Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold20
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: 3599867
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 51021 characters in sequence are not A, C, G, or T
File 4 of 25
Found at i:482651 original size:13 final size:13
Alignment explanation
Indices: 482633--482658 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
482623 CAATTTTTTG
482633 TGTATCGATACAT
1 TGTATCGATACAT
482646 TGTATCGATACAT
1 TGTATCGATACAT
482659 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:482673 original size:32 final size:33
Alignment explanation
Indices: 482613--482676 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
482603 TACAAGCCAA
** *
482613 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
482646 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
482677 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:487327 original size:15 final size:15
Alignment explanation
Indices: 487307--487337 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
487297 ATTTCGTTTG
*
487307 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
487322 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
487337 G
1 G
487338 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:491419 original size:13 final size:13
Alignment explanation
Indices: 491401--491426 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
491391 CAATTTTTTG
491401 TGTATCGATACAT
1 TGTATCGATACAT
491414 TGTATCGATACAT
1 TGTATCGATACAT
491427 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:491441 original size:32 final size:33
Alignment explanation
Indices: 491381--491444 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
491371 TACAAGCCAA
** *
491381 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
491414 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
491445 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:494309 original size:11 final size:11
Alignment explanation
Indices: 494289--494327 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
494279 GATTAAAATT
*
494289 AAAATGAAAAG
1 AAAATAAAAAG
494300 AAAATAAAAAAG
1 AAAAT-AAAAAG
*
494312 AAAATAAAATG
1 AAAATAAAAAG
494323 AAAAT
1 AAAAT
494328 GGGTGAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (11 bp):
AAAATAAAAAG
Found at i:494309 original size:17 final size:17
Alignment explanation
Indices: 494283--494328 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
494273 AGTTTTGATT
*
494283 AAAATTAAAATGAAAAG
1 AAAATAAAAATGAAAAG
* *
494300 AAAATAAAAAAGAAAAT
1 AAAATAAAAATGAAAAG
*
494317 AAAATGAAAATG
1 AAAATAAAAATG
494329 GGTGAAAATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (17 bp):
AAAATAAAAATGAAAAG
Found at i:494326 original size:6 final size:6
Alignment explanation
Indices: 494283--494328 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
494273 AGTTTTGATT
* * *
494283 AAAATT AAAATG AAAA-G AAAATA AAAAAG AAAAT- AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
494329 GGTGAAAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
5 10 0.30
6 23 0.70
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:495430 original size:20 final size:20
Alignment explanation
Indices: 495405--495458 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
495395 ATTTGGGACA
495405 ATGTATCGATACAAT-T-CTTC
1 ATGTATCGATACAATGTGC--C
*
495425 ATGTATCGATAGAATGTGCC
1 ATGTATCGATACAATGTGCC
495445 ATGTATCGATACAA
1 ATGTATCGATACAA
495459 ATAGTGGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:509310 original size:92 final size:92
Alignment explanation
Indices: 509193--509372 Score: 243
Period size: 92 Copynumber: 2.0 Consensus size: 92
509183 CAACGAGCTG
* **
509193 CTTTTGCTTTGCAGCCATACATAAATGGGATGGAAAAACAAATGCTATGGGTTTTTGACTTAACC
1 CTTTTGCTCTGCAGCCATACATAAATGGGATGGAAAAACAAATGCTATGGGTTTTCAACTTAACC
* *
509258 CATGTCTATTAAGGAGTTGCATAGCCA
66 CATGTCTATAAAGAAGTTGCATAGCCA
** * * * * *
509285 CTTTTGCTCTGCAGCCATACATAAATGGGATTTACAAAGACATGGTATGGGTTTTCAACTTAACT
1 CTTTTGCTCTGCAGCCATACATAAATGGGATGGAAAAACAAATGCTATGGGTTTTCAACTTAACC
*
509350 CATGTCTGTAAAGAAGTTGCATA
66 CATGTCTATAAAGAAGTTGCATA
509373 ATGACCTTAA
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (92 bp):
CTTTTGCTCTGCAGCCATACATAAATGGGATGGAAAAACAAATGCTATGGGTTTTCAACTTAACC
CATGTCTATAAAGAAGTTGCATAGCCA
Found at i:512439 original size:16 final size:16
Alignment explanation
Indices: 512414--512453 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
512404 TAGAAACTAC
*
512414 TTAGAGATAAAAGATT
1 TTAGATATAAAAGATT
*
512430 TTAGATATAAAAGTTT
1 TTAGATATAAAAGATT
*
512446 TTGGATAT
1 TTAGATAT
512454 TCAATCCTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.40
Consensus pattern (16 bp):
TTAGATATAAAAGATT
Found at i:523522 original size:51 final size:52
Alignment explanation
Indices: 523408--523546 Score: 192
Period size: 51 Copynumber: 2.7 Consensus size: 52
523398 ATTTGCCTGC
* * *
523408 ATGTATCGATA-AATTGAAGAATGTATCGATACATTTAGGTTAAAAACCCATA
1 ATGTATCGATACAA-TGAAAAATGTATCGATACATTTAGGGTAAAAACCCAGA
* *
523460 ATGTATCGATACAATGAAAAATGTATCGATACATTT-GGGTCAAAACCTAGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTAGGGTAAAAACCCAGA
* *
523511 ATGTATTGATACAATGAAAAATGTATCAATACATTT
1 ATGTATCGATACAATGAAAAATGTATCGATACATTT
523547 TCATTCTAGA
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
51 45 0.57
52 32 0.41
53 2 0.03
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (52 bp):
ATGTATCGATACAATGAAAAATGTATCGATACATTTAGGGTAAAAACCCAGA
Found at i:525152 original size:27 final size:27
Alignment explanation
Indices: 525102--525154 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
525092 GTTTAAAAAC
**
525102 GGGGTTGGAGTATCCCCTCGGAATAAT
1 GGGGTTGGAGTATCCCCAAGGAATAAT
* *
525129 GGGGTTTGAGTATCCCCAATGAATAA
1 GGGGTTGGAGTATCCCCAAGGAATAA
525155 AATTTGATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCAAGGAATAAT
Found at i:526759 original size:68 final size:68
Alignment explanation
Indices: 526650--526793 Score: 279
Period size: 68 Copynumber: 2.1 Consensus size: 68
526640 CCAACACAAG
526650 CAAGCTAGGTTGGTTTGTTGGCTTAATTAAGCAATGCAGCTCGTTTACCACCTTTGTGGGGCTGT
1 CAAGCTAGGTTGGTTTGTTGGCTTAATTAAGCAATGCAGCTCGTTTACCACCTTTGTGGGGCTGT
526715 AAA
66 AAA
*
526718 CAAGCTAGGTTGGTTTGTTGGCTTAATTAAGCAGTGCAGCTCGTTTACCACCTTTGTGGGGCTGT
1 CAAGCTAGGTTGGTTTGTTGGCTTAATTAAGCAATGCAGCTCGTTTACCACCTTTGTGGGGCTGT
526783 AAA
66 AAA
526786 CAAGCTAG
1 CAAGCTAG
526794 AAAATGATGA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 75 1.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (68 bp):
CAAGCTAGGTTGGTTTGTTGGCTTAATTAAGCAATGCAGCTCGTTTACCACCTTTGTGGGGCTGT
AAA
Found at i:527422 original size:20 final size:20
Alignment explanation
Indices: 527397--527471 Score: 96
Period size: 20 Copynumber: 3.7 Consensus size: 20
527387 ATTTGCATGC
527397 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
**
527417 ATGTATCGATACATCTGGGTA
1 ATGTATCGATACAT-TGAATA
* *
527438 ATGTATCGATATATTGAATC
1 ATGTATCGATACATTGAATA
*
527458 TTGTATCGATACAT
1 ATGTATCGATACAT
527472 CTGGGTAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 29 0.63
21 17 0.37
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:527442 original size:41 final size:41
Alignment explanation
Indices: 527397--527479 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
527387 ATTTGCATGC
527397 ATGTATCGATACATTGAATAATGTATCGATACATCTGGGTA
1 ATGTATCGATACATTGAATAATGTATCGATACATCTGGGTA
* **
527438 ATGTATCGATATATTGAATCTTGTATCGATACATCTGGGTA
1 ATGTATCGATACATTGAATAATGTATCGATACATCTGGGTA
527479 A
1 A
527480 AATACCTAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (41 bp):
ATGTATCGATACATTGAATAATGTATCGATACATCTGGGTA
Found at i:529324 original size:13 final size:13
Alignment explanation
Indices: 529306--529331 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
529296 CAATTTTTTG
529306 TGTATCGATACAT
1 TGTATCGATACAT
529319 TGTATCGATACAT
1 TGTATCGATACAT
529332 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:530079 original size:21 final size:21
Alignment explanation
Indices: 530038--530081 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
530028 CTCCCCTTTA
* *
530038 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
530059 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
530080 TC
1 TC
530082 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:531906 original size:13 final size:13
Alignment explanation
Indices: 531888--531926 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
531878 ATAATCACCC
*
531888 TGTATCAATACAA
1 TGTATCGATACAA
*
531901 TGTATCGATACTA
1 TGTATCGATACAA
531914 TGTATCGATACAA
1 TGTATCGATACAA
531927 AGAAAAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:534025 original size:15 final size:15
Alignment explanation
Indices: 534005--534035 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
533995 ATTTCGTTTG
*
534005 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
534020 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
534035 G
1 G
534036 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:535868 original size:21 final size:21
Alignment explanation
Indices: 535839--535883 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
535829 AAGTTTTCAT
*
535839 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
535859 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
535881 TTT
1 TTT
535884 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:538127 original size:13 final size:13
Alignment explanation
Indices: 538109--538134 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
538099 CAATTTTTTG
538109 TGTATCGATACAT
1 TGTATCGATACAT
538122 TGTATCGATACAT
1 TGTATCGATACAT
538135 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:540844 original size:20 final size:21
Alignment explanation
Indices: 540770--540843 Score: 132
Period size: 21 Copynumber: 3.6 Consensus size: 21
540760 TTCTACAATT
540770 TGTATCGATACAAATAGTGAA
1 TGTATCGATACAAATAGTGAA
540791 TGTATCGATACAAATAGTGAA
1 TGTATCGATACAAATAGTGAA
*
540812 TGTATCGATACATA-AGTGAA
1 TGTATCGATACAAATAGTGAA
540832 TGTATCGATACA
1 TGTATCGATACA
540844 TCTCTAAAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
20 18 0.35
21 34 0.65
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.30
Consensus pattern (21 bp):
TGTATCGATACAAATAGTGAA
Found at i:540859 original size:41 final size:42
Alignment explanation
Indices: 540770--540865 Score: 115
Period size: 41 Copynumber: 2.3 Consensus size: 42
540760 TTCTACAATT
* * *
540770 TGTATCGATACAAATAGTGAATGTATCGATACAAATAGTGAA
1 TGTATCGATACATATAGTGAATGTATCGATACAAATACTAAA
**
540812 TGTATCGATACATA-AGTGAATGTATCGATACATCT-CTAAAA
1 TGTATCGATACATATAGTGAATGTATCGATACAAATACT-AAA
*
540853 TTTATCGATACAT
1 TGTATCGATACAT
540866 GGTCATGTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.02
41 33 0.70
42 13 0.28
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (42 bp):
TGTATCGATACATATAGTGAATGTATCGATACAAATACTAAA
Found at i:541742 original size:33 final size:33
Alignment explanation
Indices: 541685--541750 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
541675 GCCAAGGAAA
*
541685 TGTATCGATACATTATTCAATGTATGGATACAT
1 TGTATCGATACATTATTCAATGTATCGATACAT
**
541718 TGTATCGATACATTGA-TCTTTGTATCGATACAT
1 TGTATCGATACATT-ATTCAATGTATCGATACAT
541751 CTGGGAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTATTCAATGTATCGATACAT
Found at i:547171 original size:77 final size:75
Alignment explanation
Indices: 546958--547177 Score: 230
Period size: 77 Copynumber: 2.8 Consensus size: 75
546948 ACATCAAGAG
* *
546958 GGGATACTCCAACCCCGTTTTTATTTCTGAAATATTAAATTTTCATCTTGGGGATACTCCAACCC
1 GGGATACTCCAA-CCCGTTTTTATTTCTGAAAAATTAAATTTTCATCTT-GGGATACT-TAACCC
*
547023 CGTTATATTTGAA
63 CATTATATTTGAA
* * **
547036 GGGATACTCCAACCCTGTTTTTATTT-TCAAAATATTAAAATTTTCATCTCGGGAATACTTAATT
1 GGGATACTCCAACCC-GTTTTTATTTCTGAAAA-ATT-AAATTTTCATCTTGGG-ATACTTAACC
547100 CCATTAT-TTT-AA
62 CCATTATATTTGAA
* *
547112 GAGGATACTCTAATCCCATTTTTATTTCTGAAAAATTAAAGTTTTCATCTTGAGGATACTTCAAC
1 G-GGATACTCCAA-CCCGTTTTTATTTCTGAAAAATTAAA-TTTTCATCTTG-GGATACTT-AAC
547177 C
61 C
547178 TCGTAAATTT
Statistics
Matches: 119, Mismatches: 13, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
76 6 0.05
77 48 0.40
78 48 0.40
79 17 0.14
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (75 bp):
GGGATACTCCAACCCGTTTTTATTTCTGAAAAATTAAATTTTCATCTTGGGATACTTAACCCCAT
TATATTTGAA
Found at i:547390 original size:267 final size:267
Alignment explanation
Indices: 546915--547448 Score: 964
Period size: 267 Copynumber: 2.0 Consensus size: 267
546905 TCCTATTTTC
546915 AAATTTCTTCCATGAATGTTATTTCATTTCAAAACATCAAGAGGGGATACTCCAACCCCGTTTTT
1 AAATTTCTTCCATGAATGTTATTTCATTTCAAAACATCAAGAGGGGATACTCCAACCCCGTTTTT
*
546980 ATTTCTGAAATATTAAATTTTCATCTTGGGGATACTCCAACCCCGTTATATTTGAAGGGATACTC
66 ATTTCTAAAATATTAAATTTTCATCTTGGGGATACTCCAACCCCGTTATATTTGAAGGGATACTC
* * *
547045 CAACCCTGTTTTTATTTTCAAAATATTAAAATTTTCATCTCGGGAATACTTAATTCCATTATTTT
131 CAACCCTGATTTTATTTTCAAAATATTAAAATTTTCATCTCGGAAATACTTAACTCCATTATTTT
* *
547110 AAGAGGATACTCTAATCCCATTTTTATTTCTGAAAAATTAAAGTTTTCATCTTGAGGATACTTCA
196 AAGAGGATACTCTAATCCCATTTTTATTTCTGAAAAATTAAAGTTTTCATCTCGAGGATACTCCA
547175 ACCTCGT
261 ACCTCGT
*
547182 AAATTTC-TCTCATGAATGTTATTTCATTTCAAAACATCAAGAGGGGATACTCCAACCTCGTTTT
1 AAATTTCTTC-CATGAATGTTATTTCATTTCAAAACATCAAGAGGGGATACTCCAACCCCGTTTT
*
547246 TATTTCTAAAATATTAAATTTTCATCTTGGGGATACTCCAACCCCGTTATTTTTGAAGGGATACT
65 TATTTCTAAAATATTAAATTTTCATCTTGGGGATACTCCAACCCCGTTATATTTGAAGGGATACT
547311 CCAACCCT-ATTTTATTTTCAAAATATTAAAATTTTCATCTCGGAAATACTTAACTCCATTATTT
130 CCAACCCTGATTTTATTTTCAAAATATTAAAATTTTCATCTCGGAAATACTTAACTCCATTA-TT
547375 TTAAGAGGATACTCTAATCCCATTTTTATTTCTGAAAAATTAAAGTTTTCATCTCGAGGATACTC
194 TTAAGAGGATACTCTAATCCCATTTTTATTTCTGAAAAATTAAAGTTTTCATCTCGAGGATACTC
547440 CAACCTCGT
259 CAACCTCGT
547449 TATTTTCGAG
Statistics
Matches: 257, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
266 52 0.20
267 205 0.80
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (267 bp):
AAATTTCTTCCATGAATGTTATTTCATTTCAAAACATCAAGAGGGGATACTCCAACCCCGTTTTT
ATTTCTAAAATATTAAATTTTCATCTTGGGGATACTCCAACCCCGTTATATTTGAAGGGATACTC
CAACCCTGATTTTATTTTCAAAATATTAAAATTTTCATCTCGGAAATACTTAACTCCATTATTTT
AAGAGGATACTCTAATCCCATTTTTATTTCTGAAAAATTAAAGTTTTCATCTCGAGGATACTCCA
ACCTCGT
Found at i:547483 original size:79 final size:79
Alignment explanation
Indices: 547226--547684 Score: 545
Period size: 79 Copynumber: 5.8 Consensus size: 79
547216 CATCAAGAGG
* * *
547226 GGATACTCCAACCTCGTTTTTATTTCTAAAATATT-AAATTTTCATCTTGGGGATACTCCAACCC
1 GGATACTCCAACCCCATTTTTATTTCTAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCC
*
547290 CGTTATTTTTGA-A
66 CATTATTTTTGAGA
* ** *
547303 GGGATACTCCAACCCTA-TTTTATTT-TCAAAATATTAAAATTTTCATCTCGGAAATACT-TAAC
1 -GGATACTCCAACCCCATTTTTATTTCT-AAAATATTAAAATTTTCATCTCGGGGATACTCCAAC
* *
547365 TCCATTATTTTTAAGA
64 CCCATTATTTTTGAGA
* * * *
547381 GGATACTCTAATCCCATTTTTATTTCTGAAAA-ATTAAAGTTTTCATCTCGAGGATACTCCAACC
1 GGATACTCCAACCCCATTTTTATTTCT-AAAATATTAAAATTTTCATCTCGGGGATACTCCAACC
* * *
547445 TCGTTATTTTCGAGA
65 CCATTATTTTTGAGA
* * *
547460 GGATACTCCAACCCCGTTTTTATTTCTAAAATATTAAAATTTTCATCTTGGGGATACTTCAACCC
1 GGATACTCCAACCCCATTTTTATTTCTAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCC
* *
547525 CATTATTTTCGAGG
66 CATTATTTTTGAGA
* * * *
547539 GGATACTCCTACCCCATTTTTATTTCTAAAATA-TCAAATTTTCACCATCAGGGATACTCCAACC
1 GGATACTCCAACCCCATTTTTATTTCTAAAATATTAAAATTTTCATC-TCGGGGATACTCCAACC
* *
547603 CCATAATTTTTGAGG
65 CCATTATTTTTGAGA
* * * *
547618 GGATACTCCAACCCCATTTTTACTCCTAAATTATTAAAATTTTCATCTCGGGGATATTCCAACCC
1 GGATACTCCAACCCCATTTTTATTTCTAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCC
547683 CA
66 CA
547685 CCATCTCCGA
Statistics
Matches: 321, Mismatches: 51, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
76 1 0.00
77 43 0.13
78 78 0.24
79 188 0.59
80 11 0.03
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (79 bp):
GGATACTCCAACCCCATTTTTATTTCTAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCC
CATTATTTTTGAGA
Found at i:553208 original size:80 final size:79
Alignment explanation
Indices: 553123--553315 Score: 233
Period size: 82 Copynumber: 2.4 Consensus size: 79
553113 TAACCCCTAT
* * *
553123 TTTTTACTTCTAAAACATCGAATTTTTCATCTCTGGGGATACTCCAACCCCACTACCTCTGAGGA
1 TTTTTACTT-TAAAACATCAAATTTTTCATCTCTGGGGATACTCCAACCCCACCACCTCCGAGGA
553188 GATACTCCAACCTCG
65 GATACTCCAACCTCG
** * * * *
553203 TTTTTACTTTTAAAATGTCAAATTTTTTTTATCTTTGGGGATACTCCAACTCCACCATCTCCGAG
1 TTTTTAC-TTTAAAACATCAAA--TTTTTCATCTCTGGGGATACTCCAACCCCACCACCTCCGAG
* *
553268 GGGATACTCCAGCCTCG
63 GAGATACTCCAACCTCG
*
553285 TTTTTACTTTCGAAACATCAAATTTTTCATC
1 TTTTTACTTT-AAAACATCAAATTTTTCATC
553316 ATATCTTCGC
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
80 24 0.26
81 5 0.05
82 65 0.69
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (79 bp):
TTTTTACTTTAAAACATCAAATTTTTCATCTCTGGGGATACTCCAACCCCACCACCTCCGAGGAG
ATACTCCAACCTCG
Found at i:553413 original size:52 final size:53
Alignment explanation
Indices: 553344--553447 Score: 158
Period size: 52 Copynumber: 2.0 Consensus size: 53
553334 TCCAACCTTA
* **
553344 TTTTTACTTCCACAATATTGAATT-TTCATCTCTAGGGATACT-TCAACCCCAT
1 TTTTTACTTCCACAATATCGAATTCTTCATCTCTAAAGATACTCT-AACCCCAT
553396 TTTTTACTTCCACAATATCGAATTCTTCATCTCTAAAGATACTCTAACCCCA
1 TTTTTACTTCCACAATATCGAATTCTTCATCTCTAAAGATACTCTAACCCCA
553448 CCATCTCCGA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
52 23 0.49
53 23 0.49
54 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.38
Consensus pattern (53 bp):
TTTTTACTTCCACAATATCGAATTCTTCATCTCTAAAGATACTCTAACCCCAT
Found at i:556679 original size:20 final size:19
Alignment explanation
Indices: 556654--556835 Score: 131
Period size: 20 Copynumber: 9.7 Consensus size: 19
556644 TTTTACCCAG
556654 ATGTATCGATACATCTTCCA
1 ATGTATCGATACATCTT-CA
* *
556674 ATGTATCAATACAT-TGCCCA
1 ATGTATCGATACATCT--TCA
556694 GATGTATCGATACATCTTTCA
1 -ATGTATCGATACATC-TTCA
556715 ATGTATCGATACATTCTTCA
1 ATGTATCGATACA-TCTTCA
556735 ATGTATCGATACATTCTATC-
1 ATGTATCGATACA-TCT-TCA
*
556755 CT-T-T---TAC--C-T-A
1 ATGTATCGATACATCTTCA
*
556765 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACA-TCTTCA
556786 ATGTATCGATACATTCTTCA
1 ATGTATCGATACA-TCTTCA
556806 ATGTATCGATACA--TTC-
1 ATGTATCGATACATCTTCA
556822 ATGTATCGATACAT
1 ATGTATCGATACAT
556836 TCTATCCTTT
Statistics
Matches: 134, Mismatches: 8, Indels: 43
0.72 0.04 0.23
Matches are distributed among these distances:
10 1 0.01
11 1 0.01
12 2 0.01
13 1 0.01
15 3 0.02
16 16 0.12
17 3 0.02
18 1 0.01
19 2 0.01
20 83 0.62
21 20 0.15
23 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.38
Consensus pattern (19 bp):
ATGTATCGATACATCTTCA
Found at i:556700 original size:41 final size:40
Alignment explanation
Indices: 556649--556748 Score: 148
Period size: 41 Copynumber: 2.5 Consensus size: 40
556639 CACATTTTTA
556649 CCCAGATGTATCGATACATCTTCCAATGTATCAATACATT
1 CCCAGATGTATCGATACATCTTCCAATGTATCAATACATT
* *
556689 GCCCAGATGTATCGATACATCTTTCAATGTATCGATACATT
1 -CCCAGATGTATCGATACATCTTCCAATGTATCAATACATT
*
556730 CTTCA-ATGTATCGATACAT
1 C-CCAGATGTATCGATACAT
556749 TCTATCCTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
40 15 0.27
41 40 0.73
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (40 bp):
CCCAGATGTATCGATACATCTTCCAATGTATCAATACATT
Found at i:556855 original size:87 final size:90
Alignment explanation
Indices: 556695--556886 Score: 338
Period size: 87 Copynumber: 2.2 Consensus size: 90
556685 CATTGCCCAG
556695 ATGTATCGATACA-TCTTTCAATGTATCGATACATTCTTCAATGTATCGATACATTCTATCCTTT
1 ATGTATCGATACATTCTTTCAATGTATCGATACA-T-TTCAATGTATCGATACATTCTATCCTTT
556759 TACCTAGATGTATCGATACATTTTTCA
64 TACCTAGATGTATCGATACATTTTTCA
556786 ATGTATCGATACATTC-TTCAATGTATCGATACA-TTC-ATGTATCGATACATTCTATCCTTTTA
1 ATGTATCGATACATTCTTTCAATGTATCGATACATTTCAATGTATCGATACATTCTATCCTTTTA
556848 CCTAGATGTATCGATACATTTTTCA
66 CCTAGATGTATCGATACATTTTTCA
556873 ATGTATCGATACAT
1 ATGTATCGATACAT
556887 CTAGTTAAAA
Statistics
Matches: 100, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
87 65 0.65
88 3 0.03
91 30 0.30
92 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.41
Consensus pattern (90 bp):
ATGTATCGATACATTCTTTCAATGTATCGATACATTTCAATGTATCGATACATTCTATCCTTTTA
CCTAGATGTATCGATACATTTTTCA
Found at i:560448 original size:13 final size:13
Alignment explanation
Indices: 560430--560454 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
560420 CATGGGACAT
560430 TGTATCGATACAA
1 TGTATCGATACAA
560443 TGTATCGATACA
1 TGTATCGATACA
560455 TGGTAAAAAG
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:560468 original size:33 final size:33
Alignment explanation
Indices: 560408--560472 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
560398 CCCTAAGTGA
* **
560408 AATGTATCGATACATGGGACATTGTATCGATAC
1 AATGTATCGATACATGGGAAAAAGTATCGATAC
*
560441 AATGTATCGATACATGGTAAAAAGTATCGATA
1 AATGTATCGATACATGGGAAAAAGTATCGATA
560473 TATTGTGCCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACATGGGAAAAAGTATCGATAC
Found at i:562068 original size:9 final size:9
Alignment explanation
Indices: 562054--562092 Score: 69
Period size: 9 Copynumber: 4.3 Consensus size: 9
562044 TCAACCATCA
562054 AAGATGATG
1 AAGATGATG
562063 AAGATGATG
1 AAGATGATG
562072 AAGATGATG
1 AAGATGATG
*
562081 ATGATGATG
1 AAGATGATG
562090 AAG
1 AAG
562093 TTGACTTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (9 bp):
AAGATGATG
Found at i:562071 original size:3 final size:3
Alignment explanation
Indices: 562056--562090 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
562046 AACCATCAAA
* *
562056 GAT GAT GAA GAT GAT GAA GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
562091 AGTTGACTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.34, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:568493 original size:19 final size:20
Alignment explanation
Indices: 568464--568521 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 20
568454 TTTGTATCGA
* *
568464 TACATTATATCGATACATGT
1 TACATTGTATCGATACATAT
568484 T-CATTGTATCGATACATAT
1 TACATTGTATCGATACATAT
*
568503 TAAATTGTATCGATACATA
1 TACATTGTATCGATACATA
568522 AAATTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (20 bp):
TACATTGTATCGATACATAT
Found at i:568496 original size:32 final size:33
Alignment explanation
Indices: 568438--568500 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
568428 CATCTAGAAG
*
568438 TATCGATACATTATGCTTTGTATCGATACATTA
1 TATCGATACATTATGCATTGTATCGATACATTA
568471 TATCGATACATGT-T-CATTGTATCGATACAT
1 TATCGATACAT-TATGCATTGTATCGATACAT
568501 ATTAAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (33 bp):
TATCGATACATTATGCATTGTATCGATACATTA
Found at i:568511 original size:20 final size:19
Alignment explanation
Indices: 568471--568521 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
568461 CGATACATTA
* *
568471 TATCGATACATGTTCATTG
1 TATCGATACATATTAATTG
568490 TATCGATACATATTAAATTG
1 TATCGATACATATT-AATTG
568510 TATCGATACATA
1 TATCGATACATA
568522 AAATTGGCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (19 bp):
TATCGATACATATTAATTG
Found at i:568527 original size:18 final size:19
Alignment explanation
Indices: 568471--568527 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 19
568461 CGATACATTA
* **
568471 TATCGATACATGTTCATTG
1 TATCGATACATATAAATTG
568490 TATCGATACATATTAAATTG
1 TATCGATACATA-TAAATTG
568510 TATCGATACATA-AAATTG
1 TATCGATACATATAAATTG
568528 GCAGTAGCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.18
19 11 0.32
20 17 0.50
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (19 bp):
TATCGATACATATAAATTG
Found at i:570907 original size:20 final size:21
Alignment explanation
Indices: 570879--570929 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
570869 AAATATGTTG
570879 TTTGTTGATATGATATTAATT
1 TTTGTTGATATGATATTAATT
* *
570900 TTTG-TGATATGATTTTGATT
1 TTTGTTGATATGATATTAATT
570920 TTT-TTG-TATG
1 TTTGTTGATATG
570930 TACATAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 4 0.15
20 19 0.70
21 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.18, T:0.61
Consensus pattern (21 bp):
TTTGTTGATATGATATTAATT
Found at i:572297 original size:154 final size:155
Alignment explanation
Indices: 571973--572376 Score: 344
Period size: 154 Copynumber: 2.6 Consensus size: 155
571963 GCCTATGTGT
* * * * * * * *
571973 ATTTTGATAATTTCCCTTAGAATCGAGTTTGATGTAATCACTAAGATGCTTTTATGCCAAAGGTA
1 ATTTTGATAATTTCCCCTAAAATCGAATGTGATTTAGTCACCAAAATGCTTTTATGCCAAAGGTA
* * * * *
572038 TACATTTAGGATAATTTCACCCTTTTATGATTATTTTTGAGTCCTTTAGGGTTACCTTGATGCTT
66 TA-ATTTAGGATAAGTTCACCCTTATATGATTATTTTTCAGTCCTTTAAGGTTACATTGATGCTT
* *
572103 TTCAAGATAACGGTAGCCCTTAGGAC
130 TTCAAGAGAACAGTAGCCCTTAGGAC
*
572129 ATTTTGATAATTTCCCCTAAAATCGAATGTGATTTAGTCACCAAAATGCTTTTATGCCAAAGGTG
1 ATTTTGATAATTTCCCCTAAAATCGAATGTGATTTAGTCACCAAAATGCTTTTATGCCAAAGGTA
* * *
572194 T-ATTTATGATAGGTTCACCCTTATATGATTA-TTTTCATGTCTTTTAAGG-T-CATTGGGATGC
66 TAATTTAGGATAAGTTCACCCTTATATGATTATTTTTCA-GTCCTTTAAGGTTACATT--GATGC
* *
572255 -TTTCAAGACGAA-AGTAGTCCTTAAGGCC
128 TTTTCAAGA-GAACAGTAGCCCTT-AGGAC
* * * * * * ** *
572283 A-TTTGGTAATTT-TCCTAGAA-CTAA-GTCCGATGTAGTCACTAGGATGTTTTTATGCCAAAAG
1 ATTTTGATAATTTCCCCTAAAATCGAATGT--GATTTAGTCACCAAAATGCTTTTATGCC-AAAG
* * *
572344 TGTAT-ATTTGGGATAGGTTCACCCTTGTATGAT
63 -GTATAATTTAGGATAAGTTCACCCTTATATGAT
572377 CTTTTTTAGT
Statistics
Matches: 205, Mismatches: 34, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
150 2 0.01
151 3 0.01
152 32 0.16
153 36 0.18
154 75 0.37
156 57 0.28
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (155 bp):
ATTTTGATAATTTCCCCTAAAATCGAATGTGATTTAGTCACCAAAATGCTTTTATGCCAAAGGTA
TAATTTAGGATAAGTTCACCCTTATATGATTATTTTTCAGTCCTTTAAGGTTACATTGATGCTTT
TCAAGAGAACAGTAGCCCTTAGGAC
Found at i:573628 original size:309 final size:308
Alignment explanation
Indices: 572869--573751 Score: 853
Period size: 309 Copynumber: 2.9 Consensus size: 308
572859 AAGATATACC
* * * * * *
572869 TCAAGTCTAATGTAGTCACTGTG-ATGCTTTTATGCCAAATGTGTACATTTAGGATGGATTCACT
1 TCAAGTCTGATGTAGTCACAG-GAATGTTTTTATGCCAAAGGTGTACATTTAGGATAGATTCACC
* * *
572933 CTTCTATGATTATTTTTGAGTGC-TTTAGGCTTA-CTGAGATACTTTCATGATGAAGGTA-ATCC
65 CTTCTATGATTA-TTTTGAGT-CTTTTAGGCTTACCT-AGATACTTTTATGTTGAAGATATA-CC
* * * * *
572995 CTAACAGCATTTTGGTAATTTT-TCTAGAACCGAGTTCAACGTAGTTACTGGGATGCATTTATGC
126 CTAA-AGCATTTTAGTAATTTTCT-TAGAACCGAGTTTAATGTAGTTACTGAGATGCTTTTATGC
* * * * ** *
573059 CAAAATTGTGTATTTAGGATAGGTTCACAATTTTATGATTATTTTTTGAGTCTTTTAAATTTACT
189 CAAAAGTGTGTATTTAGGATAGGTTCACCATTTTATGATCA-TTTTTAAGTCTTTTAAGGTTATT
* * * * * * *
573124 AGGACA-TTTTCATGATGGAGGTATTCCTAAGGGCATTTTGGTAATTTGTTTAAAA
253 AGGATACTTTTCATGATGAAAGTATACCTAAGGACATTTTGATAATTTGTCTAAAA
* * * * * *
573179 TCAAGTCTGATGTAGTTACTGGAATGTTTTTATGCCAACGGTGTATACTTAGGATAGATTTACCC
1 TCAAGTCTGATGTAGTCACAGGAATGTTTTTATGCCAAAGGTGTACATTTAGGATAGATTCACCC
* * * * * *
573244 TTTTGTGATTATTTTCGAGTCTTTTAGGTTTACCGAGATACTTTTATGTCGAA-AGTATACCTTA
66 TTCTATGATTATTTT-GAGTCTTTTAGGCTTACCTAGATACTTTTATGTTGAAGA-TATACCCT-
* * *
573308 AAAGTATTTTAGTAATTTTCTTAGAACCGAGTTTGATGTAGTTACTGAGATGCTTTTATGCCATA
128 AAAGCATTTTAGTAATTTTCTTAGAACCGAGTTTAATGTAGTTACTGAGATGCTTTTATGCCAAA
* * * * * *
573373 GGTGTGCATTTAGGATGGGTTCACCTTTTTATGATCATTTTCAAGTCCTTTAAGGTTATTAGGAT
193 AGTGTGTATTTAGGATAGGTTCACCATTTTATGATCATTTTTAAGTCTTTTAAGGTTATTAGGAT
*
573438 ACTTTT-ATG-TCGAAAGTATACTCTAA-GATATTTTGATAATTT-TCCTAAAA
258 ACTTTTCATGAT-GAAAGTATAC-CTAAGGACATTTTGATAATTTGT-CTAAAA
* * * *
573488 TCAAGT-TCGATGTAGTCACCAGG-GTGTTTTTATACCAAAGGTGTGCGTTTAGGATA-AGTTCA
1 TCAAGTCT-GATGTAGTCA-CAGGAATGTTTTTATGCCAAAGGTGTACATTTAGGATAGA-TTCA
* *
573550 CCCTTCTATGATCATTGTTGAGTCTTTTAGGGTTACCTAGATACTTTTATGTTGAAGATATACCC
63 CCCTTCTATGATTATT-TTGAGTCTTTTAGGCTTACCTAGATACTTTTATGTTGAAGATATACCC
* * * * * * * *
573615 TAAAGGCATTTTAGTAATTTTCCTAGAATCGGGTCTAATATAGTCACTGAGTTGCTTTTATGTCA
127 TAAA-GCATTTTAGTAATTTTCTTAGAACCGAGTTTAATGTAGTTACTGAGATGCTTTTATGCCA
* * * *
573680 AAAGTGTATATTTAGGATAGGTTCACCCTTTTATGA-CTATTTTTTAGTCTTTTAGGGTTACTT-
191 AAAGTGTGTATTTAGGATAGGTTCACCATTTTATGATC-ATTTTTAAGTCTTTTAAGGTTA-TTA
573743 GGATACTTT
254 GGATACTTT
573752 CATATCGACG
Statistics
Matches: 468, Mismatches: 85, Indels: 41
0.79 0.14 0.07
Matches are distributed among these distances:
308 8 0.02
309 261 0.56
310 194 0.41
311 5 0.01
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.41
Consensus pattern (308 bp):
TCAAGTCTGATGTAGTCACAGGAATGTTTTTATGCCAAAGGTGTACATTTAGGATAGATTCACCC
TTCTATGATTATTTTGAGTCTTTTAGGCTTACCTAGATACTTTTATGTTGAAGATATACCCTAAA
GCATTTTAGTAATTTTCTTAGAACCGAGTTTAATGTAGTTACTGAGATGCTTTTATGCCAAAAGT
GTGTATTTAGGATAGGTTCACCATTTTATGATCATTTTTAAGTCTTTTAAGGTTATTAGGATACT
TTTCATGATGAAAGTATACCTAAGGACATTTTGATAATTTGTCTAAAA
Found at i:573734 original size:155 final size:154
Alignment explanation
Indices: 572872--573751 Score: 656
Period size: 155 Copynumber: 5.7 Consensus size: 154
572862 ATATACCTCA
* * *
572872 AGTCTAATGTAGTCACTGTGATGCTTTTATGCCAAATGTGTACATTTAGGAT-GGATTCACTCTT
1 AGTCTAATGTAGTCACTGAGATGCTTTTATGCCAAAGGTGTACATTTAGGATAGG-TTCACCCTT
* * * * *
572936 CTATGATTATTTTTGAGTGC-TTTAGGCTTACTGAGATACTTTCATGATGAAGGTA-ATCCCTAA
65 TTATGATTATTTTTGAGT-CTTTTAGGGTTACT-AGATACTTTTATGTTGAAGATATA-CCCTAA
* * *
572999 CA-GCATTTTGGTAATTTTTCTAGAACCG
127 -AGGCATTTTAGTAATTTTCCTAGAATCG
* * * * ** ** **
573027 AGT-TCAACGTAGTTACTGGGATGCATTTATGCCAAAATTGTGTATTTAGGATAGGTTCACAATT
1 AGTCT-AATGTAGTCACTGAGATGCTTTTATGCCAAAGGTGTACATTTAGGATAGGTTCACCCTT
*** * * * * *
573091 TTATGATTATTTTTTGAGTCTTTTAAATTTACTAG-GACATTTTCATGATGGAGGTAT-TCCTAA
65 TTATGATTA-TTTTTGAGTCTTTTAGGGTTACTAGATAC-TTTT-ATGTTGAAGATATACCCTAA
* * * * *
573154 GGGCATTTTGGTAATTTGT-TTAAAATCA
127 AGGCATTTTAGTAATTT-TCCTAGAATCG
* * * * * * * *
573182 AGTCTGATGTAGTTACTG-GAATGTTTTTATGCCAACGGTGTATACTTAGGATAGATTTACCCTT
1 AGTCTAATGTAGTCACTGAG-ATGCTTTTATGCCAAAGGTGTACATTTAGGATAGGTTCACCCTT
* * * * * *
573246 TTGTGATTATTTTCGAGTCTTTTAGGTTTACCGAGATACTTTTATGTCGAA-AGTATACCTTAAA
65 TTATGATTATTTTTGAGTCTTTTAGGGTTA-CTAGATACTTTTATGTTGAAGA-TATACCCTAAA
* * * *
573310 AGTATTTTAGTAATTTTCTTAGAACCG
128 GGCATTTTAGTAATTTTCCTAGAATCG
* * * * * * *
573337 AGTTTGATGTAGTTACTGAGATGCTTTTATGCCATAGGTGTGCATTTAGGATGGGTTCACCTTTT
1 AGTCTAATGTAGTCACTGAGATGCTTTTATGCCAAAGGTGTACATTTAGGATAGGTTCACCCTTT
* ** * * * * *
573402 TATGATCATTTTCAAGTCCTTTAAGGTTATTAGGATACTTTTATGTCGAA-AGTATACTCT-AAG
66 TATGATTATTTTTGAGTCTTTTAGGGTTACTA-GATACTTTTATGTTGAAGA-TATACCCTAAAG
** * *
573465 ATATTTT-GATAATTTTCCTAAAATCA
129 GCATTTTAG-TAATTTTCCTAGAATCG
* * * * * * * *
573491 AGT-TCGATGTAGTCAC-CAGGGTGTTTTTATACCAAAGGTGTGCGTTTAGGATAAGTTCACCCT
1 AGTCT-AATGTAGTCACTGA-GATGCTTTTATGCCAAAGGTGTACATTTAGGATAGGTTCACCCT
* * *
573554 TCTATGATCATTGTTGAGTCTTTTAGGGTTACCTAGATACTTTTATGTTGAAGATATACCCTAAA
64 TTTATGATTATTTTTGAGTCTTTTAGGGTTA-CTAGATACTTTTATGTTGAAGATATACCCTAAA
573619 GGCATTTTAGTAATTTTCCTAGAATCG
128 GGCATTTTAGTAATTTTCCTAGAATCG
* * * * * *
573646 GGTCTAATATAGTCACTGAGTTGCTTTTATGTCAAAAGTGTATATTTAGGATAGGTTCACCCTTT
1 AGTCTAATGTAGTCACTGAGATGCTTTTATGCCAAAGGTGTACATTTAGGATAGGTTCACCCTTT
* * *
573711 TATGACTATTTTTTAGTCTTTTAGGGTTACTTGGATACTTT
66 TATGATTATTTTTGAGTCTTTTAGGGTTAC-TAGATACTTT
573752 CATATCGACG
Statistics
Matches: 573, Mismatches: 124, Indels: 56
0.76 0.16 0.07
Matches are distributed among these distances:
153 3 0.01
154 151 0.26
155 380 0.66
156 39 0.07
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.41
Consensus pattern (154 bp):
AGTCTAATGTAGTCACTGAGATGCTTTTATGCCAAAGGTGTACATTTAGGATAGGTTCACCCTTT
TATGATTATTTTTGAGTCTTTTAGGGTTACTAGATACTTTTATGTTGAAGATATACCCTAAAGGC
ATTTTAGTAATTTTCCTAGAATCG
Found at i:580535 original size:20 final size:20
Alignment explanation
Indices: 580510--580563 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
580500 ATTTACCTAC
*
580510 ATGTATCGATACATTGA-ATA
1 ATGTATCGATACAATGATA-A
580530 ATGTATCGATACAATGATAA
1 ATGTATCGATACAATGATAA
580550 ATGTATCGATACAA
1 ATGTATCGATACAA
580564 ATTTTATGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGATAA
Found at i:580574 original size:19 final size:18
Alignment explanation
Indices: 580530--580617 Score: 78
Period size: 19 Copynumber: 4.9 Consensus size: 18
580520 ACATTGAATA
**
580530 ATGTATCGATACAATGATAA
1 ATGTATCGATACAA--ATTT
580550 ATGTATCGATACAAATTTT
1 ATGTATCGATACAAA-TTT
580569 ATGTATCGATAC--A--T
1 ATGTATCGATACAAATTT
580583 -TGTATCGATACAAATTCT
1 ATGTATCGATACAAATT-T
*
580601 ATATATCGATACAAATT
1 ATGTATCGATACAAATT
580618 GTAAAAATTT
Statistics
Matches: 58, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
13 11 0.19
14 1 0.02
15 1 0.02
17 1 0.02
18 2 0.03
19 28 0.48
20 14 0.24
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.36
Consensus pattern (18 bp):
ATGTATCGATACAAATTT
Found at i:580588 original size:13 final size:13
Alignment explanation
Indices: 580570--580594 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
580560 ACAAATTTTA
580570 TGTATCGATACAT
1 TGTATCGATACAT
580583 TGTATCGATACA
1 TGTATCGATACA
580595 AATTCTATAT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:580592 original size:32 final size:32
Alignment explanation
Indices: 580551--580613 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
580541 CAATGATAAA
* *
580551 TGTATCGATACAAATTTTATGTATCGATACAT
1 TGTATCGATACAAATTCTATATATCGATACAT
580583 TGTATCGATACAAATTCTATATATCGATACA
1 TGTATCGATACAAATTCTATATATCGATACA
580614 AATTGTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (32 bp):
TGTATCGATACAAATTCTATATATCGATACAT
Found at i:582737 original size:17 final size:17
Alignment explanation
Indices: 582715--582754 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
582705 TGGTGTAAAT
*
582715 GAAAAACAAAACAAATAG
1 GAAAAA-AAAACAAATAA
*
582733 GAAAAAAAAAGAAATAA
1 GAAAAAAAAACAAATAA
582750 GAAAA
1 GAAAA
582755 TAATGAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.78, C:0.05, G:0.12, T:0.05
Consensus pattern (17 bp):
GAAAAAAAAACAAATAA
Found at i:588666 original size:52 final size:52
Alignment explanation
Indices: 588604--588724 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
588594 GAAAATTTAT
*
588604 CTGCATGTATCGATACATTTAATAGTGTATCGATACATATGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATATGGGCAAATTTGC
* *
588656 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATATGGGCAAATTTGC
588708 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
588725 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATATGGGCAAATTTGC
Found at i:588737 original size:52 final size:51
Alignment explanation
Indices: 588604--588744 Score: 203
Period size: 52 Copynumber: 2.7 Consensus size: 51
588594 GAAAATTTAT
588604 CTGCATGTATCGATACATTTAATAGTGTATCGATACATATGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATATGGGCAAATTTGC
* * *
588656 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATATGGGCAAATTTGC
*
588708 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
588745 ATGTATCGAT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 79 0.98
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATATGGGCAAATTTGC
Found at i:588751 original size:13 final size:13
Alignment explanation
Indices: 588733--588757 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
588723 CAAAGATCAG
588733 TGTATCGATACAA
1 TGTATCGATACAA
588746 TGTATCGATACA
1 TGTATCGATACA
588758 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:588839 original size:13 final size:13
Alignment explanation
Indices: 588821--588845 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
588811 ACAAAAAATA
588821 TGTATCGATACAT
1 TGTATCGATACAT
588834 TGTATCGATACA
1 TGTATCGATACA
588846 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:591917 original size:11 final size:11
Alignment explanation
Indices: 591901--591927 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
591891 TTTGATAAAA
591901 AAAAAAAAATG
1 AAAAAAAAATG
591912 AAAAAAAAATG
1 AAAAAAAAATG
591923 AAAAA
1 AAAAA
591928 GGTGAGCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAAAAAAATG
Found at i:593686 original size:28 final size:28
Alignment explanation
Indices: 593653--593846 Score: 100
Period size: 29 Copynumber: 6.8 Consensus size: 28
593643 TAAGTTCTTA
**
593653 AAACTTTTTAAAATTATGCTTTAACCTT
1 AAACTTTTTAAAATTACACTTTAACCTT
* * *
593681 AAACTTTCTAAAATTACACTTTGACTTT
1 AAACTTTTTAAAATTACACTTTAACCTT
* * * * *
593709 AAACTTTTCAAAATCACATTTTGACCCTA
1 AAACTTTTTAAAATTACACTTT-AACCTT
* * * * **
593738 AAACTTTTCAAAATCACATTTTGAGCCCA
1 AAACTTTTTAAAATTACACTTT-AACCTT
* *** *
593767 AAACTTTTCAAAATTACACATTGGTCCCT
1 AAACTTTTTAAAATTACAC-TTTAACCTT
* * * * *
593796 AAACTTTTCAAAACTACATTTTGATCCAT
1 AAACTTTTTAAAATTACACTTT-AACCTT
* *
593825 AAACTTTTCAAAAGTACACTTT
1 AAACTTTTTAAAATTACACTTT
593847 GAGCCCAAAA
Statistics
Matches: 135, Mismatches: 28, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
28 43 0.32
29 90 0.67
30 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.38
Consensus pattern (28 bp):
AAACTTTTTAAAATTACACTTTAACCTT
Found at i:593742 original size:29 final size:28
Alignment explanation
Indices: 593709--593856 Score: 158
Period size: 29 Copynumber: 5.1 Consensus size: 28
593699 CTTTGACTTT
593709 AAACTTTTCAAAATCACATTTTGACCCTA
1 AAACTTTTCAAAATCACATTTTGACCC-A
593738 AAACTTTTCAAAATCACATTTTGAGCCCA
1 AAACTTTTCAAAATCACATTTTGA-CCCA
* * *
593767 AAACTTTTCAAAATTACACA-TTGGTCCCT
1 AAACTTTTCAAAA-T-CACATTTTGACCCA
*
593796 AAACTTTTCAAAA-CTACATTTTGATCCA
1 AAACTTTTCAAAATC-ACATTTTGACCCA
*
593824 TAAACTTTTCAAAAGT-ACACTTTGAGCCCA
1 -AAACTTTTCAAAA-TCACATTTTGA-CCCA
593854 AAA
1 AAA
593857 TAGCCTAAAA
Statistics
Matches: 101, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
26 1 0.01
27 3 0.03
28 5 0.05
29 78 0.77
30 10 0.10
31 4 0.04
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (28 bp):
AAACTTTTCAAAATCACATTTTGACCCA
Found at i:593800 original size:58 final size:59
Alignment explanation
Indices: 593708--593847 Score: 175
Period size: 58 Copynumber: 2.4 Consensus size: 59
593698 ACTTTGACTT
*
593708 TAAACTTTTCAAAAT-CACATTTTGACCCTAAAACTTTTCAAAA-TCACATTTTGAGCCCA
1 TAAACTTTTCAAAATACACATTTGGACCCTAAAACTTTTCAAAACT-ACATTTTGA-CCCA
* *
593767 -AAACTTTTCAAAATTACACA-TTGGTCCCT-AAACTTTTCAAAACTACATTTTGATCCA
1 TAAACTTTTCAAAA-TACACATTTGGACCCTAAAACTTTTCAAAACTACATTTTGACCCA
593824 TAAACTTTTCAAAAGTACAC-TTTG
1 TAAACTTTTCAAAA-TACACATTTG
593848 AGCCCAAAAT
Statistics
Matches: 72, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
57 3 0.04
58 56 0.78
59 9 0.12
60 4 0.06
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (59 bp):
TAAACTTTTCAAAATACACATTTGGACCCTAAAACTTTTCAAAACTACATTTTGACCCA
Found at i:595404 original size:53 final size:49
Alignment explanation
Indices: 595339--595458 Score: 141
Period size: 53 Copynumber: 2.3 Consensus size: 49
595329 TCGAAGATAG
*
595339 TGGGGTTGGAGTATCCTTAAAGATGAAAATGTTGATATTTTTAGAAGTAAAAA
1 TGGGGTTAGAGTATCC--AAAGATGAAAAT-TTGATATTTTTAGAAGT-AAAA
* *
595392 TGGGGTTAGAGTATGTCCGAAGATGAAAATTTGATATTTTTAGGAGTAAAA
1 TGGGGTTAGAGTA--TCCAAAGATGAAAATTTGATATTTTTAGAAGTAAAA
* *
595443 TCGTGTTAGAGTATCC
1 TGGGGTTAGAGTATCC
595459 CTTCGGAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
49 3 0.05
51 15 0.25
52 16 0.27
53 23 0.38
55 3 0.05
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (49 bp):
TGGGGTTAGAGTATCCAAAGATGAAAATTTGATATTTTTAGAAGTAAAA
Found at i:595557 original size:81 final size:81
Alignment explanation
Indices: 595394--595650 Score: 313
Period size: 81 Copynumber: 3.2 Consensus size: 81
595384 AGTAAAAATG
** * * * *
595394 GGGTTAGAGTATGTCCGAAGAT-GAAAATTTGATATTTTTAGGAGT-AAAATCGTGTTAGAGTAT
1 GGGTTAGAGTATCCCCGAAGATGGAAATTTTGATATTTTTAGGAGTAAAAATGGGGTTGGAGTAT
* * *
595457 CCCTTCGGAAATGGCA
66 CCCATCGAAAATGGTA
* *
595473 GGGTTGGAGTATCCCCGAAGATGGAAATTTTGGTATTTTTAGGAGTAAAAATGGGGTTGGAGTAT
1 GGGTTAGAGTATCCCCGAAGATGGAAATTTTGATATTTTTAGGAGTAAAAATGGGGTTGGAGTAT
* *
595538 CCCGTCAAAAATGGTA
66 CCCATCGAAAATGGTA
* * *
595554 GGGTTAGAGTAT-CCCTATAGATGGAAATTTTGATATTTTTAGAAGTAAAAATGAGGTTGGAGTA
1 GGGTTAGAGTATCCCCGA-AGATGGAAATTTTGATATTTTTAGGAGTAAAAATGGGGTTGGAGTA
* *
595618 TCCCATCGAAAATGATG
65 TCCCATCGAAAATGGTA
*
595635 GGGTTGGAGTATCCCC
1 GGGTTAGAGTATCCCC
595651 TTTTAATGTT
Statistics
Matches: 152, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 19 0.12
80 25 0.16
81 105 0.69
82 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.31
Consensus pattern (81 bp):
GGGTTAGAGTATCCCCGAAGATGGAAATTTTGATATTTTTAGGAGTAAAAATGGGGTTGGAGTAT
CCCATCGAAAATGGTA
Found at i:598067 original size:32 final size:32
Alignment explanation
Indices: 598026--598106 Score: 153
Period size: 32 Copynumber: 2.5 Consensus size: 32
598016 TACAATGAAT
598026 AATGTATCGATACATTTGGGTTAAAAACCCAG
1 AATGTATCGATACATTTGGGTTAAAAACCCAG
*
598058 AATGTATCGATACATTTGGTTTAAAAACCCAG
1 AATGTATCGATACATTTGGGTTAAAAACCCAG
598090 AATGTATCGATACATTT
1 AATGTATCGATACATTT
598107 TCCTTTCAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (32 bp):
AATGTATCGATACATTTGGGTTAAAAACCCAG
Found at i:598760 original size:29 final size:29
Alignment explanation
Indices: 598705--598760 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
598695 ATCATGTAAC
* *
598705 AAATTTACAAAAATTATGAATTAGCCCTT
1 AAATTTACAAAAATTATCAAATAGCCCTT
* * *
598734 AAATTTTCTAAAATTATCAAATGGCCC
1 AAATTTACAAAAATTATCAAATAGCCC
598761 CAAAATGAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (29 bp):
AAATTTACAAAAATTATCAAATAGCCCTT
Found at i:599193 original size:153 final size:154
Alignment explanation
Indices: 598923--599232 Score: 369
Period size: 153 Copynumber: 2.0 Consensus size: 154
598913 TGTGAAAATT
* * * * *
598923 ACATTTTAGACCCCCTAAGTTTCAATCAATCTAAGAACACTTCTATATAAGCTTAAAAAAATTTA
1 ACATTTTAGACCCCATAAGTTTCAACCAACCTAAGAACACTCCTAAATAAGCTTAAAAAAATTTA
* *
598988 AAAAAATTATTAAACAGTCCCTACAAGTGTTGCCATGAAACAAATCAATCCCTAAATGGCCT-AA
66 AAAAAATTATTAAACAGTCCCTACAAATGTTGCCATGAAACAAATCAATCCCTAAAAGGCCTAAA
599052 AATTAAAGGAAAAATTGCATTTTAG
131 AATT-AAGGAAAAATTGCATTTTAG
* * * * *
599077 ACATTTTAGACCCCATAGGTTTTAACCAACCTAAGTACACTCCTAAATGAGCTT-AAAAAATTTG
1 ACATTTTAGACCCCATAAGTTTCAACCAACCTAAGAACACTCCTAAATAAGCTTAAAAAAATTTA
* * * * *
599141 AAAAAATTATTATATAGTCCCTATAAAT-TCTTCCATG-AACTAAAAT-AGTCCCTAAAAGGCCT
66 AAAAAATTATTAAACAGTCCCTACAAATGT-TGCCATGAAAC--AAATCAATCCCTAAAAGGCCT
* * *
599203 AAAAATTAAGGAAAATTTGTATTTTGG
128 AAAAATTAAGGAAAAATTGCATTTTAG
599230 ACA
1 ACA
599233 CTACCTTTTT
Statistics
Matches: 132, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
152 4 0.03
153 73 0.55
154 55 0.42
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (154 bp):
ACATTTTAGACCCCATAAGTTTCAACCAACCTAAGAACACTCCTAAATAAGCTTAAAAAAATTTA
AAAAAATTATTAAACAGTCCCTACAAATGTTGCCATGAAACAAATCAATCCCTAAAAGGCCTAAA
AATTAAGGAAAAATTGCATTTTAG
Found at i:599981 original size:21 final size:21
Alignment explanation
Indices: 599932--599990 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
599922 ATTTTGGAAA
599932 GAAATTGTATCGATACATAAGT
1 GAAA-TGTATCGATACATAAGT
***
599954 G-AATGTATCGATACATGCTT
1 GAAATGTATCGATACATAAGT
599974 GAAATGTATCGATACAT
1 GAAATGTATCGATACAT
599991 TTCTCATTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 15 0.45
21 17 0.52
22 1 0.03
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (21 bp):
GAAATGTATCGATACATAAGT
Found at i:600002 original size:41 final size:41
Alignment explanation
Indices: 599957--600103 Score: 125
Period size: 41 Copynumber: 3.3 Consensus size: 41
599947 CATAAGTGAA
599957 TGTATCGATACATGCTTGAAATGTATCGATACATTTCTCAT
1 TGTATCGATACATGCTTGAAATGTATCGATACATTTCTCAT
* * * *
599998 TGTATCGATACATTTTGGGTTTTTGAACCAAATGTATCAATATA-TTCTTCAA
1 TGTATCGATACA---T--G--CTTG----AAATGTATCGATACATTTC-TCAT
*
600050 TGTATCGATACATGCTTGCAATGTATCGATACATTTCTCAT
1 TGTATCGATACATGCTTGAAATGTATCGATACATTTCTCAT
*
600091 TGTATTGATACAT
1 TGTATCGATACAT
600104 TCTGGGTTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 26
0.70 0.08 0.22
Matches are distributed among these distances:
41 39 0.47
42 3 0.04
44 1 0.01
45 3 0.04
46 1 0.01
47 1 0.01
48 3 0.04
49 1 0.01
51 3 0.04
52 28 0.34
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (41 bp):
TGTATCGATACATGCTTGAAATGTATCGATACATTTCTCAT
Found at i:600073 original size:21 final size:20
Alignment explanation
Indices: 600028--600083 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
600018 TTTTGAACCA
* * *
600028 AATGTATCAATATATTCTTC
1 AATGTATCGATACATGCTTC
600048 AATGTATCGATACATGCTTGC
1 AATGTATCGATACATGCTT-C
600069 AATGTATCGATACAT
1 AATGTATCGATACAT
600084 TTCTCATTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACATGCTTC
Found at i:600164 original size:93 final size:93
Alignment explanation
Indices: 599955--600157 Score: 336
Period size: 93 Copynumber: 2.2 Consensus size: 93
599945 TACATAAGTG
* *
599955 AATGTATCGATACATGCTTGAAATGTATCGATACATTTCTCATTGTATCGATACATTTTGGGTTT
1 AATGTATCGATACATGCTTGCAATGTATCGATACATTTCTCATTGTATCGATACATTCTGGGTTT
*
600020 TTGAACCAAATGTATCAATATATTCTTC
66 TTGAACCAAATGTATCAATACATTCTTC
*
600048 AATGTATCGATACATGCTTGCAATGTATCGATACATTTCTCATTGTATTGATACATTCTGGGTTT
1 AATGTATCGATACATGCTTGCAATGTATCGATACATTTCTCATTGTATCGATACATTCTGGGTTT
*
600113 TT-AACCTAAATGTATTAATACATTCTTC
66 TTGAACC-AAATGTATCAATACATTCTTC
*
600141 AATGTATTGATACATGC
1 AATGTATCGATACATGC
600158 AGGCAATTTT
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 4 0.04
93 99 0.96
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (93 bp):
AATGTATCGATACATGCTTGCAATGTATCGATACATTTCTCATTGTATCGATACATTCTGGGTTT
TTGAACCAAATGTATCAATACATTCTTC
Found at i:602688 original size:79 final size:78
Alignment explanation
Indices: 602596--602832 Score: 312
Period size: 79 Copynumber: 3.0 Consensus size: 78
602586 CATCTCTAGA
* *
602596 GGATACTCTAACCCCATTTTTACTTTCAAAACATTAAATTTCTCATCTTGGGGATACTCTAACCC
1 GGATACTCCAACCCCATTTTTACTTTCAAAACATTAAATTTCTCATCTTAGGGATACTCTAACCC
* *
602661 TACCATTTATGGGG
66 CATCATTT-TGGGG
* * **
602675 GGATACTCCAACCCCATTTTTACTTCCAAAACATTGAATTTCTCATCACAGGGATACTCTAACCC
1 GGATACTCCAACCCCATTTTTACTTTCAAAACATTAAATTTCTCATCTTAGGGATACTCTAACCC
* *
602740 CATCATTTTCGAGA
66 CATCATTTT-GGGG
** * * *
602754 GGATACTCCAACCTTATTTTAACTTTCAAAACATTAAATTTTTCATCTTAGGGATACTTTAACCC
1 GGATACTCCAACCCCATTTTTACTTTCAAAACATTAAATTTCTCATCTTAGGGATACTCTAACCC
*
602819 CATCATTTTTGGG
66 CATCATTTTGGGG
602832 G
1 G
602833 TTAGAGTAAG
Statistics
Matches: 135, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
78 3 0.02
79 132 0.98
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (78 bp):
GGATACTCCAACCCCATTTTTACTTTCAAAACATTAAATTTCTCATCTTAGGGATACTCTAACCC
CATCATTTTGGGG
Found at i:602973 original size:81 final size:78
Alignment explanation
Indices: 602839--603122 Score: 229
Period size: 79 Copynumber: 3.6 Consensus size: 78
602829 GGGGTTAGAG
* * * * *
602839 TAAGGGATACTCCAACCCCA-TCATTTTCGAAGGGATATTCCAACCCTTTTTTTACTTCTGAAAC
1 TAAGGGATACTCCAACCCCACT-A-TTTCAAAGGAATACTCCAACCCTGTTTTTACTTCTAAAAC
* *
602903 A-TTGAATTTCTTCATC
64 ACCT-AAATT-TTCATC
* * *
602919 TCTAGGGATACTCCAACCCCACTATTTCCAAAGGTATACTCCAACCCTGTTTTTACTTTTAAAAC
1 T-AAGGGATACTCCAACCCCACTATTT-CAAAGGAATACTCCAACCCTGTTTTTACTTCTAAAAC
602984 ACCTAAATTTTCATC
64 ACCTAAATTTTCATC
* ** *
602999 TAAGGGGATACTCCAACCCCTCT-TTTTTAAGGAAATACTCCAA-CCTCGTTTTTACTTCTAGAA
1 TAA-GGGATACTCCAACCCCACTATTTCAAAGG-AATACTCCAACCCT-GTTTTTACTTCTAAAA
*
603062 TACC-AAATTTTACATC
63 CACCTAAATTTT-CATC
** * * **
603078 TTTGGGGATAC-CCAACCCCACCATCTCTGAGGAGATACTCCAACC
1 -TAAGGGATACTCCAACCCCACTATTTCAAAGGA-ATACTCCAACC
603123 TCGATTAGTA
Statistics
Matches: 168, Mismatches: 24, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
78 24 0.14
79 56 0.33
80 31 0.18
81 55 0.33
82 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.32
Consensus pattern (78 bp):
TAAGGGATACTCCAACCCCACTATTTCAAAGGAATACTCCAACCCTGTTTTTACTTCTAAAACAC
CTAAATTTTCATC
Found at i:603078 original size:79 final size:80
Alignment explanation
Indices: 602842--603098 Score: 233
Period size: 81 Copynumber: 3.2 Consensus size: 80
602832 GTTAGAGTAA
* * * * * * *
602842 GGGATACTCCAACCCCA-TCATTTTCGAAGGGATATTCCAACCCTTTTTTTACTTCTGAAACA-T
1 GGGATACTCCAACCCCACT-ATTTCCAAAGGAATACTCCAACCCTGTTTTTACTTCTAAAACACC
* *
602905 TGAATTTCTTCATCTCTA-
65 T-AAATT-TTCATCT-AAG
* *
602923 GGGATACTCCAACCCCACTATTTCCAAAGGTATACTCCAACCCTGTTTTTACTTTTAAAACACCT
1 GGGATACTCCAACCCCACTATTTCCAAAGGAATACTCCAACCCTGTTTTTACTTCTAAAACACCT
602988 AAATTTTCATCTAAG
66 AAATTTTCATCTAAG
* ** * *
603003 GGGATACTCCAACCCCTCT-TTT-TTAAGGAAATACTCCAA-CCTCGTTTTTACTTCTAGAATAC
1 GGGATACTCCAACCCCACTATTTCCAAAGG-AATACTCCAACCCT-GTTTTTACTTCTAAAACAC
**
603065 C-AAATTTTACATCTTTG
64 CTAAATTTT-CATCTAAG
603082 GGGATAC-CCAACCCCAC
1 GGGATACTCCAACCCCAC
603099 CATCTCTGAG
Statistics
Matches: 150, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
78 23 0.15
79 43 0.29
80 25 0.17
81 57 0.38
82 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (80 bp):
GGGATACTCCAACCCCACTATTTCCAAAGGAATACTCCAACCCTGTTTTTACTTCTAAAACACCT
AAATTTTCATCTAAG
Found at i:613316 original size:366 final size:366
Alignment explanation
Indices: 612644--613378 Score: 1445
Period size: 366 Copynumber: 2.0 Consensus size: 366
612634 GGGCTATAAT
612644 CAAGTCAAAATGGCAATTGAAAACATGGAAAAAACCACCTTTGTGACCATGTGGGTCACCTTCTG
1 CAAGTCAAAATGGCAATTGAAAACATGGAAAAAACCACCTTTGTGACCATGTGGGTCACCTTCTG
612709 TTATAAGGTGATGCCTTTCAGGCTAAAAAATGCCAAGGTAACCTATCAAGGGGCTATGGTAACGT
66 TTATAAGGTGATGCCTTTCAGGCTAAAAAATGCCAAGGTAACCTATCAAGGGGCTATGGTAACGT
612774 TGTTACATGACCTCATGCACAAGGAAATAGAGGTATACATGGATGACATGGTTGCCAAATCACTA
131 TGTTACATGACCTCATGCACAAGGAAATAGAGGTATACATGGATGACATGGTTGCCAAATCACTA
612839 AAGGAGAGTGAACATGTTGTCGATTTGGAAAAACTCTTTAAACGGCTGCGCAAGTATCAACTAAA
196 AAGGAGAGTGAACATGTTGTCGATTTGGAAAAACTCTTTAAACGGCTGCGCAAGTATCAACTAAA
612904 GTTGAATCCAACCAAATGCACATTTGGTGTCACTTCAGGCAAATTATTGGGCTTCATTGTAAGTG
261 GTTGAATCCAACCAAATGCACATTTGGTGTCACTTCAGGCAAATTATTGGGCTTCATTGTAAGTG
612969 AGAAAGGAATAGAGGTCAATCTTGACAAGGTCAAGGCCATC
326 AGAAAGGAATAGAGGTCAATCTTGACAAGGTCAAGGCCATC
*
613010 CAAGTCAAAATGGCAATTGAAGACATGGAAAAAACCACCTTTGTGACCATGTGGGTCACCTTCTG
1 CAAGTCAAAATGGCAATTGAAAACATGGAAAAAACCACCTTTGTGACCATGTGGGTCACCTTCTG
613075 TTATAAGGTGATGCCTTTCAGGCTAAAAAATGCCAAGGTAACCTATCAAGGGGCTATGGTAACGT
66 TTATAAGGTGATGCCTTTCAGGCTAAAAAATGCCAAGGTAACCTATCAAGGGGCTATGGTAACGT
613140 TGTTACATGACCTCATGCACAAGGAAATAGAGGTATACATGGATGACATGGTTGCCAAATCACTA
131 TGTTACATGACCTCATGCACAAGGAAATAGAGGTATACATGGATGACATGGTTGCCAAATCACTA
613205 AAGGAGAGTGAACATGTTGTCGATTTGCG-AAAACTCTTTAAACGGCTGCGCAAGTATCAACTAA
196 AAGGAGAGTGAACATGTTGTCGATTTG-GAAAAACTCTTTAAACGGCTGCGCAAGTATCAACTAA
613269 AGTTGAATCCAACCAAATGCACATTTGGTGTCACTTCAGGCAAATTATTGGGCTTCATTGTAAGT
260 AGTTGAATCCAACCAAATGCACATTTGGTGTCACTTCAGGCAAATTATTGGGCTTCATTGTAAGT
613334 GAGAAAGGAATAGAGGTCAATCTTGACAAGGTCAAGGCCATC
325 GAGAAAGGAATAGAGGTCAATCTTGACAAGGTCAAGGCCATC
613376 CAA
1 CAA
613379 AGCTTGCCGC
Statistics
Matches: 367, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
366 366 1.00
367 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (366 bp):
CAAGTCAAAATGGCAATTGAAAACATGGAAAAAACCACCTTTGTGACCATGTGGGTCACCTTCTG
TTATAAGGTGATGCCTTTCAGGCTAAAAAATGCCAAGGTAACCTATCAAGGGGCTATGGTAACGT
TGTTACATGACCTCATGCACAAGGAAATAGAGGTATACATGGATGACATGGTTGCCAAATCACTA
AAGGAGAGTGAACATGTTGTCGATTTGGAAAAACTCTTTAAACGGCTGCGCAAGTATCAACTAAA
GTTGAATCCAACCAAATGCACATTTGGTGTCACTTCAGGCAAATTATTGGGCTTCATTGTAAGTG
AGAAAGGAATAGAGGTCAATCTTGACAAGGTCAAGGCCATC
Found at i:624370 original size:21 final size:21
Alignment explanation
Indices: 624346--624388 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
624336 TATTAAAGGG
*
624346 GAGAAAGAAAAATTTTATTAA
1 GAGAAAGAAAAATTTTACTAA
* *
624367 GAGAGAGATAAATTTTACTAA
1 GAGAAAGAAAAATTTTACTAA
624388 G
1 G
624389 GGGGAGTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.19, T:0.28
Consensus pattern (21 bp):
GAGAAAGAAAAATTTTACTAA
Found at i:624374 original size:25 final size:25
Alignment explanation
Indices: 624326--624374 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
624316 CATTAGGGGG
*
624326 AGAAAAATCTTATTAAAGGGGAGAA
1 AGAAAAATCTTATTAAAGGAGAGAA
*
624351 AGAAAAATTTTATT-AAGAGAGAGA
1 AGAAAAATCTTATTAAAG-GAGAGA
624375 TAAATTTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.53, C:0.02, G:0.22, T:0.22
Consensus pattern (25 bp):
AGAAAAATCTTATTAAAGGAGAGAA
Found at i:625051 original size:13 final size:13
Alignment explanation
Indices: 625033--625059 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
625023 ATATATTGCT
625033 TTGTATCGATACA
1 TTGTATCGATACA
625046 TTGTATCGATACA
1 TTGTATCGATACA
625059 T
1 T
625060 GTTCTTGATA
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:625053 original size:33 final size:32
Alignment explanation
Indices: 625016--625077 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
625006 CACCCAGATA
*
625016 TATCGATATATATTGCTTTG-TATCGATACATTG
1 TATCGATACATATT-C-TTGATATCGATACATTG
*
625049 TATCGATACATGTTCTTGATATCGATACA
1 TATCGATACATATTCTTGATATCGATACA
625078 CACTGAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 3 0.12
32 11 0.42
33 12 0.46
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (32 bp):
TATCGATACATATTCTTGATATCGATACATTG
Found at i:625168 original size:33 final size:33
Alignment explanation
Indices: 625126--625188 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
625116 AACTCACTCA
*
625126 GTATCGATACATTATATCGATATATGGAGAAAT
1 GTATCGATACATTATATCGATACATGGAGAAAT
*
625159 GTATCGATACATTGTATCGATACATGGAGA
1 GTATCGATACATTATATCGATACATGGAGA
625189 GCCCAACAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (33 bp):
GTATCGATACATTATATCGATACATGGAGAAAT
Found at i:625176 original size:13 final size:13
Alignment explanation
Indices: 625158--625183 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
625148 TATGGAGAAA
625158 TGTATCGATACAT
1 TGTATCGATACAT
625171 TGTATCGATACAT
1 TGTATCGATACAT
625184 GGAGAGCCCA
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:626600 original size:68 final size:67
Alignment explanation
Indices: 626489--626632 Score: 166
Period size: 70 Copynumber: 2.1 Consensus size: 67
626479 TTAGAATTAA
** *
626489 ACCTTTTATTTTTAGTCCTCAAGAGCAAGATGCCTTTTCCTTTT-AAAGCCCACATAAGCTAATG
1 ACCTTTTATTTTTAGTCCTCAAGAGCAAGATAACTTTTCCTTTTCAAAGCCCACACAAGCTAATG
626553 GC
66 GC
* * * *
626555 ACCTTTTACCTTTTTAGTCCTCAAAGAGTACGA-AACTTTTTCTTTTCCAAAGCCCGCACAAGCT
1 ACCTTTTA--TTTTTAGTCCTC-AAGAGCAAGATAACTTTTCCTTTT-CAAAGCCCACACAAGCT
*
626619 AGTGGC
62 AATGGC
626625 ACCTTTTA
1 ACCTTTTA
626633 GACGTTTTTC
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
66 8 0.12
68 22 0.34
69 8 0.12
70 27 0.42
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (67 bp):
ACCTTTTATTTTTAGTCCTCAAGAGCAAGATAACTTTTCCTTTTCAAAGCCCACACAAGCTAATG
GC
Found at i:626743 original size:124 final size:123
Alignment explanation
Indices: 626523--626750 Score: 305
Period size: 124 Copynumber: 1.8 Consensus size: 123
626513 GCAAGATGCC
* *
626523 TTTTCCTTTTAAAGCCCACATAAGCTAATGGCACCTTTTACCTTTTTAGTCCTCAAAGAGTACGA
1 TTTTCCTTTTAAAGCCCACACAAGCTAATGGCACCTTTTACCTTTTTAGTCCTCAAAGAGCACGA
* * *
626588 AACTTTTTCTTTTCCAAAGCCCGCACAAGCTAGTGGCACCTTTTAGACGTTTTTCTTTT
66 AACCTTTTCTTTT-CAAAGCCCACACAAGCTAGTAGCACCTTTTAGACGTTTTTCTTTT
* ** * * *
626647 TTTTCTTTTTAAAGCCCACACAAGCTGGTTGCACCTTTTACCTTTTATAGTCCTTAAAGAGCAGG
1 TTTTCCTTTTAAAGCCCACACAAGCTAATGGCACCTTTTACCTTTT-TAGTCCTCAAAGAGCACG
**
626712 ACGTCCTTTTCTTTT-AAAGCCCACACAAGCTAGTAGCAC
65 A-AACCTTTTCTTTTCAAAGCCCACACAAGCTAGTAGCAC
626751 AACCTTTTAT
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
124 63 0.71
125 16 0.18
126 10 0.11
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (123 bp):
TTTTCCTTTTAAAGCCCACACAAGCTAATGGCACCTTTTACCTTTTTAGTCCTCAAAGAGCACGA
AACCTTTTCTTTTCAAAGCCCACACAAGCTAGTAGCACCTTTTAGACGTTTTTCTTTT
Found at i:626794 original size:72 final size:71
Alignment explanation
Indices: 626646--626965 Score: 289
Period size: 72 Copynumber: 4.5 Consensus size: 71
626636 GTTTTTCTTT
*
626646 TTTTTCTTTTTAAAGCCCACACAAGCTGGTTG--CACCTTTTA-CCTTTTATAGTCCTTAAAGAG
1 TTTTTC-TTTTAAAGCCCACACAAGCTGGTGGCACACCTTTTATCCTTTT-TAGTCCTTAAAGAG
*
626708 CAGGACGTC
64 CAGGAC-AC
* * * * *
626717 CTTTTCTTTTAAAGCCCACACAAGCTAGTAGCACAACCTTTTATCC-TTTTAGCCCTTAAAGAGT
1 TTTTTCTTTTAAAGCCCACACAAGCTGGTGGCAC-ACCTTTTATCCTTTTTAGTCCTTAAAGAGC
626781 AGGACAC
65 AGGACAC
* * *
626788 ATTTTTCTTTTAATGCTCACACAAGCTGGTGGCAC-CCATTTTATCCTTTTTAGTCCTCAAAGAG
1 -TTTTTCTTTTAAAGCCCACACAAGCTGGTGGCACACC-TTTTATCCTTTTTAGTCCTTAAAGAG
*
626852 CAAGATGC-C
64 CAGGA--CAC
* * ** *
626861 TTTTTCTTTTAAAACCCACACAAGCTGGTGGCACA--TTTTATCC-TTTCAGTTATCAAAGAGCA
1 TTTTTCTTTTAAAGCCCACACAAGCTGGTGGCACACCTTTTATCCTTTTTAGTCCTTAAAGAGCA
** *
626923 AAACGCC
66 GGAC-AC
*
626930 TTTTTTTCTTTTTAAAGCCCACATAAGCTGGTGGCA
1 --TTTTTC-TTTTAAAGCCCACACAAGCTGGTGGCA
626966 TGTTTTATCC
Statistics
Matches: 210, Mismatches: 24, Indels: 29
0.80 0.09 0.11
Matches are distributed among these distances:
67 1 0.00
69 19 0.09
70 33 0.16
71 20 0.10
72 122 0.58
73 12 0.06
74 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (71 bp):
TTTTTCTTTTAAAGCCCACACAAGCTGGTGGCACACCTTTTATCCTTTTTAGTCCTTAAAGAGCA
GGACAC
Found at i:626852 original size:144 final size:140
Alignment explanation
Indices: 626646--626965 Score: 358
Period size: 144 Copynumber: 2.2 Consensus size: 140
626636 GTTTTTCTTT
* * *
626646 TTTTTCTTTTTAAAGCCCACACAAGCTGGTTGCACCTTTTACCTTTTATAGTCCTTAAAGAGCAG
1 TTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTACCTTTTATAGTCCTCAAAGAGCAA
*
626711 GACGTCC-TTTTCTTTTAAAGCCCACACAAGCTAGTAGCACAACCTTTTATCCTTTTAGCCCTTA
66 GACG-CCTTTTTCTTTTAAAACCCACACAAGCTAGTAGCAC-A--TTTTATCCTTTTAGCCCTTA
626775 AAGAGTAGGACACA
127 AAGAGTAGGACACA
* *
626789 TTTTTC-TTTTAATGCTCACACAAGCTGGTGGCACCCATTTTATCCTTTT-TAGTCCTCAAAGAG
1 TTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCA-CC-TTTTA-CCTTTTATAGTCCTCAAAGAG
* * * * *** *
626852 CAAGATGCCTTTTTCTTTTAAAACCCACACAAGCTGGTGGCACATTTTATCCTTTCAGTTATCAA
63 CAAGACGCCTTTTTCTTTTAAAACCCACACAAGCTAGTAGCACATTTTATCCTTTTAGCCCTTAA
* ** * *
626917 AGAGCAAAACGCCTT
128 AGAGTAGGAC-AC-A
*
626932 TTTTTCTTTTTAAAGCCCACATAAGCTGGTGGCA
1 TTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCA
626966 TGTTTTATCC
Statistics
Matches: 148, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
141 23 0.16
142 25 0.17
143 17 0.11
144 77 0.52
145 6 0.04
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (140 bp):
TTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTACCTTTTATAGTCCTCAAAGAGCAA
GACGCCTTTTTCTTTTAAAACCCACACAAGCTAGTAGCACATTTTATCCTTTTAGCCCTTAAAGA
GTAGGACACA
Found at i:627506 original size:13 final size:13
Alignment explanation
Indices: 627488--627512 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
627478 CATTATTCAA
627488 TGTATCGATACAT
1 TGTATCGATACAT
627501 TGTATCGATACA
1 TGTATCGATACA
627513 ATGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:641749 original size:37 final size:37
Alignment explanation
Indices: 641708--641790 Score: 139
Period size: 37 Copynumber: 2.2 Consensus size: 37
641698 CCACAATCAT
641708 GCATTTGTAACATTCATAACATTTCATTTTGCATGAC
1 GCATTTGTAACATTCATAACATTTCATTTTGCATGAC
* * *
641745 GCATTTATGACATTCATAACATTTCATTTTGCATGAT
1 GCATTTGTAACATTCATAACATTTCATTTTGCATGAC
641782 GCATTTGTA
1 GCATTTGTA
641791 CTTCATCTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (37 bp):
GCATTTGTAACATTCATAACATTTCATTTTGCATGAC
Found at i:642180 original size:28 final size:28
Alignment explanation
Indices: 642140--642223 Score: 107
Period size: 28 Copynumber: 3.0 Consensus size: 28
642130 CCTCACCTTC
* *
642140 CAAAGTCCACAAGTCAGTAGCATCTTTT
1 CAAAGCCCACAAGTCAGTGGCATCTTTT
* * *
642168 CAAAGCCCACAAGTCAATGGCAAC-CTT
1 CAAAGCCCACAAGTCAGTGGCATCTTTT
642195 CAAAAGCCCACAAGTCAGTGGCATCTTTT
1 C-AAAGCCCACAAGTCAGTGGCATCTTTT
642224 TCTTTTCAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 3 0.07
28 41 0.89
29 2 0.04
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (28 bp):
CAAAGCCCACAAGTCAGTGGCATCTTTT
Found at i:642283 original size:33 final size:33
Alignment explanation
Indices: 642202--642357 Score: 120
Period size: 34 Copynumber: 4.6 Consensus size: 33
642192 CTTCAAAAGC
* * *
642202 CCACAAGTCAGTGGCATCTTTTT-CTTTTCAAAGT
1 CCACAACTCTGTGGCACCTTTTTCCTTTT--AAGT
642236 CCACAACTCTGTGGCACCTTTTTCCTTTTAAGT
1 CCACAACTCTGTGGCACCTTTTTCCTTTTAAGT
** * *
642269 CCATGACT-TCGTGGCACCCTTTTCCCTTTTAAGC
1 CCACAACTCT-GTGGCA-CCTTTTTCCTTTTAAGT
* ** *
642303 CCACACCTCCATGGCATCCTTTTTTCC-TATAAGT
1 CCACAACTCTGTGGCA-CC-TTTTTCCTTTTAAGT
* *
642337 CCACAACGCTGTGGCATCTTT
1 CCACAACTCTGTGGCACCTTT
642358 AAGTCCAATA
Statistics
Matches: 96, Mismatches: 21, Indels: 12
0.74 0.16 0.09
Matches are distributed among these distances:
32 4 0.04
33 17 0.18
34 64 0.67
35 11 0.11
ACGTcount: A:0.19, C:0.31, G:0.13, T:0.36
Consensus pattern (33 bp):
CCACAACTCTGTGGCACCTTTTTCCTTTTAAGT
Found at i:642550 original size:52 final size:49
Alignment explanation
Indices: 642474--642781 Score: 278
Period size: 52 Copynumber: 6.1 Consensus size: 49
642464 TTGAATCAGC
* * *
642474 CACCTTCATCTTTAAGACCGATGTCGTTGGCCTTGAATCAGCACATTGG
1 CACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG
* *
642523 CACCTTAACCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACACTAG
1 CACCTT---CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG
* * *
642575 CACATTCATCTTTAAGTCCGATAT-GCTGGCCTTGAATCAGCACATTGG
1 CACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG
** * * *
642623 CACCTTCATCTTTAAACCCAATGTCGTTGGCCTTGAATCAGCACTTTGA
1 CACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG
* * * * * * *
642672 AATTCTTTTCATCTTCAAGTCTAATGTCGCTGACCGTGAATTAGCACATTGG
1 CA--C-CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG
* * * * * *
642724 CATTCTTTACATCTTTAAGCCCAATATCACTAGTCC-TGAATCAGCATATTGG
1 CA--CCTT-CATCTTTAAGTCCAATGTCGCT-GGCCTTGAATCAGCACATTGG
642776 CACCTT
1 CACCTT
642782 TATCACTCTT
Statistics
Matches: 210, Mismatches: 40, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
48 41 0.20
49 44 0.21
50 3 0.01
51 4 0.02
52 115 0.55
53 3 0.01
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (49 bp):
CACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG
Found at i:642659 original size:97 final size:99
Alignment explanation
Indices: 642478--642666 Score: 292
Period size: 97 Copynumber: 1.9 Consensus size: 99
642468 ATCAGCCACC
* * **
642478 TTCATCTTTAAGACCGATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTAACCATCTTTAAGT
1 TTCATCTTTAAGACCGATATCGCTGGCCTTGAATCAGCACATTGGCACCTT-A-CATCTTTAAAC
642543 CCAATGTCGCTGGCCTTGAATCAGCACACTAGCACA
64 CCAATGTCGCTGGCCTTGAATCAGCACACTAGCACA
*
642579 TTCATCTTTAAGTCCGATAT-GCTGGCCTTGAATCAGCACATTGGCACCTT-CATCTTTAAACCC
1 TTCATCTTTAAGACCGATATCGCTGGCCTTGAATCAGCACATTGGCACCTTACATCTTTAAACCC
*
642642 AATGTCGTTGGCCTTGAATCAGCAC
66 AATGTCGCTGGCCTTGAATCAGCAC
642667 TTTGAAATTC
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
97 35 0.43
100 29 0.35
101 18 0.22
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (99 bp):
TTCATCTTTAAGACCGATATCGCTGGCCTTGAATCAGCACATTGGCACCTTACATCTTTAAACCC
AATGTCGCTGGCCTTGAATCAGCACACTAGCACA
Found at i:647099 original size:20 final size:20
Alignment explanation
Indices: 647074--647126 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
647064 ACAACAAGCT
*
647074 AATGTATCGATACATAAGTG
1 AATGTATCGATACATAAGTA
647094 AATGTATCGATACATAAGTA
1 AATGTATCGATACATAAGTA
647114 AATGTATCGATAC
1 AATGTATCGATAC
647127 TAGGCCATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATAAGTA
Found at i:647232 original size:41 final size:41
Alignment explanation
Indices: 647187--647332 Score: 105
Period size: 41 Copynumber: 3.3 Consensus size: 41
647177 CATAAGTGGA
*
647187 TGTATCGATACAAGCTTGCTATGTATCGATACATTTCTCAT
1 TGTATCGATACAAGCTTGCAATGTATCGATACATTTCTCAT
* ** * *
647228 TGTATCAATATATTCTGGGTTTTTGACCCAAATGTATCGATACA-TTCTTCAA
1 TGTATC--GATA--C-AAG--CTTG---CAA-TGTATCGATACATTTC-TCAT
* *
647280 TGTATCGATACATGCTTACAATGTATCGATACATTTCTCAT
1 TGTATCGATACAAGCTTGCAATGTATCGATACATTTCTCAT
647321 TGTATCGATACA
1 TGTATCGATACA
647333 TTCTGGGTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 26
0.68 0.10 0.22
Matches are distributed among these distances:
41 33 0.41
42 6 0.08
43 3 0.04
45 3 0.04
46 1 0.01
47 1 0.01
48 4 0.05
50 3 0.04
51 5 0.06
52 21 0.26
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (41 bp):
TGTATCGATACAAGCTTGCAATGTATCGATACATTTCTCAT
Found at i:647283 original size:20 final size:20
Alignment explanation
Indices: 647258--647336 Score: 115
Period size: 20 Copynumber: 3.9 Consensus size: 20
647248 TTTTGACCCA
647258 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
*
647278 AATGTATCGATACATGCTTAC
1 AATGTATCGATACATTCTT-C
647299 AATGTATCGATACATT-TCTC
1 AATGTATCGATACATTCT-TC
*
647319 ATTGTATCGATACATTCT
1 AATGTATCGATACATTCT
647337 GGGTTTCTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
20 35 0.66
21 18 0.34
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:647284 original size:93 final size:93
Alignment explanation
Indices: 647186--647377 Score: 303
Period size: 93 Copynumber: 2.1 Consensus size: 93
647176 ACATAAGTGG
* * * *
647186 ATGTATCGATACAAGCTTGCTATGTATCGATACATTTCTCATTGTATCAATATATTCTGGGTTTT
1 ATGTATCGATACAAGCTTACAATGTATCGATACATTTCTCATTGTATCAATACATTCTGGGTTTC
*
647251 TGACCCAAATGTATCGATACATTCTTCA
66 TAACCCAAATGTATCGATACATTCTTCA
* *
647279 ATGTATCGATACATGCTTACAATGTATCGATACATTTCTCATTGTATCGATACATTCTGGGTTTC
1 ATGTATCGATACAAGCTTACAATGTATCGATACATTTCTCATTGTATCAATACATTCTGGGTTTC
* *
647344 TAACCCAAATGTATCGATACGTTCTTTA
66 TAACCCAAATGTATCGATACATTCTTCA
647372 ATGTAT
1 ATGTAT
647378 TGATGCATGT
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 90 1.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (93 bp):
ATGTATCGATACAAGCTTACAATGTATCGATACATTTCTCATTGTATCAATACATTCTGGGTTTC
TAACCCAAATGTATCGATACATTCTTCA
Found at i:647285 original size:52 final size:51
Alignment explanation
Indices: 647207--647363 Score: 156
Period size: 52 Copynumber: 3.2 Consensus size: 51
647197 CAAGCTTGCT
* * *
647207 ATGTATCGATACATTTCTCATTGTATCAATATATTCTGGGTTTTTGACCCAA
1 ATGTATCGATACATTTCTCAATGTATCGATACATTCTGGGTTTTT-ACCCAA
*
647259 ATGTATCGATACA-TTCTTCAATGTATCGATACA---T--G--CTTA--C-A
1 ATGTATCGATACATTTC-TCAATGTATCGATACATTCTGGGTTTTTACCCAA
* *
647300 ATGTATCGATACATTTCTCATTGTATCGATACATTCTGGGTTTCTAACCCAA
1 ATGTATCGATACATTTCTCAATGTATCGATACATTCTGGGTTT-TTACCCAA
647352 ATGTATCGATAC
1 ATGTATCGATAC
647364 GTTCTTTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 26
0.72 0.06 0.22
Matches are distributed among these distances:
41 29 0.34
42 4 0.05
44 2 0.02
45 2 0.02
46 1 0.01
47 1 0.01
49 3 0.04
51 4 0.05
52 39 0.46
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (51 bp):
ATGTATCGATACATTTCTCAATGTATCGATACATTCTGGGTTTTTACCCAA
Found at i:647820 original size:20 final size:21
Alignment explanation
Indices: 647780--647833 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
647770 TTCTACAATT
*
647780 TGTATCGATACAAATAGTGAA
1 TGTATCGATACATATAGTGAA
647801 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATATAGTGAA
*
647821 TGGATCGATACAT
1 TGTATCGATACAT
647834 GTCTAAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATATAGTGAA
Found at i:647998 original size:52 final size:51
Alignment explanation
Indices: 647900--648018 Score: 148
Period size: 52 Copynumber: 2.3 Consensus size: 51
647890 AAATGTATCG
* * * *
647900 CATTGTATCGATACATTTTGGGTTTTAGCCCAAATGTATCGGTACATTTTT
1 CATTGTATCGATACATTCTGGATTTTAGCCCAAATGTATCGATACATTCTT
* * * *
647951 CATTGTATTGATACATTCTGTATTTTTGACCCAAATGTATTGATACATTCTT
1 CATTGTATCGATACATTCTGGATTTTAG-CCCAAATGTATCGATACATTCTT
*
648003 CAATGTATCGATACAT
1 CATTGTATCGATACAT
648019 GTTGGCTATT
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
51 23 0.40
52 34 0.60
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (51 bp):
CATTGTATCGATACATTCTGGATTTTAGCCCAAATGTATCGATACATTCTT
Found at i:652803 original size:32 final size:32
Alignment explanation
Indices: 652767--652843 Score: 127
Period size: 32 Copynumber: 2.4 Consensus size: 32
652757 TAAATAGAAG
* *
652767 ATGTATCGATACATTTGGGTCAAAAACCCAGA
1 ATGTATCGATACATTTGGATCAAAAACCCAAA
*
652799 ATGTATCGATATATTTGGATCAAAAACCCAAA
1 ATGTATCGATACATTTGGATCAAAAACCCAAA
652831 ATGTATCGATACA
1 ATGTATCGATACA
652844 ATTGTGAGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (32 bp):
ATGTATCGATACATTTGGATCAAAAACCCAAA
Found at i:652908 original size:20 final size:20
Alignment explanation
Indices: 652853--652899 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
652843 AATTGTGAGC
652853 ATGTATCGATACATTTTCTT
1 ATGTATCGATACATTTTCTT
652873 ATGTATCGATACATTTTCTT
1 ATGTATCGATACATTTTCTT
652893 ATGTATC
1 ATGTATC
652900 AAAACATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.49
Consensus pattern (20 bp):
ATGTATCGATACATTTTCTT
Found at i:653026 original size:82 final size:82
Alignment explanation
Indices: 652927--653091 Score: 285
Period size: 82 Copynumber: 2.0 Consensus size: 82
652917 AAATACAGAG
*
652927 TGGTTTTGTATCAATACATTTCAAGCATGTATCGATACATTTACTATTTGTATTGATAGAAATTA
1 TGGTTTTGTATCAATACATTTCAAGCATGTATCGATACATTTACTATTTGTATCGATAGAAATTA
652992 TAAAAATTTGAAATTTT
66 TAAAAATTTGAAATTTT
* * * *
653009 TGGTTTTGTATCGATACATTTCAAGTATGTATCGATACATTTACTGTTTGTATCGATAGAAATTG
1 TGGTTTTGTATCAATACATTTCAAGCATGTATCGATACATTTACTATTTGTATCGATAGAAATTA
653074 TAAAAATTTGAAATTTT
66 TAAAAATTTGAAATTTT
653091 T
1 T
653092 TACCATTGAG
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.44
Consensus pattern (82 bp):
TGGTTTTGTATCAATACATTTCAAGCATGTATCGATACATTTACTATTTGTATCGATAGAAATTA
TAAAAATTTGAAATTTT
Found at i:653060 original size:21 final size:21
Alignment explanation
Indices: 653013--653066 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
653003 AATTTTTGGT
653013 TTTGTATCGATACATTTCAAG
1 TTTGTATCGATACATTTCAAG
* *
653034 TATGTATCGATACATTT-ACTG
1 TTTGTATCGATACATTTCA-AG
653055 TTTGTATCGATA
1 TTTGTATCGATA
653067 GAAATTGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (21 bp):
TTTGTATCGATACATTTCAAG
Found at i:653801 original size:61 final size:61
Alignment explanation
Indices: 653688--653993 Score: 210
Period size: 61 Copynumber: 5.2 Consensus size: 61
653678 CTAGTGTACA
* * * * * *
653688 GATTCAAGGCCTA-CAACACTGGACTTAAAAATGATAAGGATGA-AAAGAGTGCCAATGTGCT
1 GATTCAAGG-CTAGCAACATTGGACTTGAAGATGAGAAGAATGATAAAG-GTGCCAATATGCT
*
653749 GATTCAAGG-TAAGCAACATTGGACTT-AAGGAT-ACGAAGAATGATAAAGGTGCCAATATGTT
1 GATTCAAGGCT-AGCAACATTGGACTTGAA-GATGA-GAAGAATGATAAAGGTGCCAATATGCT
* * * * * *
653810 GATTCACGGCTAGCGATATTGGGCTTGAAGATGAGAAGAATGGTAAAAGTGCCAATATGCT
1 GATTCAAGGCTAGCAACATTGGACTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCT
* * * * * * * * * *
653871 AATTCAAAGCCAACGATATTGGGC-T-AA-A--AGATG-ACG-T-AA-GTGCCAATGTGCT
1 GATTCAAGGCTAGCAACATTGGACTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCT
* * **
653923 GATTCAAGGCTAGCGACATTGGACTTGAAGATGACAAGAATGATAAAGGTGCTGATATG-T
1 GATTCAAGGCTAGCAACATTGGACTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCT
653983 AGATTCAAGGC
1 -GATTCAAGGC
653994 CAACGATATT
Statistics
Matches: 194, Mismatches: 33, Indels: 36
0.74 0.13 0.14
Matches are distributed among these distances:
52 30 0.15
53 3 0.02
54 3 0.02
55 3 0.02
56 4 0.02
57 3 0.02
58 3 0.02
59 4 0.02
60 8 0.04
61 125 0.64
62 8 0.04
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.24
Consensus pattern (61 bp):
GATTCAAGGCTAGCAACATTGGACTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCT
Found at i:653954 original size:52 final size:52
Alignment explanation
Indices: 653856--653957 Score: 123
Period size: 52 Copynumber: 2.0 Consensus size: 52
653846 AGAATGGTAA
* *
653856 AAGTGCCAATATGCTAATTCAAAGCCAACGATATTGGGCTAAAAGATGACGT
1 AAGTGCCAATATGCTAATTCAAAGCCAACGACATTGGACTAAAAGATGACGT
* * * * * **
653908 AAGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTGAAGATGAC
1 AAGTGCCAATATGCTAATTCAAAGCCAACGACATTGGACTAAAAGATGAC
653958 AAGAATGATA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.24
Consensus pattern (52 bp):
AAGTGCCAATATGCTAATTCAAAGCCAACGACATTGGACTAAAAGATGACGT
Found at i:653996 original size:113 final size:112
Alignment explanation
Indices: 653788--654072 Score: 349
Period size: 113 Copynumber: 2.5 Consensus size: 112
653778 GATACGAAGA
* * * * * *
653788 ATGATAAAGGTGCCAATATGTTGATTCACGGCTAGCGATATTGGGCTTGAAGATGAGAAGAATGG
1 ATGACAAA-GTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTGAAGATGACAAGAATGA
653853 TAAAAGTGCCAATATGCTAATTCAAAGCCAACGATATTGGGCTAAAAG
65 TAAAAGTGCCAATATGCTAATTCAAAGCCAACGATATTGGGCTAAAAG
* * *
653901 ATGACGTAAGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTGAAGATGACAAGAATGA
1 ATGAC-AAAGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTGAAGATGACAAGAATGA
* ** * * *
653966 TAAAGGTGCTGATATG-TAGATTCAAGGCCAACGATATTGGGCTTAAAT
65 TAAAAGTGCCAATATGCTA-ATTCAAAGCCAACGATATTGGGCTAAAAG
* * *
654014 ATGACAAAG-GCACCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGACAA
1 ATGACAAAGTG--CCAATATGCTGATTCAAGGCTAGCGATATTGGACTTGAAGATGACAA
654073 AGGCCCTAAT
Statistics
Matches: 147, Mismatches: 21, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
111 1 0.01
112 5 0.03
113 139 0.95
114 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (112 bp):
ATGACAAAGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTGAAGATGACAAGAATGAT
AAAAGTGCCAATATGCTAATTCAAAGCCAACGATATTGGGCTAAAAG
Found at i:654045 original size:52 final size:51
Alignment explanation
Indices: 653984--654162 Score: 214
Period size: 52 Copynumber: 3.5 Consensus size: 51
653974 CTGATATGTA
* *
653984 GATTCAAGGCCAACGATATTGGGCTTAAATATGACAAAGGCACCAATATGCT
1 GATTCAAGGCCAACGATATTGGACTTAAAAATGACAAAGGC-CCAATATGCT
* * * *
654036 GATTCAAGGCCAGCGATATTAGACTTAAAGATGACAAAGGCCCTAATATGCA
1 GATTCAAGGCCAACGATATTGGACTTAAAAATGACAAAGGCCC-AATATGCT
* * * *
654088 GATTCAAGGCCAACGATATTGGACTTAAAAAAGAAAAAGGTGCCAATGTGCT
1 GATTCAAGGCCAACGATATTGGACTTAAAAATGACAAAGG-CCCAATATGCT
* * *
654140 TATTCAAGGCCAAAGACATTGGA
1 GATTCAAGGCCAACGATATTGGA
654163 GTTTGAAAGA
Statistics
Matches: 109, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
51 2 0.02
52 105 0.96
53 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.22
Consensus pattern (51 bp):
GATTCAAGGCCAACGATATTGGACTTAAAAATGACAAAGGCCCAATATGCT
Found at i:654280 original size:32 final size:32
Alignment explanation
Indices: 654218--654702 Score: 398
Period size: 32 Copynumber: 15.2 Consensus size: 32
654208 CCAACGACAT
* *
654218 TGGGC-TTAGAAGAA-GATGCCACCGATTTGTG
1 TGGGCTTTAG-AGAAGGTTGCCACCGACTTGTG
* *
654249 TGGGCTTTTGAGAAGGCTGCCACCGACTTGTG
1 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
* ** *
654281 TGGGCTTTTGA-AAGGGGTTGCCACTAACTTGTT
1 TGGGCTTTAGAGAA--GGTTGCCACCGACTTGTG
*
654314 TGGGCTTTAGAGAAGGGTGCCACCGACTTGTG
1 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
* * *
654346 TGGGCTTTAG-GAAAGGTTGCAACTGACTTATG
1 TGGGCTTTAGAG-AAGGTTGCCACCGACTTGTG
*
654378 TGGGCTTTAG-GAAAGGTTGCCACTGACTTGTG
1 TGGGCTTTAGAG-AAGGTTGCCACCGACTTGTG
* * * *
654410 T-GGCTTTCGAAAAAGATGCCACCGACTTGTG
1 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
* * * * *
654441 TGGGCTTTTA-AAAAAGATGTCACTGACTTGTG
1 TGGGC-TTTAGAGAAGGTTGCCACCGACTTGTG
* * * **
654473 TGGGCTTTTGAGAGGGTTGCCACCAACTTACG
1 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
* * * ***
654505 TGGACTTTTGAAAATAATGCCACCGACTTGTG
1 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
*
654537 TGGGCTTTCGAG-AGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
* * *
654568 TAGGCTTTAGAAAAGGTTACCACCGACTTGTG
1 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
*
654600 TAGGCTTTAG-GAAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAG-AAGGTTGCCACCGACTTGTG
* ** *
654632 TGGGCTTTAGA-AATGGGTGCCATTGACTTATG
1 TGGGCTTTAGAGAA-GGTTGCCACCGACTTGTG
** ** *
654664 TGAACTTTAGA-AAGGTTGCCATTGACTTGTA
1 TGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
654695 TGGGCTTT
1 TGGGCTTT
654703 TGAAGAAAAA
Statistics
Matches: 371, Mismatches: 69, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
31 88 0.24
32 254 0.68
33 27 0.07
34 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (32 bp):
TGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
Found at i:654680 original size:127 final size:125
Alignment explanation
Indices: 654234--654702 Score: 440
Period size: 127 Copynumber: 3.7 Consensus size: 125
654224 TAGAAGAAGA
* * * * *
654234 TGCCACCGATTTGTGTGGGCTTTTGAGAAGGCTGCCACCGACTTGTGTGGGCTTTTGAAAGGGGT
1 TGCCACCGACTTATGTGGGCTTTAGA-AAGGATGCCACCGACTTGTGTGGGCTTTCGAAA--GGT
** * * *
654299 TGCCACTAACTTGTTTGGGCTTTAGAGAAGGGTGCCACCGACTTGTGTGGGCTTTAGGAAAGGT
63 TGCCACCGACTTGTGTGGGCTTTAGA-AAAGGTTCCACCGACTTGTGTGGGCTTTAGGAAAGGT
* * * * * *
654363 TGCAACTGACTTATGTGGGCTTTAGGAAAGGTTGCCACTGACTTGTGT-GGCTTTCGAAAAAGAT
1 TGCCACCGACTTATGTGGGCTTTA-GAAAGGATGCCACCGACTTGTGTGGGCTTTCG-AAAGGTT
* * * * *
654427 GCCACCGACTTGTGTGGGCTTTTAAAAAAGATGT-CACTGACTTGTGTGGGCTTT-TGAGAGGGT
64 GCCACCGACTTGTGTGGGC-TTTAGAAAAGGT-TCCACCGACTTGTGTGGGCTTTAGGA-AAGGT
* * * * ** *
654490 TGCCACCAACTTACGTGGACTTTTGAAAATAATGCCACCGACTTGTGTGGGCTTTCGAGAGGTTG
1 TGCCACCGACTTATGTGGGCTTTAG-AAAGGATGCCACCGACTTGTGTGGGCTTTCGAAAGGTTG
* *
654555 CCACCGACTTGTGTAGGCTTTAGAAAAGGTTACCACCGACTTGTGTAGGCTTTAGGAAAGGT
65 CCACCGACTTGTGTGGGCTTTAGAAAAGGTT-CCACCGACTTGTGTGGGCTTTAGGAAAGGT
* * ** * ** *
654617 TGCCACCGACTTGTGTGGGCTTTAGAAATGGGTGCCATTGACTTATGTGAACTTTAGAAAGGTTG
1 TGCCACCGACTTATGTGGGCTTTAGAAA-GGATGCCACCGACTTGTGTGGGCTTTCGAAAGGTTG
** *
654682 CCATTGACTTGTATGGGCTTT
65 CCACCGACTTGTGTGGGCTTT
654703 TGAAGAAAAA
Statistics
Matches: 270, Mismatches: 59, Indels: 24
0.76 0.17 0.07
Matches are distributed among these distances:
125 1 0.00
126 16 0.06
127 188 0.70
128 22 0.08
129 41 0.15
130 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.31
Consensus pattern (125 bp):
TGCCACCGACTTATGTGGGCTTTAGAAAGGATGCCACCGACTTGTGTGGGCTTTCGAAAGGTTGC
CACCGACTTGTGTGGGCTTTAGAAAAGGTTCCACCGACTTGTGTGGGCTTTAGGAAAGGT
Found at i:654764 original size:27 final size:27
Alignment explanation
Indices: 654723--654860 Score: 123
Period size: 27 Copynumber: 4.6 Consensus size: 27
654713 GGTGCCACAA
*
654723 AGTTGTGGACTTTAAAACGGTGCCATGG
1 AGTTGTGGAC-TTAAAAGGGTGCCATGG
*
654751 AGTTGTGGACTTAAAAGGGTGCCACGG
1 AGTTGTGGACTTAAAAGGGTGCCATGG
*
654778 AGTTATGGACTTAAAAGGAAAAAAGTGCCATGG
1 AGTTGTGGACTTAAAAGG------GTGCCATGG
*
654811 AGTTGTGGACTTAAAAGGAAAAGGTGCCATAG
1 AGTTGTGGACTTAAAA-G----GGTGCCATGG
654843 AGTTGTGGACTTTAAAAG
1 AGTTGTGGAC-TTAAAAG
654861 AAAAAGGTGT
Statistics
Matches: 92, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
27 32 0.35
28 10 0.11
32 19 0.21
33 29 0.32
34 1 0.01
38 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.25
Consensus pattern (27 bp):
AGTTGTGGACTTAAAAGGGTGCCATGG
Found at i:654813 original size:33 final size:33
Alignment explanation
Indices: 654769--655047 Score: 232
Period size: 33 Copynumber: 8.5 Consensus size: 33
654759 ACTTAAAAGG
*
654769 GTGCCACGGAGTTATGGACTTAAAAGGAAAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAA
* *
654802 GTGCCATGGAGTTGTGGACTTAAAAGG-AAAAG
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAA
** *
654834 GTGCCATAGAGTTGTGGACTTTAAAA-GAAAAAG
1 GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAA
* * * *
654867 GTGTCACAGAGTTATGGACTTAAAAAGAAAAATA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAA-A
* *
654901 -TGCCATGAAGTTGTGGACTTAAAA-GAAAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAA
* * * *
654932 GGTTCCATGAAATTGTGGACTTAAAAAGG-AAAAA
1 -GTGCCACGGAGTTGTGGACTT-AAAAGGAAAAAA
* * * **
654966 GTGTCACAGAATTGTGGACTTAAAAAGGAAAAGG
1 GTGCCACGGAGTTGTGGACTT-AAAAGGAAAAAA
* *
655000 GTGCCACGGAGTCGTGGACTTTAAA-G-AAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAA
**
655031 -TGCCACTAAGTTGTGGA
1 GTGCCACGGAGTTGTGGA
655048 TTTTGAAGAA
Statistics
Matches: 205, Mismatches: 32, Indels: 21
0.79 0.12 0.08
Matches are distributed among these distances:
30 14 0.07
31 4 0.02
32 36 0.18
33 121 0.59
34 29 0.14
35 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.27, T:0.22
Consensus pattern (33 bp):
GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAA
Found at i:654984 original size:99 final size:98
Alignment explanation
Indices: 654780--655030 Score: 310
Period size: 99 Copynumber: 2.5 Consensus size: 98
654770 TGCCACGGAG
* *
654780 TTATGGACTTAAAAGGAAAAAAGTGCCATGGAGTTGTGGACTTAAAAG-GAAAAGGTGCCATAGA
1 TTATGGACTTAAAAAGAAAAAA-TGCCATGGAGTTGTGGACTTAAAAGAAAAAAGGTGCCATAGA
* * *
654844 GTTGTGGACTTTAAAAGAAAAAGGTGTCACAGAG
65 ATTGTGGACTTAAAAAGAAAAAGGTGTCACAGAA
* *
654878 TTATGGACTTAAAAAGAAAAATATGCCATGAAGTTGTGGACTTAAAAGAAAAAAGGTTCCAT-GA
1 TTATGGACTTAAAAAGAAAAA-ATGCCATGGAGTTGTGGACTTAAAAGAAAAAAGGTGCCATAG-
654942 AATTGTGGACTTAAAAAGGAAAAA-GTGTCACAGAA
64 AATTGTGGACTTAAAAA-GAAAAAGGTGTCACAGAA
* ** * * *
654977 TTGTGGACTTAAAAAGGAAAAGGGTGCCACGGAGTCGTGGACTTTAAAGAAAAA
1 TTATGGACTTAAAAA-GAAAA-AATGCCATGGAGTTGTGGACTTAAAAGAAAAA
655031 TGCCACTAAG
Statistics
Matches: 133, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
98 45 0.34
99 51 0.38
100 37 0.28
ACGTcount: A:0.42, C:0.10, G:0.26, T:0.22
Consensus pattern (98 bp):
TTATGGACTTAAAAAGAAAAAATGCCATGGAGTTGTGGACTTAAAAGAAAAAAGGTGCCATAGAA
TTGTGGACTTAAAAAGAAAAAGGTGTCACAGAA
Found at i:655072 original size:60 final size:59
Alignment explanation
Indices: 654992--655140 Score: 181
Period size: 60 Copynumber: 2.5 Consensus size: 59
654982 GACTTAAAAA
* * * ** *
654992 GGAAAAGGGTGCCACGGAGTCGTGGACTTTAAAGAAAAATGCCACTAAGTTGTGGATTT
1 GGAAAAGGATGCCACTGAGTCATGGACTTTAAAGAAAAATGCCACTAAGTCATGGACTT
* * ** *
655051 TGAAGAAGGATGCCACTGAGTCATGGACTTTGAAGAAGGATGCCATTAAGTCATGGACTT
1 GGAA-AAGGATGCCACTGAGTCATGGACTTTAAAGAAAAATGCCACTAAGTCATGGACTT
655111 GGAAAAGAGATGCCACTGAGTCATGGACTT
1 GGAAAAG-GATGCCACTGAGTCATGGACTT
655141 GGAGAAAGTT
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
59 6 0.08
60 70 0.92
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (59 bp):
GGAAAAGGATGCCACTGAGTCATGGACTTTAAAGAAAAATGCCACTAAGTCATGGACTT
Found at i:655141 original size:30 final size:29
Alignment explanation
Indices: 654992--655148 Score: 134
Period size: 30 Copynumber: 5.2 Consensus size: 29
654982 GACTTAAAAA
* * *
654992 GGAAAAGGGTGCCACGGAGTCGTGGACTT
1 GGAAAAGGATGCCACTGAGTCATGGACTT
** ** * ** *
655021 TAAAGAAAAATGCCACTAAGTTGTGGATTT
1 GGAA-AAGGATGCCACTGAGTCATGGACTT
*
655051 TGAAGAAGGATGCCACTGAGTCATGGACTT
1 GGAA-AAGGATGCCACTGAGTCATGGACTT
* * *
655081 TGAAGAAGGATGCCATTAAGTCATGGACTT
1 GGAA-AAGGATGCCACTGAGTCATGGACTT
655111 GGAAAAGAGATGCCACTGAGTCATGGACTT
1 GGAAAAG-GATGCCACTGAGTCATGGACTT
655141 GGAGAAAG
1 GGA-AAAG
655149 TTACTTTACT
Statistics
Matches: 104, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
29 5 0.05
30 95 0.91
31 4 0.04
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (29 bp):
GGAAAAGGATGCCACTGAGTCATGGACTT
Found at i:663903 original size:21 final size:20
Alignment explanation
Indices: 663854--663907 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
663844 TTTTTCAGGC
663854 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
* *
663874 ATATATCGATACATTTACTGT
1 ATGTATCGATACATTCACT-T
*
663895 TTGTATCGATACA
1 ATGTATCGATACA
663908 AATTGTAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:665275 original size:51 final size:52
Alignment explanation
Indices: 665220--665401 Score: 187
Period size: 51 Copynumber: 3.6 Consensus size: 52
665210 TATCATATCG
* * *
665220 AATTTTT-ACCATCGAGGATACTCCAACGCCATTTTTATTTTTAAAATATTA
1 AATTTTTCACCATCGGGGATACTCCAACCCCATTTTTATTTCTAAAATATTA
* * * *
665271 AATTTTTCATC-TCGGGG-TGACT-CTACCCTCGTTTTTATCTCTAAAATATTTA
1 AATTTTTCACCATCGGGGAT-ACTCCAACCC-CATTTTTATTTCTAAAATA-TTA
* * * *
665323 AATTTTTCATC-GCGGGGATACTCCAACCCCATTTTTATTTCCAAAATA-TC
1 AATTTTTCACCATCGGGGATACTCCAACCCCATTTTTATTTCTAAAATATTA
*
665373 AATTTTTCACCATCGGGGATACTTCAACC
1 AATTTTTCACCATCGGGGATACTCCAACC
665402 TCGTTATTTC
Statistics
Matches: 108, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
50 16 0.15
51 46 0.43
52 40 0.37
53 6 0.06
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (52 bp):
AATTTTTCACCATCGGGGATACTCCAACCCCATTTTTATTTCTAAAATATTA
Found at i:665358 original size:52 final size:51
Alignment explanation
Indices: 665235--665401 Score: 187
Period size: 52 Copynumber: 3.3 Consensus size: 51
665225 TTACCATCGA
* *
665235 GGATACTCCAACGCCATTTTTATTTTTAAAATATTAAATTTTTCATCTCGG
1 GGATACTCCAACCCCATTTTTATTTCTAAAATATTAAATTTTTCATCTCGG
* * * *
665286 GG-TGACT-CTACCCTCGTTTTTATCTCTAAAATATTTAAATTTTTCATCGCGG
1 GGAT-ACTCCAACCC-CATTTTTATTTCTAAAATA-TTAAATTTTTCATCTCGG
* * *
665338 GGATACTCCAACCCCATTTTTATTTCCAAAATA-TCAATTTTTCACCATCGG
1 GGATACTCCAACCCCATTTTTATTTCTAAAATATTAAATTTTTCATC-TCGG
*
665389 GGATACTTCAACC
1 GGATACTCCAACC
665402 TCGTTATTTC
Statistics
Matches: 96, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
50 16 0.17
51 36 0.38
52 38 0.40
53 6 0.06
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.39
Consensus pattern (51 bp):
GGATACTCCAACCCCATTTTTATTTCTAAAATATTAAATTTTTCATCTCGG
Found at i:665495 original size:51 final size:50
Alignment explanation
Indices: 665417--665584 Score: 203
Period size: 51 Copynumber: 3.3 Consensus size: 50
665407 ATTTCCAAGG
* *
665417 GGATACTCCAACCCTATTATTATTTCCAAAATATCGATTTTTCACTATCGA
1 GGATACTCCAACCCTATT-TTATTTCCAAAATATCAATTTTTCACAATCGA
* * * *
665468 GGATACTCCAACCCTATTTTCACTTCCAAAATGTTAAATTTTTTTCACCATCG-
1 GGATACTCCAACCCTATTTT-ATTTCCAAAAT-ATCAA--TTTTTCACAATCGA
* *
665521 GAATACTCCAACCCCATTTTTATTTCCAAAATATCAATTTTTCACAATCGA
1 GGATACTCCAACCCTA-TTTTATTTCCAAAATATCAATTTTTCACAATCGA
665572 GGATACTCCAACC
1 GGATACTCCAACC
665585 TCGTTATTTC
Statistics
Matches: 99, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
50 14 0.14
51 40 0.40
52 5 0.05
53 24 0.24
54 16 0.16
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (50 bp):
GGATACTCCAACCCTATTTTATTTCCAAAATATCAATTTTTCACAATCGA
Found at i:665542 original size:183 final size:184
Alignment explanation
Indices: 665335--665802 Score: 681
Period size: 183 Copynumber: 2.5 Consensus size: 184
665325 TTTTTCATCG
* *
665335 CGGGGATACTCCAACCCCATTTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTTCAA
1 CGGGAATACTCCAACCCCATTTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAA
*
665400 CCTCGTTATTTCCAAGGGGATACTCCAACCCTATTATTATTTCCAAAATATCGATTTTTCACTAT
66 CCTCGTTATTTCCAAGGGGATACTCCAACCCCATTATTATTTCCAAAATATCGATTTTTCACTAT
665465 CGAGGATACTCCAACCCTATTTTCACTTCCAAAATGTTAAATTTTTTTCACCAT
131 CGAGGATACTCCAACCCTATTTTCACTTCCAAAATGTTAAATTTTTTTCACCAT
* *
665519 C-GGAATACTCCAACCCCATTTTTATTTCCAAAATATCAATTTTTCACAATCGAGGATACTCCAA
1 CGGGAATACTCCAACCCCATTTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAA
* *
665583 CCTCGTTATTTCCAAGGGGATACTCCAACCCCATTTTTATTTCTAAAATATCGATTTTTCACTAT
66 CCTCGTTATTTCCAAGGGGATACTCCAACCCCATTATTATTTCCAAAATATCGATTTTTCACTAT
* * * *
665648 CGGGGATACTCCAACCTTGTTTTCACTTCCAAAATGTTGAATTTTTTTCACCAT
131 CGAGGATACTCCAACCCTATTTTCACTTCCAAAATGTTAAATTTTTTTCACCAT
* * * * * * *
665702 CGGGGATACTCCAACCCCGTTTTTATTTTCTAAAACATTGAAATTTTCATC-TCAGGGGATACTC
1 CGGGAATACTCCAACCCCATTTTTA-TTTCCAAAATA-TCAATTTTTCACCATC-GGGGATACTC
*** *
665766 CAATCC-CACCATTTCCAAGGGGATACTCTAACCCCAT
63 CAA-CCTCGTTATTTCCAAGGGGATACTCCAACCCCAT
665803 CAATTCCAAG
Statistics
Matches: 255, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
183 172 0.67
184 22 0.09
185 11 0.04
186 48 0.19
187 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (184 bp):
CGGGAATACTCCAACCCCATTTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAA
CCTCGTTATTTCCAAGGGGATACTCCAACCCCATTATTATTTCCAAAATATCGATTTTTCACTAT
CGAGGATACTCCAACCCTATTTTCACTTCCAAAATGTTAAATTTTTTTCACCAT
Found at i:665724 original size:54 final size:51
Alignment explanation
Indices: 665598--665724 Score: 146
Period size: 54 Copynumber: 2.4 Consensus size: 51
665588 TTATTTCCAA
* * * * *
665598 GGGGATACTCCAACCCCATTTTTATTTCTAAAATATCGATTTTTCACTATC
1 GGGGATACTCCAACCCCGTTTTCACTTCCAAAATATCGATTTTTCACCATC
** * *
665649 GGGGATACTCCAACCTTGTTTTCACTTCCAAAATGTTGAATTTTTTTCACCATC
1 GGGGATACTCCAACCCCGTTTTCACTTCCAAAATATCG-A--TTTTTCACCATC
665703 GGGGATACTCCAACCCCGTTTT
1 GGGGATACTCCAACCCCGTTTT
665725 TATTTTCTAA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
51 30 0.48
52 1 0.02
54 31 0.50
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.37
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGTTTTCACTTCCAAAATATCGATTTTTCACCATC
Found at i:665825 original size:27 final size:28
Alignment explanation
Indices: 665755--665829 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
665745 TTTTCATCTC
* * *
665755 AGGGGATACTCCAATCCCACCATTTCCA
1 AGGGGATACTCCAACCCCATCAATTCCA
*
665783 AGGGGATACTCTAACCCCATCAATTCCA
1 AGGGGATACTCCAACCCCATCAATTCCA
665811 A-GGGATACTCCAACCCCAT
1 AGGGGATACTCCAACCCCAT
665830 TTTTACTTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 17 0.40
28 25 0.60
ACGTcount: A:0.31, C:0.35, G:0.15, T:0.20
Consensus pattern (28 bp):
AGGGGATACTCCAACCCCATCAATTCCA
Found at i:669263 original size:78 final size:78
Alignment explanation
Indices: 669049--669420 Score: 343
Period size: 79 Copynumber: 4.7 Consensus size: 78
669039 ACATCTAGAG
* * * * *
669049 GGGATACTCTAACCCCGTTTTTACTTTCAAAATGTTAAATTTTTCACCTCAGGGATACTCCAACC
1 GGGATACTCCAACCCCGTTTTTACTTCCAAAATATTAAATTTTTCATCTCAAGGATACTCCAACC
*
669114 CCATCATTTCTGA
66 CCATCATTTCTAA
** * * * * * * * *
669127 GGGAATACTTTAACCTCATTTTTACTTCTAAAACATTAAATTTATCGTCTCAAAGATACTCCAAT
1 GGG-ATACTCCAACCCCGTTTTTACTTCCAAAATATTAAATTTTTCATCTCAAGGATACTCCAAC
* * *
669192 CCCACCATTTTTTA
65 CCCATCATTTCTAA
* * * *
669206 GGGATACTCCAACCCCATTTTTACTTCCAAAGTATTAAATTTTTCATCTTAAGGATACTCTAACC
1 GGGATACTCCAACCCCGTTTTTACTTCCAAAATATTAAATTTTTCATCTCAAGGATACTCCAACC
*
669271 CCATCATTTCCAAA
66 CCATCATTT-CTAA
** * * * * * *
669285 AAGATATTCCAACCTCGTTTTTACTTCTAAAATATTGAATTTTTCATCTCAGGGATACTCCAACT
1 GGGATACTCCAACCCCGTTTTTACTTCCAAAATATTAAATTTTTCATCTCAAGGATACTCCAACC
*
669350 CCAT-ATTTTTGAA
66 CCATCATTTCT-AA
* * * * * *
669363 AGGATACTCCAATCCCGTTTTTACTTCTAAAACATTGAATTTCTCATCTCGAA-GATAC
1 GGGATACTCCAACCCCGTTTTTACTTCCAAAATATTAAATTTTTCATCTC-AAGGATAC
669421 CCCATGTAGA
Statistics
Matches: 237, Mismatches: 53, Indels: 8
0.80 0.18 0.03
Matches are distributed among these distances:
78 116 0.49
79 121 0.51
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (78 bp):
GGGATACTCCAACCCCGTTTTTACTTCCAAAATATTAAATTTTTCATCTCAAGGATACTCCAACC
CCATCATTTCTAA
Found at i:669335 original size:157 final size:157
Alignment explanation
Indices: 669049--669404 Score: 396
Period size: 157 Copynumber: 2.3 Consensus size: 157
669039 ACATCTAGAG
* * * *
669049 GGGATACTCTAACCCCGTTTTTACTTTCAAAATGTTAAATTTTTCACCTCAGGGATACTCCAACC
1 GGGATACTCCAACCCCGTTTTTACTTCCAAAATATTAAATTTTTCACCTCAAGGATACTCCAACC
** ** * *
669114 CCATCATTTCTGAGGGAATACTTTAACCTCATTTTTACTTCTAAAACATTAAATTTATCGTCTCA
66 CCATCATTTCAAAAAGAATACTTCAACCTCATTTTTACTTCTAAAACATTAAATTTATCATCTCA
*
669179 AAGATACTCCAA-TCCCACCATTTTT-TA
131 AAGATACTCCAACT-CCA-CATTTTTGAA
* * * * *
669206 GGGATACTCCAACCCCATTTTTACTTCCAAAGTATTAAATTTTTCATCTTAAGGATACTCTAACC
1 GGGATACTCCAACCCCGTTTTTACTTCCAAAATATTAAATTTTTCACCTCAAGGATACTCCAACC
* * * *
669271 CCATCATTTCCAAAAAG-ATA-TTCCAACCTCGTTTTTACTTCTAAAATATTGAATTTTTCATCT
66 CCATCATTT-CAAAAAGAATACTT-CAACCTCATTTTTACTTCTAAAACATTAAATTTATCATCT
** *
669334 CAGGGATACTCCAACTCCATATTTTTGAA
129 CAAAGATACTCCAACTCCACATTTTTGAA
* * * * *
669363 AGGATACTCCAATCCCGTTTTTACTTCTAAAACATTGAATTT
1 GGGATACTCCAACCCCGTTTTTACTTCCAAAATATTAAATTT
669405 CTCATCTCGA
Statistics
Matches: 165, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
156 8 0.05
157 153 0.93
158 4 0.02
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.37
Consensus pattern (157 bp):
GGGATACTCCAACCCCGTTTTTACTTCCAAAATATTAAATTTTTCACCTCAAGGATACTCCAACC
CCATCATTTCAAAAAGAATACTTCAACCTCATTTTTACTTCTAAAACATTAAATTTATCATCTCA
AAGATACTCCAACTCCACATTTTTGAA
Found at i:669788 original size:20 final size:19
Alignment explanation
Indices: 669763--669828 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 19
669753 TTTACCCGGA
669763 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
669783 TGTATCGATACATTACTCAT
1 TGTATCGATACATT-TTCAT
*
669803 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
669823 TGTATC
1 TGTATC
669829 AAACATTCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
19 1 0.02
20 39 0.95
21 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:672182 original size:51 final size:49
Alignment explanation
Indices: 672117--672286 Score: 180
Period size: 51 Copynumber: 3.4 Consensus size: 49
672107 GATTTTCATC
* * *
672117 TCGGAGATACTCCAATCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAA
1 TCGGAGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTC--AA
* * * * * **
672168 TCGGGGATACTCCAACTCCGATTTTATTTCTAAAGCATCGATTTACCGCAA
1 TCGGAGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTT--TTCAA
* *
672219 TCAGAGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTC-A
1 TCGGAGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCAA
*
672267 TCGGGGATACTCCAACCCCG
1 TCGGAGATACTCCAACCCCG
672287 TTATTTTCGA
Statistics
Matches: 96, Mismatches: 21, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
48 19 0.20
49 1 0.01
51 75 0.78
53 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (49 bp):
TCGGAGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCAA
Done.