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
70 21 0.22
71 59 0.62
72 9 0.09
73 2 0.02
74 4 0.04
ACGTcount: A:0.56, C:0.15, G:0.01, T:0.29
Consensus pattern (70 bp):
ATAATCAAATAAAAAACAAATTTAAATTTCTACAAATAAAATAAATTACACCATAAAAATTTAAA
CTCAC
Found at i:683759 original size:23 final size:22
Alignment explanation
Indices: 683733--683782 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
683723 ACCTTTAATC
683733 AAATTA-ATCTTATAAATAAAGAT
1 AAATTATATCTTA-AAATAAA-AT
*
683756 AAATCATATCTTAAAATAAAAT
1 AAATTATATCTTAAAATAAAAT
683778 AAATT
1 AAATT
683783 TAAACTACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.25
23 12 0.50
24 6 0.25
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (22 bp):
AAATTATATCTTAAAATAAAAT
Found at i:684220 original size:17 final size:18
Alignment explanation
Indices: 684195--684230 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
684185 TGTGATTTCA
684195 TAATGAATTTTTTA-ATT
1 TAATGAATTTTTTACATT
*
684212 TAATTAATTTTTTACATT
1 TAATGAATTTTTTACATT
684230 T
1 T
684231 GTTGGCGTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (18 bp):
TAATGAATTTTTTACATT
Found at i:686024 original size:12 final size:12
Alignment explanation
Indices: 686000--686034 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
685990 CACTTTTTTA
686000 TTTT-TTTTG-T
1 TTTTGTTTTGTT
686010 TTTTGTTTTGTT
1 TTTTGTTTTGTT
686022 TTTTGTTTTGTT
1 TTTTGTTTTGTT
686034 T
1 T
686035 GTTTTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.17
11 5 0.22
12 14 0.61
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (12 bp):
TTTTGTTTTGTT
Found at i:686042 original size:12 final size:11
Alignment explanation
Indices: 686000--686042 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
685990 CACTTTTTTA
686000 TTTTTTTTGTT
1 TTTTTTTTGTT
*
686011 TTTGTTTTGTT
1 TTTTTTTTGTT
686022 TTTTGTTTTGTT
1 TTTT-TTTTGTT
686034 TGTTTTTTT
1 T-TTTTTTT
686043 CTCTTTTTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 13 0.46
12 12 0.43
13 3 0.11
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:692100 original size:13 final size:13
Alignment explanation
Indices: 692082--692107 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
692072 CAATTTTTTG
692082 TGTATCGATACAT
1 TGTATCGATACAT
692095 TGTATCGATACAT
1 TGTATCGATACAT
692108 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:694669 original size:13 final size:13
Alignment explanation
Indices: 694651--694686 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
694641 ATAATCACCC
694651 TGTATCGATACAA
1 TGTATCGATACAA
694664 TGTATCGATACAA
1 TGTATCGATACAA
694677 TGTATCGATA
1 TGTATCGATA
694687 TAAAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:696788 original size:15 final size:15
Alignment explanation
Indices: 696768--696798 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
696758 ATTTCGTTTG
*
696768 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
696783 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
696798 G
1 G
696799 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:698627 original size:21 final size:21
Alignment explanation
Indices: 698598--698642 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
698588 AAGTTTTCAT
*
698598 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
698618 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
698640 TTT
1 TTT
698643 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:701928 original size:20 final size:20
Alignment explanation
Indices: 701902--701956 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
701892 AAAAAGATAG
* * *
701902 AATGTATCAATACATTCATA
1 AATGTATCGATACATTAAAA
* *
701922 CATGTATTGATACATTAAAA
1 AATGTATCGATACATTAAAA
701942 AATGTATCGATACAT
1 AATGTATCGATACAT
701957 CTAGGTAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTAAAA
Found at i:701978 original size:50 final size:51
Alignment explanation
Indices: 701918--702016 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 51
701908 TCAATACATT
* * *
701918 CATACATGTATTGATACATTAAAAAATGTATCGATACATCTAGGTAAAAGA
1 CATACATGTATCGATACATCAAAAAATGTATCAATACATCTAGGTAAAAGA
* * *
701969 CATA-ATGTATCGATACGTCGAAAAATGTATCAATACATCTGGGTAAAA
1 CATACATGTATCGATACATCAAAAAATGTATCAATACATCTAGGTAAAA
702017 ATGTGACTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 38 0.90
51 4 0.10
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (51 bp):
CATACATGTATCGATACATCAAAAAATGTATCAATACATCTAGGTAAAAGA
Found at i:704461 original size:34 final size:34
Alignment explanation
Indices: 704418--704486 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
704408 AATCAATAAT
704418 ATGGGAGATATGTCTGGATTCCTTGATTAATTGA
1 ATGGGAGATATGTCTGGATTCCTTGATTAATTGA
704452 ATGGGAGATATGTCTGGATTCCTTGATTAATTGA
1 ATGGGAGATATGTCTGGATTCCTTGATTAATTGA
704486 A
1 A
704487 GTCCAAAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.38
Consensus pattern (34 bp):
ATGGGAGATATGTCTGGATTCCTTGATTAATTGA
Found at i:707696 original size:20 final size:20
Alignment explanation
Indices: 707667--707705 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
707657 CATGTCTAAA
707667 AATATAAATATATTAATATG
1 AATATAAATATATTAATATG
*
707687 AATATGAATATATTAATAT
1 AATATAAATATATTAATAT
707706 ATCAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
AATATAAATATATTAATATG
Found at i:708957 original size:22 final size:20
Alignment explanation
Indices: 708924--708966 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
708914 TAGATCTAAA
* *
708924 TATTTTTAATTTTATTTTAT
1 TATTTTTAATTTAAATTTAT
708944 TATTATTTAAATTTAAATTTAT
1 TATT-TTT-AATTTAAATTTAT
708966 T
1 T
708967 TTTCTTAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 3 0.16
22 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTTTTAATTTAAATTTAT
Found at i:714096 original size:18 final size:18
Alignment explanation
Indices: 714069--714103 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
714059 TTGAGGATAT
*
714069 TCCTCTTCCTCTTCCCCC
1 TCCTCCTCCTCTTCCCCC
714087 TCCTCCTCCTCTTCCCC
1 TCCTCCTCCTCTTCCCC
714104 ATAATAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (18 bp):
TCCTCCTCCTCTTCCCCC
Found at i:714729 original size:2 final size:2
Alignment explanation
Indices: 714722--714754 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
714712 ATACTAGGAA
714722 AT AT AT AT AT AT AT -T 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
714755 GTAATTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:715008 original size:18 final size:18
Alignment explanation
Indices: 714959--715011 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
714949 ATAATTTGGT
*
714959 AATTATTTATTTTATTTTA
1 AATTATTT-TTTTATTTAA
** **
714978 TTTTATTAATTTATTTAA
1 AATTATTTTTTTATTTAA
714996 AATTATTTTTTTATTT
1 AATTATTTTTTTATTT
715012 TTATATATTT
Statistics
Matches: 25, Mismatches: 9, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
AATTATTTTTTTATTTAA
Found at i:716200 original size:12 final size:12
Alignment explanation
Indices: 716183--716219 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
716173 TAAAATTATA
716183 TTTTAATAAATT
1 TTTTAATAAATT
716195 TTTTAAT-AATT
1 TTTTAATAAATT
716206 TTTT-ATATAATT
1 TTTTAATA-AATT
716218 TT
1 TT
716220 AAGAGATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 2 0.09
11 8 0.35
12 13 0.57
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTTAATAAATT
Found at i:716772 original size:12 final size:12
Alignment explanation
Indices: 716738--716781 Score: 61
Period size: 12 Copynumber: 3.5 Consensus size: 12
716728 TTAGATACGA
716738 TTAAAATATAAAT
1 TTAAAA-ATAAAT
*
716751 ATATAAAATAAAT
1 TTA-AAAATAAAT
716764 TTAAAAATAAAT
1 TTAAAAATAAAT
716776 TTAAAA
1 TTAAAA
716782 TTATATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 15 0.54
13 10 0.36
14 3 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
TTAAAAATAAAT
Found at i:717104 original size:26 final size:25
Alignment explanation
Indices: 717075--717162 Score: 90
Period size: 26 Copynumber: 3.4 Consensus size: 25
717065 TATTAATAAT
*
717075 ATATTTATATTATAATTATATTTAAA
1 ATATTTATATTAT-ATTAAATTTAAA
**
717101 ATATTTTATATT-TATATAAATTTTTA
1 ATA-TTTATATTATAT-TAAATTTAAA
717127 ATAATTTATATTATA-TAAATTTTAAA
1 AT-ATTTATATTATATTAAA-TTTAAA
717153 ATATTTATAT
1 ATATTTATAT
717163 ATTTTTATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
25 14 0.27
26 27 0.52
27 11 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
ATATTTATATTATATTAAATTTAAA
Found at i:717146 original size:25 final size:26
Alignment explanation
Indices: 717071--717162 Score: 100
Period size: 25 Copynumber: 3.5 Consensus size: 26
717061 CGGTTATTAA
* *
717071 TAATATATTTATATTATA-ATTATATT
1 TAATATATTTATATTATATA-AATTTT
*
717097 TAAAATATTTTATATTTATATAAATTTT
1 TAATATA-TTTATA-TTATATAAATTTT
717125 TAATA-ATTTATATTATATAAA-TTT
1 TAATATATTTATATTATATAAATTTT
*
717149 TAAAATATTTATAT
1 TAATATATTTATAT
717163 ATTTTTATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
24 7 0.12
25 17 0.30
26 12 0.21
27 7 0.12
28 13 0.23
29 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TAATATATTTATATTATATAAATTTT
Found at i:717179 original size:13 final size:12
Alignment explanation
Indices: 717158--717193 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 12
717148 TTAAAATATT
717158 TATATATTTTTA
1 TATATATTTTTA
717170 TATCATATTTTTTA
1 TAT-ATA-TTTTTA
717184 TATATATTTT
1 TATATATTTT
717194 ATAATTATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.32
13 6 0.27
14 9 0.41
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (12 bp):
TATATATTTTTA
Found at i:717190 original size:53 final size:51
Alignment explanation
Indices: 717095--717197 Score: 120
Period size: 53 Copynumber: 2.0 Consensus size: 51
717085 TATAATTATA
*
717095 TTTAAAATATTTTATATTTATATAAATTTTTAATAATTTATATTATATAAAT
1 TTTAAAATATTTTATATTTATATAAATTTTT-ATAATATATATTATATAAAT
* *
717147 TTTAAAATATTTATATATTTTTATATCATATTTTT-T-ATATATATTTTATAA
1 TTTAAAATATTT-TATA--TTTATAT-AAATTTTTATAATATATATTATATAA
717198 TTATGTTATG
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
52 12 0.27
53 17 0.39
54 1 0.02
55 7 0.16
56 7 0.16
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (51 bp):
TTTAAAATATTTTATATTTATATAAATTTTTATAATATATATTATATAAAT
Found at i:717390 original size:13 final size:14
Alignment explanation
Indices: 717367--717398 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
717357 AGACTAAGAT
717367 ATTTTTATATTTTA
1 ATTTTTATATTTTA
717381 ATTTTT-TATTTTA
1 ATTTTTATATTTTA
717394 ATTTT
1 ATTTT
717399 AAATTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
ATTTTTATATTTTA
Found at i:717403 original size:20 final size:20
Alignment explanation
Indices: 717369--717407 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
717359 ACTAAGATAT
717369 TTTTATATTTTAATTTTTTA
1 TTTTATATTTTAATTTTTTA
717389 TTTTA-ATTTTAAATTTTTT
1 TTTTATATTTT-AATTTTTT
717408 CACATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTATATTTTAATTTTTTA
Found at i:717404 original size:13 final size:13
Alignment explanation
Indices: 717369--717405 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
717359 ACTAAGATAT
717369 TTTTATATTTTAA
1 TTTTATATTTTAA
*
717382 TTTTTTATTTTAA
1 TTTTATATTTTAA
*
717395 TTTTAAATTTT
1 TTTTATATTTT
717406 TTCACATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTATATTTTAA
Found at i:717430 original size:16 final size:15
Alignment explanation
Indices: 717389--717440 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 15
717379 TAATTTTTTA
*
717389 TTTTAATTTTAAATT
1 TTTTAATTTAAAATT
717404 TTTTCACATTTAAAATT
1 TTTT-A-ATTTAAAATT
717421 TTTTAGATTTGAATAATT
1 TTTTA-ATTT-AA-AATT
717439 TT
1 TT
717441 AGGTTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 4 0.13
16 6 0.19
17 15 0.48
18 6 0.19
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (15 bp):
TTTTAATTTAAAATT
Found at i:718256 original size:17 final size:18
Alignment explanation
Indices: 718231--718265 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
718221 TATAACAATC
718231 GTAAATGAGCC-AATTTT
1 GTAAATGAGCCTAATTTT
*
718248 GTAATTGAGCCTAATTTT
1 GTAAATGAGCCTAATTTT
718266 AATTATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (18 bp):
GTAAATGAGCCTAATTTT
Found at i:725119 original size:21 final size:21
Alignment explanation
Indices: 725089--725141 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
725079 TTCTACAATT
* *
725089 TGTATTGATACAAAT-AGTGAA
1 TGTATCGATAC-AATGAGTAAA
725110 TGTATCGATAC-ATGAGTAAA
1 TGTATCGATACAATGAGTAAA
725130 TGTATCGATACA
1 TGTATCGATACA
725142 GGATCATGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 2 0.07
20 16 0.57
21 10 0.36
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (21 bp):
TGTATCGATACAATGAGTAAA
Found at i:725204 original size:20 final size:20
Alignment explanation
Indices: 725179--725216 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
725169 CTAGAATGAA
725179 AATGTATCGATACATTTTTT
1 AATGTATCGATACATTTTTT
725199 AATGTATCGATACATTTT
1 AATGTATCGATACATTTT
725217 GGGTTTTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (20 bp):
AATGTATCGATACATTTTTT
Found at i:727923 original size:78 final size:79
Alignment explanation
Indices: 727630--727924 Score: 251
Period size: 78 Copynumber: 3.7 Consensus size: 79
727620 AAAAGCATCA
* * * *
727630 AAATTTTT-ATCTTAGGGGATACTCCAACCCCATCAATTTCGAGGGGATACTCAAACCCT-GTTT
1 AAATTTTTCATCCTAGGGGATACTCCAACCCCATCATTTTCGAGGGGATACTCCAACCCTATTTT
*
727693 TATTTTCAAAATATT
66 TA-CTTCAAAATATT
* * * * * * *
727708 AAATTTTTCATCTTA-GAGATACTCCAACCCCATCATTTCCAAAGGGATACTCCAATCTTATTTT
1 AAATTTTTCATCCTAGGGGATACTCCAACCCCATCATTTTCGAGGGGATACTCCAACCCTATTTT
* ** *
727772 TACTTATAAAAGCGTC
66 TACTT-CAAAA-TATT
* * * * ** *
727788 GAATTTTTCA-CCATCGAGGATACTCCAATCCTGTTA-TTTCAGAGGGGATACTCCAACCCTATT
1 AAATTTTTCATCC-TAGGGGATACTCCAACCCCATCATTTTC-GAGGGGATACTCCAACCCTATT
*
727851 TTTACTTCCAAATATT
64 TTTACTTCAAAATATT
* * * *
727867 AAATTTTTTATCCT-GGGGATACTCCAACCCTACCATTTTCGAGGGGATACTTCAACCC
1 AAATTTTTCATCCTAGGGGATACTCCAACCCCATCATTTTCGAGGGGATACTCCAACCC
727925 CGATTTTCAC
Statistics
Matches: 167, Mismatches: 41, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
78 79 0.47
79 30 0.18
80 19 0.11
81 39 0.23
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (79 bp):
AAATTTTTCATCCTAGGGGATACTCCAACCCCATCATTTTCGAGGGGATACTCCAACCCTATTTT
TACTTCAAAATATT
Found at i:740762 original size:21 final size:21
Alignment explanation
Indices: 740738--740792 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
740728 TTATATTTAT
740738 TATAATAATAAATATAATAAA
1 TATAATAATAAATATAATAAA
* * *
740759 TAT-ATATTTAATTATTATAAA
1 TATAATA-ATAAATATAATAAA
740780 TATAAATAATAAA
1 TAT-AATAATAAA
740793 AAAGATCAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
20 3 0.12
21 17 0.65
22 3 0.12
23 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TATAATAATAAATATAATAAA
Found at i:742252 original size:17 final size:17
Alignment explanation
Indices: 742230--742272 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
742220 AGTAAATCGG
**
742230 ATTAGATTTGTTGAGTC
1 ATTAGATTTAATGAGTC
742247 ATTAGATTTAATGAGTC
1 ATTAGATTTAATGAGTC
742264 ATTAAGATT
1 ATT-AGATT
742273 GTTAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.44
Consensus pattern (17 bp):
ATTAGATTTAATGAGTC
Found at i:742522 original size:19 final size:20
Alignment explanation
Indices: 742498--742548 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
742488 AAATTTTTAG
*
742498 ATAATATTTTATTAAAT-TC
1 ATAATATTTTATAAAATGTC
* *
742517 ATAATAATTTATAAAATGTG
1 ATAATATTTTATAAAATGTC
742537 ATAATATTTTAT
1 ATAATATTTTAT
742549 GTAATATACT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (20 bp):
ATAATATTTTATAAAATGTC
Found at i:743979 original size:28 final size:29
Alignment explanation
Indices: 743918--743980 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 29
743908 TGATTCGTTA
* **
743918 AATA-TTTATTTTATAAAATAATTAATTT
1 AATATTTTATTTTATAAAATAATCAAAAT
*
743946 TA-ATTTTATTTTATAAAAT-ATCAAAAT
1 AATATTTTATTTTATAAAATAATCAAAAT
743973 AATATTTT
1 AATATTTT
743981 CGTATTATCT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
AATATTTTATTTTATAAAATAATCAAAAT
Found at i:744171 original size:4 final size:4
Alignment explanation
Indices: 744164--744198 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
744154 TTTTTATATA
744164 TATT TATT TATT TATT TATT T-TT TAGTT TATT TAT
1 TATT TATT TATT TATT TATT TATT TA-TT TATT TAT
744199 ATTTAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.10
4 22 0.76
5 4 0.14
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:744279 original size:20 final size:20
Alignment explanation
Indices: 744254--744302 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
744244 TAAACATATG
*
744254 ATTAAATATATTCATGAACA
1 ATTAAATATATTCAAGAACA
*
744274 ATTAAAATTATATTCAAGAATA
1 ATT-AAA-TATATTCAAGAACA
744296 A-TAAATA
1 ATTAAATA
744303 AACAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 2 0.08
20 6 0.24
21 4 0.16
22 13 0.52
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.35
Consensus pattern (20 bp):
ATTAAATATATTCAAGAACA
Found at i:744378 original size:40 final size:37
Alignment explanation
Indices: 744279--744407 Score: 116
Period size: 40 Copynumber: 3.2 Consensus size: 37
744269 GAACAATTAA
*
744279 AATTATATTCAAGAATAATAAATAAACAAATAAATATTATT
1 AATTATATT-AA-AATAA-AAA-AAAAAAATAAATATTATT
* *
744320 TATTAGTTTTAAATATAAAAAAAAAAACATAAATATTATT
1 AATTA-TATTAAA-ATAAAAAAAAAAA-ATAAATATTATT
*
744360 AAATTATATTATAAATAAAACAAATAATAAT-AATATTATT
1 -AATTATATTA-AAATAAAA-AAA-AAAAATAAATATTATT
744400 AATTATAT
1 AATTATAT
744408 GATAATCGAA
Statistics
Matches: 75, Mismatches: 6, Indels: 16
0.77 0.06 0.16
Matches are distributed among these distances:
39 13 0.17
40 35 0.47
41 21 0.28
42 6 0.08
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (37 bp):
AATTATATTAAAATAAAAAAAAAAAATAAATATTATT
Found at i:744877 original size:34 final size:34
Alignment explanation
Indices: 744837--744912 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 34
744827 TTATTTAATA
*
744837 ATTATTTAATGTATAAA-TATTTTTAATTAATTATT
1 ATTATTTAATGTAAAAATTATTTTTAA--AATTATT
* *
744872 A-TATTTTATTTTAAAAATTATTTTTAAAATTATT
1 ATTA-TTTAATGTAAAAATTATTTTTAAAATTATT
744906 ATTATTT
1 ATTATTT
744913 TATTATATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
34 13 0.37
35 13 0.37
36 9 0.26
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (34 bp):
ATTATTTAATGTAAAAATTATTTTTAAAATTATT
Found at i:746837 original size:16 final size:16
Alignment explanation
Indices: 746816--746848 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
746806 CAAAGTTATA
746816 AATATCTAATCATATT
1 AATATCTAATCATATT
746832 AATATCTAATCATATT
1 AATATCTAATCATATT
746848 A
1 A
746849 GGGAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (16 bp):
AATATCTAATCATATT
Found at i:747304 original size:12 final size:12
Alignment explanation
Indices: 747287--747311 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
747277 AGAGAAACTA
747287 TTTCTCCTAAAT
1 TTTCTCCTAAAT
747299 TTTCTCCTAAAT
1 TTTCTCCTAAAT
747311 T
1 T
747312 CATAGCGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTCTCCTAAAT
Found at i:748124 original size:232 final size:232
Alignment explanation
Indices: 747712--748172 Score: 782
Period size: 232 Copynumber: 2.0 Consensus size: 232
747702 TGCTTACTTT
* * *
747712 ATAAGTAAGAAGGCTTAACATGTACTAGTCTTTGAGCATTATTATTGCCTTGTCTTGACAGTATA
1 ATAAGCAAGAAGGCTTAACATGTACTAATCTTTAAGCATTATTATTGCCTTGTCTTGACAGTATA
* * *
747777 ATGACCTGGAACATTGTAGGACCTCGGTTTTGATGCACAAGAATCTCATAATTATAACACTTTAC
66 ATGACCTAGAACATTGTAGGACCTCAGCTTTGATGCACAAGAATCTCATAATTATAACACTTTAC
* *
747842 ACTTCTATCGAAGAGCCTTTAAAGTTCTATAGGCTTCATCTAATTCATGGTTTCATTATGGTTAG
131 ACTTCTATCGAAGAGCCTTTAAAGTTCTATAAGCTTCATCTAATTCATGGTTTCATGATGGTTAG
*
747907 TTATGTCACTAATATGAAGGAAAATTTTGTATCACTA
196 TTATGTCACTAATATGAAGGAAAATCTTGTATCACTA
747944 ATAAGCAAGAAGGCTTAACATGTACTAATCTTTAAGCATTATTATTGCCTTGTCTTGACAGTATA
1 ATAAGCAAGAAGGCTTAACATGTACTAATCTTTAAGCATTATTATTGCCTTGTCTTGACAGTATA
*
748009 ATGACCTAGAACATTGTAGGA-CTCCAGCTTTGATGCACAAGATTCTCATAATTATAACACTTTA
66 ATGACCTAGAACATTGTAGGACCT-CAGCTTTGATGCACAAGAATCTCATAATTATAACACTTTA
* *
748073 CACTTCTATTGGAA-AGCCTTTAAAGTTTTATAAGCTTCATCTAATTCATGGTTTCATGATGGTT
130 CACTTCTA-TCGAAGAGCCTTTAAAGTTCTATAAGCTTCATCTAATTCATGGTTTCATGATGGTT
748137 AGTTATGTCACTAATATGAAGGAAAATCTTGTATCA
194 AGTTATGTCACTAATATGAAGGAAAATCTTGTATCA
748173 TTAGAGTTAG
Statistics
Matches: 215, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
231 2 0.01
232 209 0.97
233 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (232 bp):
ATAAGCAAGAAGGCTTAACATGTACTAATCTTTAAGCATTATTATTGCCTTGTCTTGACAGTATA
ATGACCTAGAACATTGTAGGACCTCAGCTTTGATGCACAAGAATCTCATAATTATAACACTTTAC
ACTTCTATCGAAGAGCCTTTAAAGTTCTATAAGCTTCATCTAATTCATGGTTTCATGATGGTTAG
TTATGTCACTAATATGAAGGAAAATCTTGTATCACTA
Found at i:748380 original size:2 final size:2
Alignment explanation
Indices: 748373--748398 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
748363 TGGATCTTGG
748373 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
748399 GGCTTTCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:748458 original size:130 final size:129
Alignment explanation
Indices: 748255--748495 Score: 358
Period size: 130 Copynumber: 1.9 Consensus size: 129
748245 TGCTCTAACA
* * *
748255 ATATATATATATATGGTTCTCTAAATCAATGATTGTTTATCCTTTTAATTTCTATCCACAAAGAT
1 ATATATATATATATGGTTCTCCAAATCAATGATTATTTATCCTTTTAATCTCTATCCACAAAGAT
*
748320 AAGATCAAGCGTATGACTATATTGTGTTTTGCTATCTAAATTATGGATCTTGGATATATATATAT
66 AAGATCAAGCGTATGACTATATAGTGTTTTG-TATCTAAATTATGGATCTTGGATATATATATAT
* **
748385 ATATATATATATATGGCTT-TCCAAATCAATGATTATTTATCCTTTTAATCTCTATCTATGAAGA
1 ATATATATATATATGG-TTCTCCAAATCAATGATTATTTATCCTTTTAATCTCTATCCACAAAGA
* * * *
748449 TAAGCTCAAGCGTATGATTATATAGTGTTTTGTTTGTAAATTATGGA
65 TAAGATCAAGCGTATGACTATATAGTGTTTTGTATCTAAATTATGGA
748496 CATTGGTTTA
Statistics
Matches: 99, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
129 13 0.13
130 84 0.85
131 2 0.02
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (129 bp):
ATATATATATATATGGTTCTCCAAATCAATGATTATTTATCCTTTTAATCTCTATCCACAAAGAT
AAGATCAAGCGTATGACTATATAGTGTTTTGTATCTAAATTATGGATCTTGGATATATATATAT
Found at i:755298 original size:20 final size:20
Alignment explanation
Indices: 755273--755347 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
755263 TTTTACCCTG
755273 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * * *
755293 ATGTATTGATATATGTATGA
1 ATGTATCGATACATTTTTCA
*
755313 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
755333 ATGTATCGATACATT
1 ATGTATCGATACATT
755348 CTGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Done.