Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold158
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: 1811518
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 13
Found at i:857326 original size:13 final size:13
Alignment explanation
Indices: 857308--857350 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
857298 AATCCATCTC
857308 ATATTATTATTCA
1 ATATTATTATTCA
857321 ATATTA-TA-T-A
1 ATATTATTATTCA
*
857331 ATATTTTTATTCA
1 ATATTATTATTCA
857344 ATATTAT
1 ATATTAT
857351 AAAAACCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATTATTATTCA
Found at i:857334 original size:23 final size:23
Alignment explanation
Indices: 857308--857351 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
857298 AATCCATCTC
857308 ATATTATTATTCAATATTATATA
1 ATATTATTATTCAATATTATATA
*
857331 ATATTTTTATTCAATATTATA
1 ATATTATTATTCAATATTATA
857352 AAAACCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (23 bp):
ATATTATTATTCAATATTATATA
Found at i:857864 original size:17 final size:18
Alignment explanation
Indices: 857837--857870 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
857827 TATAATTAAC
857837 TATCATTTAATTATATTA
1 TATCATTTAATTATATTA
*
857855 TATC-TTTAATTTTATT
1 TATCATTTAATTATATT
857871 TTTTATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (18 bp):
TATCATTTAATTATATTA
Found at i:858085 original size:24 final size:25
Alignment explanation
Indices: 858038--858085 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
858028 TTTTACGTTG
*
858038 TATTAATTAAAAATTATATATTGAA
1 TATTAATTAAAAATTATAAATTGAA
858063 TATT-ATTAAAAATTA-AAACTTGA
1 TATTAATTAAAAATTATAAA-TTGA
858086 GTAAAGTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 15 0.71
25 4 0.19
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (25 bp):
TATTAATTAAAAATTATAAATTGAA
Found at i:858312 original size:27 final size:29
Alignment explanation
Indices: 858256--858319 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
858246 GACATATTAT
858256 TAATATAACATGAAAAAAATAATTACAACA
1 TAATATAACATGAAAAAAATAATTA-AACA
*
858286 TAATATAATAT-AAAAATAAT-ATT-AACA
1 TAATATAACATGAAAAA-AATAATTAAACA
858313 TGAATAT
1 T-AATAT
858320 GAGCATAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
27 5 0.16
28 5 0.16
29 8 0.26
30 13 0.42
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (29 bp):
TAATATAACATGAAAAAAATAATTAAACA
Found at i:859255 original size:23 final size:23
Alignment explanation
Indices: 859229--859275 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
859219 ACTCACAAAA
859229 AATTAAAGTTAACTATTACCATT
1 AATTAAAGTTAACTATTACCATT
859252 AATTAAAGTTAACTATTACCATT
1 AATTAAAGTTAACTATTACCATT
859275 A
1 A
859276 TTATTACTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (23 bp):
AATTAAAGTTAACTATTACCATT
Found at i:861837 original size:26 final size:26
Alignment explanation
Indices: 861808--861859 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
861798 AATCGTGAAT
861808 TTTTTTGTACTAATGAAATGAAACTA
1 TTTTTTGTACTAATGAAATGAAACTA
861834 TTTTTTGTACTAATGAAATGAAACTA
1 TTTTTTGTACTAATGAAATGAAACTA
861860 GATAGTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (26 bp):
TTTTTTGTACTAATGAAATGAAACTA
Found at i:864452 original size:23 final size:23
Alignment explanation
Indices: 864421--864472 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
864411 ATAAAGAAAA
864421 ATAC-TAAATAAATAAAACAAAT
1 ATACATAAATAAATAAAACAAAT
864443 ATACATAAATAAATAAAACAAAT
1 ATACATAAATAAATAAAACAAAT
864466 ATACATA
1 ATACATA
864473 TATATCTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (23 bp):
ATACATAAATAAATAAAACAAAT
Found at i:865403 original size:2 final size:2
Alignment explanation
Indices: 865396--865434 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
865386 TTCTTGATAA
*
865396 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
865435 CTCAAAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:867445 original size:198 final size:200
Alignment explanation
Indices: 867194--867592 Score: 640
Period size: 198 Copynumber: 2.0 Consensus size: 200
867184 TATTCAAGTA
* * *
867194 ATCCTATCCATAAGAAGTTTCCAACCCAACCCTTCTCCGTAGGATTCTGTATCCTATTATATACA
1 ATCCTATCCATAAGAAGTTTCCAACCCAACCCTTCTCCATAGGATTATGTATCCTATTAGATACA
* * *
867259 TGACGATAAATCAAGCTGACTTTCAAACTCTTCTATCATAAGACTAGGGACACTGACAAATATAG
66 TGACAATAAATCAAGCTGACTTTCAAACTCTTCTATCAGAAGACTAGAGACACTGACAAATATAG
* * * *
867324 CATGAAATAAGAAGTCATTTAATATGAAAAACAAGCCTTAAAAAC-AAAACATGAAG-TAATGAA
131 CATGAAATAAAAAGTCATTTAATACGAAAAACAAGCCTTAAAAACAAAAAAATGAAGCAAATGAA
867387 ACATG
196 ACATG
* *
867392 ATCCTATCCATAAGAAGTTTCCAACCCGACCTTTCTCCATAGGATTATGTATCCTATTAGATACA
1 ATCCTATCCATAAGAAGTTTCCAACCCAACCCTTCTCCATAGGATTATGTATCCTATTAGATACA
* * *
867457 TGACAATAAATCCAGCTGACTTTCAAATTCTTCTATTAGAAGACTAGAGACACTGACAAATATAG
66 TGACAATAAATCAAGCTGACTTTCAAACTCTTCTATCAGAAGACTAGAGACACTGACAAATATAG
*
867522 CATGAAATAAAAAGTCATTTAATACGCAAAACAAGCCTTAAAAACAAAAAAATGAAGCAAATGAA
131 CATGAAATAAAAAGTCATTTAATACGAAAAACAAGCCTTAAAAACAAAAAAATGAAGCAAATGAA
867587 ACATG
196 ACATG
867592 A
1 A
867593 ACTTCAGCAT
Statistics
Matches: 183, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
198 161 0.88
199 10 0.05
200 12 0.07
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (200 bp):
ATCCTATCCATAAGAAGTTTCCAACCCAACCCTTCTCCATAGGATTATGTATCCTATTAGATACA
TGACAATAAATCAAGCTGACTTTCAAACTCTTCTATCAGAAGACTAGAGACACTGACAAATATAG
CATGAAATAAAAAGTCATTTAATACGAAAAACAAGCCTTAAAAACAAAAAAATGAAGCAAATGAA
ACATG
Found at i:868335 original size:3 final size:3
Alignment explanation
Indices: 868327--868375 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
868317 TGTGCTATTC
*
868327 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT GCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
868375 T
1 T
868376 TGACTCTCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:868742 original size:2 final size:2
Alignment explanation
Indices: 868735--868759 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
868725 TTTCTTTGCG
868735 CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA C
868760 GTATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:869865 original size:7 final size:7
Alignment explanation
Indices: 869855--869880 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
869845 CTCATTTTTC
869855 TTTTTAA
1 TTTTTAA
869862 TTTTTAA
1 TTTTTAA
869869 TTTTTAA
1 TTTTTAA
869876 TTTTT
1 TTTTT
869881 TTGGGGTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:869985 original size:5 final size:5
Alignment explanation
Indices: 869975--870000 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
869965 ATACGGTGAC
869975 TTAAA TTAAA TTAAA TTAAA TTAAA T
1 TTAAA TTAAA TTAAA TTAAA TTAAA T
870001 ATTATGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TTAAA
Found at i:875643 original size:21 final size:21
Alignment explanation
Indices: 875602--875674 Score: 62
Period size: 21 Copynumber: 3.3 Consensus size: 21
875592 AAGAGAAAGA
875602 AGAGATAGGAGGGATGATAAGATG
1 AGAGATAGGA--GA-GATAAGATG
*
875626 AGAGATAGGAGAGATAAGAAG
1 AGAGATAGGAGAGATAAGATG
875647 -GATGATAGGAG-GA-AAGATATG
1 AGA-GATAGGAGAGATAAG--ATG
875668 AGAGATA
1 AGAGATA
875675 ATAGAGAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
19 3 0.07
20 4 0.09
21 22 0.51
22 4 0.09
24 10 0.23
ACGTcount: A:0.47, C:0.00, G:0.38, T:0.15
Consensus pattern (21 bp):
AGAGATAGGAGAGATAAGATG
Found at i:875665 original size:33 final size:33
Alignment explanation
Indices: 875602--875675 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
875592 AAGAGAAAGA
* * * *
875602 AGAGATAGGAGGGATGATAAGATGAGAGATAGG
1 AGAGATAAGAAGGATGATAAGAGGAAAGATAGG
* *
875635 AGAGATAAGAAGGATGATAGGAGGAAAGATATG
1 AGAGATAAGAAGGATGATAAGAGGAAAGATAGG
875668 AGAGATAA
1 AGAGATAA
875676 TAGAGAGAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.47, C:0.00, G:0.38, T:0.15
Consensus pattern (33 bp):
AGAGATAAGAAGGATGATAAGAGGAAAGATAGG
Found at i:877729 original size:19 final size:19
Alignment explanation
Indices: 877705--877759 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
877695 AATTCAACAA
877705 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
877724 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
* *
877743 ATTGTACCGATACATAA
1 TTTGTATCGATACATAA
877760 TTAGCTACTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:877817 original size:13 final size:13
Alignment explanation
Indices: 877799--877824 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
877789 CATTTTTCTG
877799 TGTATCGATACAT
1 TGTATCGATACAT
877812 TGTATCGATACAT
1 TGTATCGATACAT
877825 GGATCTTTGT
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:877819 original size:33 final size:33
Alignment explanation
Indices: 877779--877845 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
877769 GCCAAGGAAA
***
877779 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
877812 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
877845 T
1 T
877846 TGAAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:880369 original size:28 final size:27
Alignment explanation
Indices: 880304--880372 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
880294 TCACAATCGA
**
880304 GGATACTCCAACCCCGTTAATCATCGG
1 GGATACTCCAACCCCGTTAATCAGAGG
* *
880331 GGATACTCCAACCCCGTTATTTCCGAGG
1 GGATACTCCAACCCCGTTA-ATCAGAGG
880359 GGATACTCCAACCC
1 GGATACTCCAACCC
880373 TGATTTTATC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 19 0.51
28 18 0.49
ACGTcount: A:0.25, C:0.35, G:0.19, T:0.22
Consensus pattern (27 bp):
GGATACTCCAACCCCGTTAATCAGAGG
Found at i:880486 original size:52 final size:51
Alignment explanation
Indices: 880357--880527 Score: 166
Period size: 52 Copynumber: 3.3 Consensus size: 51
880347 TTATTTCCGA
** *
880357 GGGGATACTCCAACCCTGATTTTATCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCC-GATTTTATTTCTAAAACACCAATTTTTCCACAATC
* * * **
880409 GGGGATACTCCAACCCCGGTTTTATTTTTAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAA-CCCGATTTTATTTCTAAAACACCAATTTTTCC-ACAATC
* *
880461 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAAC-CCGATTTTATTT-CTAAAACACCAATTTTTCCACAATC
** *
880513 GATGATACTTCAACC
1 GGGGATACTCCAACC
880528 TCGTTATTTC
Statistics
Matches: 96, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
51 8 0.08
52 72 0.75
53 12 0.12
54 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCGATTTTATTTCTAAAACACCAATTTTTCCACAATC
Found at i:880547 original size:28 final size:28
Alignment explanation
Indices: 880516--880586 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 28
880506 CACAATCGAT
* *
880516 GATACTTCAACCTCGTTA-TTTC-ATCGGG
1 GATACTCCAACCCCGTTACTTTCGA--GGG
880544 GATACTCCAACCCCGTTACTTTCGAGGG
1 GATACTCCAACCCCGTTACTTTCGAGGG
880572 GATACTCCAACCCCG
1 GATACTCCAACCCCG
880587 GCTTTATTCC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (28 bp):
GATACTCCAACCCCGTTACTTTCGAGGG
Found at i:880555 original size:212 final size:212
Alignment explanation
Indices: 880188--880584 Score: 611
Period size: 212 Copynumber: 1.9 Consensus size: 212
880178 TTCTCAATTC
* * *
880188 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGAA
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGAA
*
880253 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATCTCTTCACAATCGAGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATCTCTTCACAATCGAGGATACTCCAACCC
880318 CGTTAATCATCGGGGATACTCCAACCCCGTTA-TTTCCGAGGGGATACTCCAACCCTGATTTTAT
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTT-CGAGGGGATACTCCAACCCTGATTTTAT
880382 CGCTAAAACACTAATTTT
195 CGCTAAAACACTAATTTT
* * * * *
880400 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTTAAAACGCCAATTTTCCTTTAATCGGGG
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGA
* * * *
880465 ATACTCCAACTCCGATTTTATTTCC-AAAAATACCAAT-TTTTCACAATCGATGATACTTCAACC
65 ATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATCTCTTCACAATCGAGGATACTCCAACC
* *
880528 TCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCC
130 CCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCC
880585 CGGCTTTATT
Statistics
Matches: 167, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 28 0.17
212 102 0.61
213 37 0.22
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (212 bp):
TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGAA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATCTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCCTGATTTTATC
GCTAAAACACTAATTTT
Found at i:880719 original size:81 final size:79
Alignment explanation
Indices: 880540--880746 Score: 227
Period size: 81 Copynumber: 2.6 Consensus size: 79
880530 GTTATTTCAT
*
880540 CGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
* * *
880605 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * ** * * **
880619 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTCTTC-TGAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG-GCTTTATTC-CCAAAAT
880683 CATCGATTTCTCACAAC
64 -ATCGATTTCTCACAAC
* * * * *
880700 CGGGGATACTCCAGCCCCGTTATTTTCAAAGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
880747 TTATTATCTC
Statistics
Matches: 106, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
79 44 0.42
80 8 0.08
81 54 0.51
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:894594 original size:55 final size:55
Alignment explanation
Indices: 894187--895082 Score: 1054
Period size: 55 Copynumber: 16.0 Consensus size: 55
894177 GATGCCTTTT
* * * * * **
894187 CCTTTTAAAGCCCACACGAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAACGGGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACA
894242 CCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGC-GAGAC-
1 CC-TTTC----AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAG-GACA
* *
894300 CCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCGGGACG
1 CC-TTTC----AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
*
894359 CCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGAC-
1 CC-TTTC----AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
* **
894417 CCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCGGGATG
1 CC-TTTC----AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
894476 CCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACA
1 CC-TTTC----AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
*
894535 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
* * *
894590 CCTTTCAAAGCACACCCAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACA
* *
894645 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAGGACA
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
* * *
894700 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAATCCTCAAAGAGCATGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACA
*
894755 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
*
894810 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACA
*
894865 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
*
894920 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACA
* *
894975 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGACCA-GACCG
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA-CA
* * * *
895030 CCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAATGAGCAGGA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA
895083 TACACTTTAT
Statistics
Matches: 766, Mismatches: 42, Indels: 65
0.88 0.05 0.07
Matches are distributed among these distances:
54 47 0.06
55 423 0.55
56 25 0.03
57 2 0.00
58 114 0.15
59 129 0.17
60 26 0.03
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (55 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
Found at i:895804 original size:20 final size:20
Alignment explanation
Indices: 895760--895811 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
895750 AAAAAGATAG
* *
895760 AATGTATCAATACATTCATA
1 AATGTATCGATACATTCAAA
* *
895780 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
895800 AATGTATCGATA
1 AATGTATCGATA
895812 AATCTGGGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:896805 original size:28 final size:28
Alignment explanation
Indices: 896767--897177 Score: 459
Period size: 28 Copynumber: 14.5 Consensus size: 28
896757 CATAGACTTA
896767 TGTGGGCTTTGAAAGGGTGCCA-TCGACT
1 TGTGGGCTTTGAAAGGGTGCCACT-GACT
896795 TGTGGGCTTTGAAAGGGTATGCCACTGACT
1 TGTGGGCTTTGAAAGGG--TGCCACTGACT
*
896825 TGTGGGCTTTGAAAGGGTGTCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
896853 TGTGGGCTTTGAAGGGGTACCAATGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
896881 TATGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
896909 TATGGGCTTTGGAAGGGTGCCACTGATTT
1 TGTGGGCTTTGAAAGGGTGCCACTGA-CT
896938 GTGTGGGCTTTGAAAGGGTATGCCACTGACT
1 -TGTGGGCTTTGAAAGGG--TGCCACTGACT
* * *
896969 TGTAGGTTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
896997 TGTGGTCTTTTG-AAGAGATGCCACTGGCT
1 TGTGGGC-TTTGAAAG-GGTGCCACTGACT
* * *
897026 TGTGGGCTTCGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
897054 TGTGGGCTTTAAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *** *
897082 TGTGGGTTTTGAAAAAATACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
897110 TGTGGGC-TTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
897137 TGTGGGCTTTGAAAGGATGCCACTGACC
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
897165 TGTAGGCTTTGAA
1 TGTGGGCTTTGAA
897178 GAGATGAATG
Statistics
Matches: 325, Mismatches: 47, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
27 24 0.07
28 211 0.65
29 24 0.07
30 55 0.17
31 2 0.01
32 9 0.03
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:896915 original size:56 final size:56
Alignment explanation
Indices: 896720--897177 Score: 449
Period size: 56 Copynumber: 8.0 Consensus size: 56
896710 TAAAAAAAAA
* *
896720 GGTGCCACTAACTTATGTGGACTTTGAAAAGAGTTGCCA-TAGACTTATGTGGGCTTTGAAAG
1 GGTGCCACTGAC-T-TGTGGGCTTTGAAAAG-G-TGCCACT-GAC-T-TGTGGGCTTTGAAAG
*
896782 GGTGCCA-TCGACTTGTGGGCTTTGAAAGGGTATGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACT-GACTTGTGGGCTTTGAAAAGG--TGCCACTGACTTGTGGGCTTTGAAAG
* ** * * *
896840 GGTGTCACTGACTTGTGGGCTTTGAAGGGGTACCAATGACTTATGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
896896 GGTGCCACTAACTTATGGGCTTTGGAAGGGTGCCACTGATTTGTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGA-CT-TGTGGGCTTTGAAAG
* * *
896954 GGTATGCCACTGACTTGTAGGTTTTGAAAAGGTGCCACTGACTTGTGGTCTTTTG-AAG
1 GG--TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGC-TTTGAAAG
* * * * * *
897012 AGATGCCACTGGCTTGTGGGCTTCGAAATGATGCCACTGACTTGTGGGCTTTAAAAG
1 -GGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAG
* * ** *
897069 GGTGCCATTGACTTGTGGGTTTTGAAAAAATACCACTGACTTGTGGGC-TTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
897124 GATGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACCTGTAGGCTTTGAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAA
897178 GAGATGAATG
Statistics
Matches: 331, Mismatches: 52, Indels: 32
0.80 0.13 0.08
Matches are distributed among these distances:
54 3 0.01
55 42 0.13
56 103 0.31
57 43 0.13
58 66 0.20
59 9 0.03
60 53 0.16
61 3 0.01
62 9 0.03
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.30
Consensus pattern (56 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:897095 original size:201 final size:197
Alignment explanation
Indices: 896771--897177 Score: 505
Period size: 201 Copynumber: 2.0 Consensus size: 197
896761 GACTTATGTG
* * *
896771 GGCTTTGAAAGGGTGCCATCGACTTGTGGGCTTTGAAAGGGTATGCCACTGACTTGTGGGCTTTG
1 GGCTTTGAAAAGGTGCCATCGACTTGTGGGCTTTGAAAGAGTATGCCACTGACTTGTGGGCTTCG
* * * * *** *
896836 AAAGGGTGTCACTGACTTGTGGGCTTTGAAGGGGTACCAATGACTTATGGGCTTTGAAAGGGTGC
66 AAAGGATGCCACTGACTTGTGGGCTTTAAAAGGGTACCAATGACTTATGGGCTTTGAAAAAATAC
* * *
896901 CACTAACTTATGGGCTTTGGAAGGGTGCCACTGATTTGTGTGGGCTTTGAAAGGGTATGCCACTG
131 CACTAACTTATGGGC-TTGAAAGGATGCCACTGA-CT-TGTGGGCTTTGAAA-GG-ATGCCACTG
*
896966 ACTTGTA
191 ACCTGTA
* * *
896973 GGTTTTGAAAAGGTGCCA-CTGACTTGTGGTCTTTTG-AAGAG-ATGCCACTGGCTTGTGGGCTT
1 GGCTTTGAAAAGGTGCCATC-GACTTGTGGGC-TTTGAAAGAGTATGCCACTGACTTGTGGGCTT
* * * * *
897035 CGAAATGATGCCACTGACTTGTGGGCTTTAAAAGGGTGCCATTGACTTGTGGGTTTTGAAAAAAT
64 CGAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGGTACCAATGACTTATGGGCTTTGAAAAAAT
* *
897100 ACCACTGACTTGTGGGCTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACC
129 ACCACTAACTTATGGGCTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACC
897165 TGTA
194 TGTA
897169 GGCTTTGAA
1 GGCTTTGAA
897178 GAGATGAATG
Statistics
Matches: 177, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
196 23 0.13
197 2 0.01
198 14 0.08
199 1 0.01
200 16 0.09
201 87 0.49
202 30 0.17
203 4 0.02
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (197 bp):
GGCTTTGAAAAGGTGCCATCGACTTGTGGGCTTTGAAAGAGTATGCCACTGACTTGTGGGCTTCG
AAAGGATGCCACTGACTTGTGGGCTTTAAAAGGGTACCAATGACTTATGGGCTTTGAAAAAATAC
CACTAACTTATGGGCTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACCTG
TA
Found at i:898420 original size:23 final size:23
Alignment explanation
Indices: 898394--898446 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
898384 ATCTGGACCC
* *
898394 TTTTTTTGTTTGTTTGTTTGTTT
1 TTTTTTTGTTTGTTTCTTGGTTT
*
898417 TTTTTTTGTTTTTTTCTTGGTTT
1 TTTTTTTGTTTGTTTCTTGGTTT
898440 TTTTTTT
1 TTTTTTT
898447 TGGTACGAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (23 bp):
TTTTTTTGTTTGTTTCTTGGTTT
Found at i:898428 original size:8 final size:8
Alignment explanation
Indices: 898394--898431 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
898384 ATCTGGACCC
898394 TTTTTTTG
1 TTTTTTTG
*
898402 TTTGTTTG
1 TTTTTTTG
*
898410 TTTGTTT-
1 TTTTTTTG
898417 TTTTTTTG
1 TTTTTTTG
898425 TTTTTTT
1 TTTTTTT
898432 CTTGGTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (8 bp):
TTTTTTTG
Found at i:911890 original size:20 final size:19
Alignment explanation
Indices: 911863--911939 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 19
911853 GTAAAAAGAC
*
911863 AAAATGTATCAATACATTG
1 AAAATGTATCGATACATTG
*
911882 AAGAATGTATCGATACATTC
1 AA-AATGTATCGATACATTG
* *
911902 ATACATGCATCGATACATTG
1 A-AAATGTATCGATACATTG
911922 AAAAATGTATCGATACAT
1 -AAAATGTATCGATACAT
911940 CTGGATAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.04
20 44 0.92
21 2 0.04
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (19 bp):
AAAATGTATCGATACATTG
Found at i:911929 original size:40 final size:38
Alignment explanation
Indices: 911874--912010 Score: 128
Period size: 40 Copynumber: 3.7 Consensus size: 38
911864 AAATGTATCA
*
911874 ATACATTGAAGAATGTATCGATACATTCATACATGCATCG
1 ATACATTGAAAAATGTATCGATACATTCATACATG-AT-G
911914 ATACATTGAAAAATGTATCGAT--A--CAT-C-TG--G
1 ATACATTGAAAAATGTATCGATACATTCATACATGATG
* ** *
911944 ATAAAAAGACAAGATGTATCGATACATTCATACATGTATTG
1 ATACATTGA-AAAATGTATCGATACATTCATACATG-A-TG
911985 ATACATTGAAAAATGTATCGATACAT
1 ATACATTGAAAAATGTATCGATACAT
912011 CTGGGTAAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 22
0.71 0.08 0.20
Matches are distributed among these distances:
30 7 0.09
31 12 0.16
33 1 0.01
34 2 0.03
35 4 0.05
36 4 0.05
37 2 0.03
38 1 0.01
40 37 0.48
41 7 0.09
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.30
Consensus pattern (38 bp):
ATACATTGAAAAATGTATCGATACATTCATACATGATG
Found at i:911981 original size:91 final size:91
Alignment explanation
Indices: 911834--912010 Score: 241
Period size: 91 Copynumber: 1.9 Consensus size: 91
911824 TACATTATTC
*
911834 AATGTATCGATACATCTAGGTAAAAAGACAAAATGTATCAATACATTGAAGAATGTATCGATACA
1 AATGTATCGATACATCTAGGTAAAAAGACAAAATGTATCAATACATTCAAGAATGTATCGATACA
* *
911899 TTCATACATGCATCGATACATTGAAA
66 TTCAAAAATGCATCGATACATTGAAA
* * * *
911925 AATGTATCGATACATCT-GGATAAAAAGACAAGATGTATCGATACATTCATA-CATGTATTGATA
1 AATGTATCGATACATCTAGG-TAAAAAGACAAAATGTATCAATACATTCA-AGAATGTATCGATA
* *
911988 CATTGAAAAATGTATCGATACAT
64 CATTCAAAAATGCATCGATACAT
912011 CTGGGTAAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
90 2 0.03
91 72 0.96
92 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.29
Consensus pattern (91 bp):
AATGTATCGATACATCTAGGTAAAAAGACAAAATGTATCAATACATTCAAGAATGTATCGATACA
TTCAAAAATGCATCGATACATTGAAA
Found at i:911982 original size:20 final size:20
Alignment explanation
Indices: 911957--912010 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
911947 AAAAGACAAG
* *
911957 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTCAAAA
* *
911977 ATGTATTGATACATTGAAAA
1 ATGTATCGATACATTCAAAA
911997 ATGTATCGATACAT
1 ATGTATCGATACAT
912011 CTGGGTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTCAAAA
Found at i:912065 original size:72 final size:72
Alignment explanation
Indices: 911883--912092 Score: 316
Period size: 72 Copynumber: 2.9 Consensus size: 72
911873 AATACATTGA
* *
911883 AGAATGTATCGATACATTCATACATGCATCGATACATTGAAAAATGTATCGATACATCTGGAT-A
1 AGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAA
911947 AAAAGAC
66 AAAAGAC
*
911954 A-AGATGTATCGATACATTCATACATGTATTGATACATTGAAAAATGTATCGATACATCTGGGTA
1 AGA-ATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTA
*
912018 AAAAAGAT
65 AAAAAGAC
* * * * *
912026 AGAATGTATCCATACATTTATACATATATCGATATATTGAAAAATATATCGATACATCTGGGTAA
1 AGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAA
912091 AA
66 AA
912093 GTGTGACTTT
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
70 1 0.01
71 58 0.46
72 66 0.52
73 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (72 bp):
AGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAA
AAAAGAC
Found at i:915924 original size:18 final size:19
Alignment explanation
Indices: 915887--915940 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
915877 ACACCAACTC
915887 AATAAATAAATTACTTAAAAAT
1 AATAAATAAA--A-TTAAAAAT
*
915909 GA-AAATAAAATT-AAAAT
1 AATAAATAAAATTAAAAAT
915926 AATAAATAAAATTAA
1 AATAAATAAAATTAA
915941 GGATGTATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
17 6 0.21
18 12 0.43
19 2 0.07
21 7 0.25
22 1 0.04
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (19 bp):
AATAAATAAAATTAAAAAT
Found at i:916551 original size:32 final size:29
Alignment explanation
Indices: 916509--916569 Score: 77
Period size: 32 Copynumber: 2.0 Consensus size: 29
916499 TTAATCAATA
*
916509 AAAAATAATTAAAATTTTATTTTTTTATTTTT
1 AAAAATAATTAAAA--ATA-TTTTTTATTTTT
*
916541 AAAATTAATTAAAAATATTTTTTATTTTT
1 AAAAATAATTAAAAATATTTTTTATTTTT
916570 GATAAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 12 0.44
30 2 0.07
32 13 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
AAAAATAATTAAAAATATTTTTTATTTTT
Found at i:916561 original size:28 final size:28
Alignment explanation
Indices: 916527--916612 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 28
916517 TTAAAATTTT
916527 ATTTTTTTATTTTTAAAATTAATTAAAA
1 ATTTTTTTATTTTTAAAATTAATTAAAA
* *
916555 ATATTTTTTATTTTTGATAA--AATT-TAA
1 AT-TTTTTTATTTTT-AAAATTAATTAAAA
* *
916582 A-TTTTTAATCTCTTAAAATTAATTAAAA
1 ATTTTTTTAT-TTTTAAAATTAATTAAAA
916610 ATT
1 ATT
916613 AAATTATTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
25 10 0.22
26 3 0.07
27 7 0.16
28 9 0.20
29 13 0.29
30 3 0.07
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (28 bp):
ATTTTTTTATTTTTAAAATTAATTAAAA
Found at i:916738 original size:14 final size:14
Alignment explanation
Indices: 916718--916750 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
916708 AAATGAGTCG
*
916718 ATTAATTTAA-TAA
1 ATTAAATTAATTAA
916731 ATTAAATTAATTAA
1 ATTAAATTAATTAA
916745 ATTAAA
1 ATTAAA
916751 AATAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATTAAATTAATTAA
Found at i:917334 original size:28 final size:27
Alignment explanation
Indices: 917302--917365 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
917292 TATTCACCTT
*
917302 ATTTATATTTTTATTATAT-TATAATAA
1 ATTTATATTATT-TTATATGTATAATAA
* *
917329 CATTTAAATTATTTTATATGTATTATAA
1 -ATTTATATTATTTTATATGTATAATAA
917357 ATTTTATAT
1 A-TTTATAT
917366 ATTAATAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 7 0.23
28 23 0.77
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
ATTTATATTATTTTATATGTATAATAA
Found at i:917410 original size:33 final size:32
Alignment explanation
Indices: 917341--917415 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
917331 TTTAAATTAT
*
917341 TTTATATGTATTATAAATTTTATATATTAATAA
1 TTTATAT-TATTATAAATTTTAAATATTAATAA
917374 TTTATATTA-TATAAATTTTAAA-ATATATATACA
1 TTTATATTATTATAAATTTTAAATAT-TA-ATA-A
917407 TTTATATTA
1 TTTATATTA
917416 AATTTATTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
30 2 0.05
31 14 0.37
32 5 0.13
33 17 0.45
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (32 bp):
TTTATATTATTATAAATTTTAAATATTAATAA
Found at i:918690 original size:11 final size:11
Alignment explanation
Indices: 918674--918698 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
918664 TGAATTCATG
918674 TTTCTTTTTTT
1 TTTCTTTTTTT
918685 TTTCTTTTTTT
1 TTTCTTTTTTT
918696 TTT
1 TTT
918699 TTTGGCTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:922860 original size:2 final size:2
Alignment explanation
Indices: 922853--922891 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
922843 GCAGCAAGAT
*
922853 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
922892 TGTGACATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:924724 original size:2 final size:2
Alignment explanation
Indices: 924717--924759 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
924707 AAGTTTCATC
924717 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
924759 T
1 T
924760 CTTATGTCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:927590 original size:5 final size:5
Alignment explanation
Indices: 927580--927604 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
927570 GCAGGTGTTT
927580 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
927605 ATATATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:927979 original size:10 final size:10
Alignment explanation
Indices: 927919--927979 Score: 52
Period size: 10 Copynumber: 6.2 Consensus size: 10
927909 ATCAATATAT
927919 ATTAATATTA
1 ATTAATATTA
**
927929 ACCAATATTA
1 ATTAATATTA
* *
927939 ATTAAAATAA
1 ATTAATATTA
* *
927949 ATTATTATAA
1 ATTAATATTA
*
927959 ATTGATA-TA
1 ATTAATATTA
927968 ATTAATATTA
1 ATTAATATTA
927978 AT
1 AT
927980 CGATACAAAA
Statistics
Matches: 38, Mismatches: 12, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
9 7 0.18
10 31 0.82
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (10 bp):
ATTAATATTA
Found at i:929241 original size:19 final size:19
Alignment explanation
Indices: 929217--929273 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
929207 AAATAATTTC
929217 AAAATAAAATAACATAAAT
1 AAAATAAAATAACATAAAT
*
929236 AAAATACAAAT-ACATGAAT
1 AAAATA-AAATAACATAAAT
929255 -AAATCAAAATATACATAAA
1 AAAAT-AAAATA-ACATAAA
929274 ATGAGTTATC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 8 0.25
19 14 0.44
20 10 0.31
ACGTcount: A:0.68, C:0.09, G:0.02, T:0.21
Consensus pattern (19 bp):
AAAATAAAATAACATAAAT
Found at i:929739 original size:21 final size:22
Alignment explanation
Indices: 929703--929744 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
929693 AACAACATTC
929703 AATTTATATTTGTTATTAATAT
1 AATTTATATTTGTTATTAATAT
*
929725 AATTTA-ATTTTTTATTAATA
1 AATTTATATTTGTTATTAATA
929745 AGATCAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
AATTTATATTTGTTATTAATAT
Found at i:930224 original size:20 final size:19
Alignment explanation
Indices: 930180--930224 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
930170 TCTACCAAAG
**
930180 AAAAAACATGAAAATTAAA
1 AAAAAACAAAAAAATTAAA
*
930199 ATAAAACAAAAAAGATTAAA
1 AAAAAACAAAAAA-ATTAAA
930219 AAAAAA
1 AAAAAA
930225 ATGCAGGATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.13
Consensus pattern (19 bp):
AAAAAACAAAAAAATTAAA
Found at i:935152 original size:37 final size:36
Alignment explanation
Indices: 935101--935176 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 36
935091 GTACTTAAAT
* *
935101 AAAATGTATATATATGATAAATAATTA-AAAATTATTA
1 AAAATATATATATAT--TAAATAATAAGAAAATTATTA
*
935138 AAAATATATTTATATTAAATAATAAGTAAAATTATTA
1 AAAATATATATATATTAAATAATAAG-AAAATTATTA
935175 AA
1 AA
935177 TTAAAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 9 0.26
37 25 0.74
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (36 bp):
AAAATATATATATATTAAATAATAAGAAAATTATTA
Found at i:936746 original size:31 final size:31
Alignment explanation
Indices: 936678--936781 Score: 102
Period size: 31 Copynumber: 3.3 Consensus size: 31
936668 TTTAATGATC
* * * * *
936678 ATCAAACTTATAAATAATTGTGCTTAATATTT
1 ATCAAATTTACAAGTAATTTTG-TTAATATTA
* *
936710 TTCAAATTTA-AAGTAATTATTGTTATTATTA
1 ATCAAATTTACAAGTAATT-TTGTTAATATTA
* *
936741 ATCAAATTTACAAGTAATTTTTTTAATATTG
1 ATCAAATTTACAAGTAATTTTGTTAATATTA
936772 ATCAAATTTA
1 ATCAAATTTA
936782 TTCGTAATTA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
31 42 0.70
32 18 0.30
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (31 bp):
ATCAAATTTACAAGTAATTTTGTTAATATTA
Found at i:936790 original size:31 final size:32
Alignment explanation
Indices: 936701--936781 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 32
936691 ATAATTGTGC
**
936701 TTAATATTTTTCAAATTTA-AAGTAATTATTG
1 TTAATATTAATCAAATTTACAAGTAATTATTG
* *
936732 TTATTATTAATCAAATTTACAAGTAATT-TTT
1 TTAATATTAATCAAATTTACAAGTAATTATTG
*
936763 TTAATATTGATCAAATTTA
1 TTAATATTAATCAAATTTA
936782 TTCGTAATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 35 0.81
32 8 0.19
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (32 bp):
TTAATATTAATCAAATTTACAAGTAATTATTG
Found at i:937268 original size:29 final size:29
Alignment explanation
Indices: 937189--937269 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 29
937179 ATGTCATATA
* **
937189 TATTAAAGTATTATTAATTTTTGAATAAAT
1 TATTAAAATATTATT-ATTTTAAAATAAAT
* *
937219 TATCAAAATAATT-TTAATTTAAAATAAAT
1 TATTAAAAT-ATTATTATTTTAAAATAAAT
937248 TATTAAAATATTATTATTTTAA
1 TATTAAAATATTATTATTTTAA
937270 CTTATGAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
28 3 0.07
29 27 0.64
30 9 0.21
31 3 0.07
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (29 bp):
TATTAAAATATTATTATTTTAAAATAAAT
Found at i:937403 original size:17 final size:18
Alignment explanation
Indices: 937381--937425 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
937371 CAACGATTTT
937381 TATTATTATTAT-TATAA
1 TATTATTATTATGTATAA
*
937398 TATTATTATT-TGTTTAA
1 TATTATTATTATGTATAA
*
937415 TAATATTATTA
1 TATTATTATTA
937426 AAATTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 1 0.04
17 23 0.96
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TATTATTATTATGTATAA
Found at i:937405 original size:20 final size:20
Alignment explanation
Indices: 937380--937435 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
937370 TCAACGATTT
937380 TTATTATTATTATTATAATA
1 TTATTATTATTATTATAATA
937400 TTATTATT-TGT-TTAATAATA
1 TTATTATTAT-TATT-ATAATA
**
937420 TTATTAAAATTATTAT
1 TTATTATTATTATTAT
937436 TATGTTCGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
19 3 0.10
20 24 0.80
21 3 0.10
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTATTATTATTATTATAATA
Found at i:937486 original size:20 final size:19
Alignment explanation
Indices: 937455--937497 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
937445 ATTTTTTAAA
* *
937455 ATTAATAAAAAATTATATT
1 ATTAATAAAAAATAATAAT
937474 ATTAATAAAAAAATAATAAT
1 ATTAAT-AAAAAATAATAAT
937494 ATTA
1 ATTA
937498 TTTTAAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTAATAAAAAATAATAAT
Found at i:942335 original size:21 final size:22
Alignment explanation
Indices: 942291--942335 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
942281 TAAATTCTAA
* *
942291 TATTTTTTGTTTTAATCATTTT
1 TATTTTTTGTTATAATCATATT
*
942313 TATTTTTT-TTATAATTATATT
1 TATTTTTTGTTATAATCATATT
942334 TA
1 TA
942336 AAATAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (22 bp):
TATTTTTTGTTATAATCATATT
Found at i:942445 original size:15 final size:16
Alignment explanation
Indices: 942405--942448 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
942395 TTATTCATGG
*
942405 TTAAAATTTTTAACTA
1 TTAAAATTTATAACTA
*
942421 TTAAATATTTATAA-TT
1 TTAAA-ATTTATAACTA
942437 TTAAAATTTATA
1 TTAAAATTTATA
942449 TTAATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.28
16 11 0.44
17 7 0.28
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAAAATTTATAACTA
Found at i:947505 original size:20 final size:20
Alignment explanation
Indices: 947480--947550 Score: 108
Period size: 20 Copynumber: 3.5 Consensus size: 20
947470 TTTTCACAAT
947480 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
947500 TTGTATCGATACATT-TTGCA
1 TTGTATCGATACATTGTT-CA
* *
947520 TTGTATCGATCCATTGCTCA
1 TTGTATCGATACATTGTTCA
947540 TTGTATCGATA
1 TTGTATCGATA
947551 TATTCAGGCA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
19 2 0.04
20 43 0.93
21 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:949898 original size:51 final size:51
Alignment explanation
Indices: 949842--949980 Score: 138
Period size: 51 Copynumber: 2.7 Consensus size: 51
949832 ATTTTTTATC
* ** **
949842 TCGGGGATACTCCAA-TCCCGGTTCTATTTCTAAAACATCAATTTTTCTTAA
1 TCGGGGATACTCCAACT-CCGATTCTATTTCTAAAACATCAATTTACCGCAA
* * * **
949893 TCGGGGATACTCTAACTCCGATTTTATTTCTAAAGCATTGATTTACCGCAA
1 TCGGGGATACTCCAACTCCGATTCTATTTCTAAAACATCAATTTACCGCAA
* *
949944 TCGGGGATACTCCAACTCCAATTTTATTT-TCAAAACA
1 TCGGGGATACTCCAACTCCGATTCTATTTCT-AAAACA
949981 CCAAGTTTTC
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
50 1 0.01
51 71 0.97
52 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTCTATTTCTAAAACATCAATTTACCGCAA
Found at i:950196 original size:51 final size:50
Alignment explanation
Indices: 950136--950249 Score: 144
Period size: 51 Copynumber: 2.2 Consensus size: 50
950126 TTTTTCGAGA
* *
950136 GGATACTCCAACAT-CGATTTTA-TTTCTAAA-ATACTAATTTTTCACAATTGG
1 GGATACTCCAAC-TCCGATTTTATTTTC-AAACAT-C-AATTTCTCACAATCGG
950187 GGATACTCCAACTCCGATTTTATTTTCAAAGCATCAATTTCTCACAATCGG
1 GGATACTCCAACTCCGATTTTATTTTCAAA-CATCAATTTCTCACAATCGG
950238 GGATACTCCAAC
1 GGATACTCCAAC
950250 CCCGTTATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
50 1 0.02
51 49 0.86
52 5 0.09
53 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (50 bp):
GGATACTCCAACTCCGATTTTATTTTCAAACATCAATTTCTCACAATCGG
Found at i:952244 original size:91 final size:93
Alignment explanation
Indices: 952123--952408 Score: 223
Period size: 93 Copynumber: 3.1 Consensus size: 93
952113 TTCAACTGTG
* * * *
952123 ACATTTACAATCAATCAACTTTCTACTTTTT-T-ATCAATAGGAATCTGATTCTCAAATATAA-T
1 ACATTTACAATCAATCAACTTTCTACTTTTTCTAACCAAAAAGAATATGATTCTCAAATATAATT
*
952185 CTATGCATTAGTCTAATCTTTGCAGTCTA
66 C-ATGCATCAGTCTAATCTTTGCAGTCTA
** * * *
952214 ACATTTACAATCAATTGACTTATCT-TTTTTTCTAACCAAAAAGAATATGATTTTCATATATAAT
1 ACATTTACAATCAATCAACTT-TCTACTTTTTCTAACCAAAAAGAATATGATTCTCAAATATAAT
* * * *
952278 TCATGCATCAGTCTAAT-TCTTACAATTTG
65 TCATGCATCAGTCTAATCT-TTGCAGTCTA
* * * * * * ** *
952307 ACATTTACAATTAATCAAATTTTCT-TTTTTTCT-ACCAAAAGGAATTTGATTCTTAGGTACAAT
1 ACATTTACAATCAATC-AACTTTCTACTTTTTCTAACCAAAAAGAATATGATTCTCAAATATAAT
* * *
952370 TCATGCATTAG-CTTATCCTTT--AGTCTG
65 TCATGCATCAGTCTAAT-CTTTGCAGTCTA
952397 ACATTTACAATC
1 ACATTTACAATC
952409 CATACATTAC
Statistics
Matches: 157, Mismatches: 30, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
90 15 0.10
91 28 0.18
92 40 0.25
93 69 0.44
94 5 0.03
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (93 bp):
ACATTTACAATCAATCAACTTTCTACTTTTTCTAACCAAAAAGAATATGATTCTCAAATATAATT
CATGCATCAGTCTAATCTTTGCAGTCTA
Found at i:952547 original size:103 final size:102
Alignment explanation
Indices: 952417--952622 Score: 306
Period size: 103 Copynumber: 2.0 Consensus size: 102
952407 TCCATACATT
*
952417 ACTCTTATCAATTTTTTCATATCAGAAGGAATCTGATTCCCATAAAAAATCTATGCATTAAGCAT
1 ACTCTTATCAATTTTTTCATATCAGAAGGAATCTGATTCCCATAAAAAATCTATACATTAAGCAT
* *
952482 TAATTTTATCAACTTATTTCATATCAGAAA-GAATCTG
66 CAATCTTATCAACTTATTTCATATCA-AAAGGAATCTG
* *
952519 ACTCTTATCAATTTTTTTCATATCAGAAGGAATTTGATTCCCATAAAAAATCTATACATTATGCA
1 ACTCTTATCAA-TTTTTTCATATCAGAAGGAATCTGATTCCCATAAAAAATCTATACATTAAGCA
* * * *
952584 TCAGTCTTCTCAACTTCTTTCATATTAAAAGGAATCTG
65 TCAATCTTATCAACTTATTTCATATCAAAAGGAATCTG
952622 A
1 A
952623 TTCCCATCCG
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
102 14 0.15
103 79 0.85
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (102 bp):
ACTCTTATCAATTTTTTCATATCAGAAGGAATCTGATTCCCATAAAAAATCTATACATTAAGCAT
CAATCTTATCAACTTATTTCATATCAAAAGGAATCTG
Found at i:952909 original size:39 final size:36
Alignment explanation
Indices: 952852--952949 Score: 88
Period size: 39 Copynumber: 2.6 Consensus size: 36
952842 CATCAGTCAT
* ** *
952852 ATCTTTTGAATTTTAATAAAAAATTCATATATTATTCA
1 ATCTTTTAAATTCCAATAAAAAATTCATA-ATTACT-A
* *
952890 CATCTTTTAAATTCCAATAAATAATTTATAATTACTA
1 -ATCTTTTAAATTCCAATAAAAAATTCATAATTACTA
* *
952927 ATTCTTTCAAAATCCAATAAAAA
1 A-TCTTTTAAATTCCAATAAAAA
952950 CTTTATGCAT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
36 1 0.02
37 19 0.39
38 5 0.10
39 24 0.49
ACGTcount: A:0.45, C:0.12, G:0.01, T:0.42
Consensus pattern (36 bp):
ATCTTTTAAATTCCAATAAAAAATTCATAATTACTA
Found at i:953268 original size:3 final size:3
Alignment explanation
Indices: 953260--953300 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
953250 GAATTAAAAA
953260 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
953301 AAAAAACCCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:953568 original size:5 final size:5
Alignment explanation
Indices: 953558--953591 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
953548 ATTATAAAAA
*
953558 ATTTT ATTTT ATTTT ATTTT ATTAT ATTTT -TTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
953592 GGTATTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:953978 original size:19 final size:21
Alignment explanation
Indices: 953954--953992 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
953944 CCTTAATGTA
953954 ATTTTGGT-AATTTT-ATATG
1 ATTTTGGTAAATTTTGATATG
953973 ATTTTGGTAAATTTTGATAT
1 ATTTTGGTAAATTTTGATAT
953993 AATATTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 6 0.33
21 4 0.22
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.56
Consensus pattern (21 bp):
ATTTTGGTAAATTTTGATATG
Found at i:954100 original size:137 final size:137
Alignment explanation
Indices: 953946--954204 Score: 464
Period size: 137 Copynumber: 1.9 Consensus size: 137
953936 TTTGTTAACC
* * *
953946 TTAATGTAATTTTGGTAATTTTATATGATTTTGGTAAATTTTGATATAATATTGATTACCTTTTA
1 TTAATGTAATTTTGGTAATTTTAGATGATTTTGGTAAACTTTGATATAATATTGATTAACTTTTA
* *
954011 TATAATTTAAGTAAGCTTTAATATAATTTTCTATGACTTTTGATATAATTTTTTATATAACCTTG
66 TAAAATTTAAGTAAGCTTTAATATAATTTTCTATAACTTTTGATATAATTTTTTATATAACCTTG
954076 ATAAGTT
131 ATAAGTT
954083 TTAATGTAATTTTGGTAATTTTAGATGATTTTGGTAAACTTTGATATAATATTGATTAACTTTTA
1 TTAATGTAATTTTGGTAATTTTAGATGATTTTGGTAAACTTTGATATAATATTGATTAACTTTTA
*
954148 TAAAATTTAAGTAAGCTTTGATATAATTTTCTATAACTTTTGATATAATTTTTTATA
66 TAAAATTTAAGTAAGCTTTAATATAATTTTCTATAACTTTTGATATAATTTTTTATA
954205 ACCTTTGATA
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 116 1.00
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (137 bp):
TTAATGTAATTTTGGTAATTTTAGATGATTTTGGTAAACTTTGATATAATATTGATTAACTTTTA
TAAAATTTAAGTAAGCTTTAATATAATTTTCTATAACTTTTGATATAATTTTTTATATAACCTTG
ATAAGTT
Found at i:954192 original size:22 final size:22
Alignment explanation
Indices: 954122--954297 Score: 105
Period size: 21 Copynumber: 8.0 Consensus size: 22
954112 TTTGGTAAAC
* * *
954122 TTTGATATAATATTGATTAACT
1 TTTGATATAATTTTCAATAACT
*
954144 TTT-ATA-AAATTT-AAGTAAGC-
1 TTTGATATAATTTTCAA-TAA-CT
*
954164 TTTGATATAATTTTCTATAACT
1 TTTGATATAATTTTCAATAACT
** *
954186 TTTGATATAATTTTTTATAACC
1 TTTGATATAATTTTCAATAACT
*
954208 TTTGATAAAATTTTTGGTTTCAATAACT
1 TTTGATATAA----T--TTTCAATAACT
* *
954236 TTTAATA-AAATTTCAATAACT
1 TTTGATATAATTTTCAATAACT
*
954257 TTTGAAATAA-TTTCAATAACT
1 TTTGATATAATTTTCAATAACT
* *
954278 ATTGATATAATGTT-AATAAC
1 TTTGATATAATTTTCAATAAC
954298 ATTGTAATAG
Statistics
Matches: 122, Mismatches: 18, Indels: 29
0.72 0.11 0.17
Matches are distributed among these distances:
19 1 0.01
20 10 0.08
21 49 0.40
22 44 0.36
23 1 0.01
26 1 0.01
27 2 0.02
28 14 0.11
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (22 bp):
TTTGATATAATTTTCAATAACT
Found at i:954478 original size:21 final size:21
Alignment explanation
Indices: 954435--954480 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
954425 CCAATATGAT
* *
954435 TTTTGATAATATTTTATATAA
1 TTTTGATAATATTTTAAAAAA
954456 TTTTGATAAT-TTTTAAAAAA
1 TTTTGATAATATTTTAAAAAA
*
954476 ATTTG
1 TTTTG
954481 CTAACTTTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (21 bp):
TTTTGATAATATTTTAAAAAA
Found at i:954533 original size:62 final size:64
Alignment explanation
Indices: 954428--954567 Score: 153
Period size: 62 Copynumber: 2.2 Consensus size: 64
954418 GGTAACTCCA
* * * ** *
954428 ATATGATTTTTGATAATATTTTATATAATTTTGATAATTTTTAA-AAAAATTTGCTAA-CTTTCG
1 ATATGAATTTTGATAATATTTAATATAATCTTGATAACATTTAATAAAAATTTACTAATCTTT-G
* * * *
954491 ATATGAATTTT-ATAATCTTTAATATAATCTTGATAGCATTTAATAAAAGTTTATTAATCTTTG
1 ATATGAATTTTGATAATATTTAATATAATCTTGATAACATTTAATAAAAATTTACTAATCTTTG
954554 ATATG-ATTTTGATA
1 ATATGAATTTTGATA
954568 GCATTTGCTA
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
62 31 0.48
63 29 0.45
64 4 0.06
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (64 bp):
ATATGAATTTTGATAATATTTAATATAATCTTGATAACATTTAATAAAAATTTACTAATCTTTG
Found at i:954586 original size:42 final size:43
Alignment explanation
Indices: 954491--954586 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 43
954481 CTAACTTTCG
954491 ATATGAATTT-TATAATCTTTAATATAATCTTGATAGCATTTA
1 ATATGAATTTATATAATCTTTAATATAATCTTGATAGCATTTA
* * * * *
954533 ATA-AAAGTTTAT-TAATCTTTGATATGATTTTGATAGCATTTG
1 ATATGAA-TTTATATAATCTTTAATATAATCTTGATAGCATTTA
*
954575 CTATGAATTTAT
1 ATATGAATTTAT
954587 CATTAAGATG
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
41 2 0.05
42 39 0.89
43 3 0.07
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (43 bp):
ATATGAATTTATATAATCTTTAATATAATCTTGATAGCATTTA
Found at i:954824 original size:31 final size:31
Alignment explanation
Indices: 954789--954882 Score: 97
Period size: 31 Copynumber: 3.1 Consensus size: 31
954779 TAATATAATT
*
954789 TTAATAACCTTTAATATAATCTTAGTAATAA
1 TTAATAACTTTTAATATAATCTTAGTAATAA
* * *
954820 TTAATATAATTTTGATA-ACAT-TT-GAAATAA
1 TTAATA-ACTTTTAATATA-ATCTTAGTAATAA
954850 TTTAATAACTTTTAATATAATCTTA-TAATAA
1 -TTAATAACTTTTAATATAATCTTAGTAATAA
954881 TT
1 TT
954883 TTAATAAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
30 18 0.36
31 23 0.46
32 9 0.18
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (31 bp):
TTAATAACTTTTAATATAATCTTAGTAATAA
Found at i:954965 original size:10 final size:10
Alignment explanation
Indices: 954781--954971 Score: 83
Period size: 11 Copynumber: 18.3 Consensus size: 10
954771 ATTACTATTA
954781 ATATAATTTT
1 ATATAATTTT
*
954791 A-ATAACCTTTA
1 ATATAA--TTTT
*
954802 ATATAATCTT
1 ATATAATTTT
*
954812 AGTAATAA-TTA
1 A-T-ATAATTTT
954823 ATATAATTTT
1 ATATAATTTT
*
954833 GATA-ACATTTG
1 -ATATA-ATTTT
*
954844 AAATAA-TTT
1 ATATAATTTT
954853 A-ATAACTTTT
1 ATATAA-TTTT
*
954863 AATATAATCTT
1 -ATATAATTTT
954874 ATAATAATTTT
1 AT-ATAATTTT
*
954885 AATAAAATTTGT
1 -ATATAATTT-T
*
954897 A-ATAATATT
1 ATATAATTTT
*
954906 AGTA-ACATTTG
1 A-TATA-ATTTT
954917 ATATAATTTT
1 ATATAATTTT
*
954927 A-ATAAAATTT
1 ATAT-AATTTT
954937 ATAATAATTTT
1 AT-ATAATTTT
954948 AATATAATTTT
1 -ATATAATTTT
*
954959 ATTTAATTTT
1 ATATAATTTT
954969 ATA
1 ATA
954972 CAAACACATA
Statistics
Matches: 136, Mismatches: 21, Indels: 48
0.66 0.10 0.23
Matches are distributed among these distances:
8 4 0.03
9 15 0.11
10 46 0.34
11 52 0.38
12 19 0.14
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (10 bp):
ATATAATTTT
Found at i:954965 original size:21 final size:20
Alignment explanation
Indices: 954755--954969 Score: 157
Period size: 21 Copynumber: 10.2 Consensus size: 20
954745 TTGTTATGGC
* *
954755 TTTTGATATAATTTTAATTAC
1 TTTTAATATAATTTTAA-TAA
*
954776 TATTAATATAATTTTAATAA
1 TTTTAATATAATTTTAATAA
* * *
954796 CCTTTAATATAATCTTAGTAA
1 -TTTTAATATAATTTTAATAA
* *
954817 TAATTAATATAATTTTGATAACA
1 T-TTTAATATAATTTTAAT-A-A
*
954840 TTTGAA-ATAA-TTTAATAA
1 TTTTAATATAATTTTAATAA
954858 CTTTTAATATAATCTTATAATAA
1 -TTTTAATATAAT-TT-TAATAA
*
954881 TTTTAATAAAATTTGTAATAA
1 TTTTAATATAATTT-TAATAA
* * *
954902 TATTAGTA-ACATTTGATATAA
1 TTTTAATATA-ATTTTA-ATAA
*
954923 TTTTAATAAAATTTATAATAA
1 TTTTAATATAATTT-TAATAA
*
954944 TTTTAATATAATTTTATTTAA
1 TTTTAATATAATTTTA-ATAA
954965 TTTTA
1 TTTTA
954970 TACAAACACA
Statistics
Matches: 154, Mismatches: 26, Indels: 28
0.74 0.12 0.13
Matches are distributed among these distances:
18 1 0.01
19 6 0.04
20 15 0.10
21 105 0.68
22 19 0.12
23 8 0.05
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (20 bp):
TTTTAATATAATTTTAATAA
Found at i:954970 original size:32 final size:32
Alignment explanation
Indices: 954783--954971 Score: 89
Period size: 32 Copynumber: 6.0 Consensus size: 32
954773 TACTATTAAT
* *
954783 ATAATTTTA-ATAACCTTTA-ATATAATCTTAGTA
1 ATAATTTTATATAA-TTTTATA-ATAATTTTA-TA
* * *
954816 ATAA-TTAATATAATTTTGATAA-CATTTGA-A
1 ATAATTTTATATAATTTT-ATAATAATTTTATA
*
954846 ATAA-TTTA-ATAACTTTTA-ATATAATCTTATA
1 ATAATTTTATATAA-TTTTATA-ATAATTTTATA
* * *
954877 ATAATTTTA-ATAAAATTTGTAATAATATTAGTA
1 ATAATTTTATAT-AATTTTATAATAATTTTA-TA
* *
954910 A-CATTTGATATAATTTTAATAA-AA-TTTATA
1 ATAATTTTATATAATTTT-ATAATAATTTTATA
*
954940 ATAATTTTAATATAATTTTAT-TTAATTTTATA
1 ATAATTTT-ATATAATTTTATAATAATTTTATA
954972 CAAACACATA
Statistics
Matches: 119, Mismatches: 20, Indels: 35
0.68 0.11 0.20
Matches are distributed among these distances:
28 1 0.01
29 6 0.05
30 19 0.16
31 16 0.13
32 55 0.46
33 21 0.18
34 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (32 bp):
ATAATTTTATATAATTTTATAATAATTTTATA
Found at i:955840 original size:25 final size:25
Alignment explanation
Indices: 955802--955866 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 25
955792 ATTTTATTCT
955802 TTATAT-AATAAAAATTACATA-ATA
1 TTATATAAATAAAAATTA-ATATATA
955826 -TATATAAATACAAAATTAATATATA
1 TTATATAAATA-AAAATTAATATATA
*
955851 TTATATAATTAAAAAT
1 TTATATAAATAAAAAT
955867 AGATTAGGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
23 5 0.14
24 7 0.19
25 15 0.42
26 9 0.25
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (25 bp):
TTATATAAATAAAAATTAATATATA
Found at i:958575 original size:75 final size:75
Alignment explanation
Indices: 958389--958616 Score: 300
Period size: 75 Copynumber: 3.0 Consensus size: 75
958379 GATGAAATGA
* * * * *
958389 TAATCCGAGATAATTTGCATC-ATAATTATAATCAATAAATGTTAC-AGCATATTTCACAATATT
1 TAATCCGAGATAATCTGCA-CGATAATTATAATCAACAAATGTTTCTA-CATATTTCACATTACT
*
958452 ACTATCTAA-ACCC
64 ACTATC-AACA-AC
*
958465 TAATCCGAGATAATCTGCACGATAATTATAATCAACAAATGTTTCTACATATTTCACATTGCTAC
1 TAATCCGAGATAATCTGCACGATAATTATAATCAACAAATGTTTCTACATATTTCACATTACTAC
958530 TATCAACAAC
66 TATCAACAAC
* * * *
958540 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATATTTCTGCATATTTCACATTACTAC
1 TAATCCGAGATAATCTGCACGATAATTATAATCAACAAATGTTTCTACATATTTCACATTACTAC
958605 TATCAACAAC
66 TATCAACAAC
958615 TA
1 TA
958617 TAATTAATAA
Statistics
Matches: 137, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
75 76 0.55
76 60 0.44
77 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (75 bp):
TAATCCGAGATAATCTGCACGATAATTATAATCAACAAATGTTTCTACATATTTCACATTACTAC
TATCAACAAC
Found at i:958610 original size:36 final size:36
Alignment explanation
Indices: 958495--958613 Score: 105
Period size: 36 Copynumber: 3.2 Consensus size: 36
958485 GATAATTATA
* * *
958495 ATCAACAAATGTTTCTACATATTTCACATTGCTACT
1 ATCAACAAATATTTCTGCATATTTCACATTACTACT
* * * * * * *
958531 ATCAACAACTA-ATCCGAGATAATCTGCACGATAACTACA
1 ATCAACAAATATTTCTG-CAT-AT-TTCAC-ATTACTACT
958570 ATCAACAAATATTTCTGCATATTTCACATTACTACT
1 ATCAACAAATATTTCTGCATATTTCACATTACTACT
958606 ATCAACAA
1 ATCAACAA
958614 CTATAATTAA
Statistics
Matches: 61, Mismatches: 17, Indels: 10
0.69 0.19 0.11
Matches are distributed among these distances:
35 2 0.03
36 26 0.43
37 6 0.10
38 6 0.10
39 18 0.30
40 3 0.05
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.31
Consensus pattern (36 bp):
ATCAACAAATATTTCTGCATATTTCACATTACTACT
Found at i:959067 original size:15 final size:15
Alignment explanation
Indices: 959045--959085 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
959035 TGGGTAAACA
959045 GGTGGTGGATGCACG
1 GGTGGTGGATGCACG
*
959060 GGTTGTGGATGCACG
1 GGTGGTGGATGCACG
959075 GGTGGTGGATG
1 GGTGGTGGATG
959086 GATAGGATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.12, C:0.10, G:0.54, T:0.24
Consensus pattern (15 bp):
GGTGGTGGATGCACG
Found at i:965071 original size:14 final size:15
Alignment explanation
Indices: 965052--965155 Score: 56
Period size: 14 Copynumber: 6.7 Consensus size: 15
965042 GATAAAAAAT
*
965052 AATATATATCATA-A
1 AATATATATAATATA
965066 AATATATATAATATA
1 AATATATATAATATA
965081 AAT-TATATAAATATTAA
1 AATATATAT-AATA-T-A
*
965098 AATTTATATAAATATTA
1 AATATATAT-AATA-TA
*
965115 AA-ATA-ATTATA-A
1 AATATATATAATATA
* *
965127 AATAATAAAAAAATATA
1 AAT-AT-ATATAATATA
965144 AATATGATATAA
1 AATAT-ATATAA
965156 ATTTATGTAT
Statistics
Matches: 72, Mismatches: 8, Indels: 18
0.73 0.08 0.18
Matches are distributed among these distances:
12 3 0.04
14 22 0.31
15 11 0.15
16 13 0.18
17 11 0.15
18 12 0.17
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.37
Consensus pattern (15 bp):
AATATATATAATATA
Found at i:965074 original size:18 final size:17
Alignment explanation
Indices: 965047--965119 Score: 71
Period size: 16 Copynumber: 4.4 Consensus size: 17
965037 GATAAGATAA
965047 AAAATA-ATATATATCAT
1 AAAATATATATATAT-AT
965064 AAAATATATATA-ATAT
1 AAAATATATATATATAT
* *
965080 AAATTATATAAATAT-T
1 AAAATATATATATATAT
* *
965096 AAAATTTATATAAATATT
1 AAAATATATATATATA-T
965114 AAAATA
1 AAAATA
965120 ATTATAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
16 24 0.53
17 10 0.22
18 11 0.24
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATATATATATATAT
Found at i:965125 original size:18 final size:18
Alignment explanation
Indices: 965086--965148 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
965076 ATATAAATTA
*
965086 TATAAATATTAAAAT-TT
1 TATAAATATTAAAATAAT
965103 ATATAAATATTAAAATAAT
1 -TATAAATATTAAAATAAT
* *
965122 TATAAAATAATAAAA-AAA
1 TAT-AAATATTAAAATAAT
965140 TATAAATAT
1 TATAAATAT
965149 GATATAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
17 5 0.13
18 23 0.59
19 11 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TATAAATATTAAAATAAT
Found at i:965487 original size:3 final size:3
Alignment explanation
Indices: 965481--965507 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
965471 CATCATCGAA
965481 ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
965508 TACAAGAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:972540 original size:12 final size:12
Alignment explanation
Indices: 972514--972571 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
972504 AAAAAATAAT
* *
972514 TAAAATATGATA
1 TAAAATATAACA
972526 TAAAATATAACA
1 TAAAATATAACA
*
972538 TAAAAAATAACA
1 TAAAATATAACA
* *
972550 T-TAATATAATA
1 TAAAATATAACA
972561 TAAAAGTATAA
1 TAAAA-TATAA
972572 AGTGTTAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
11 8 0.22
12 24 0.65
13 5 0.14
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.29
Consensus pattern (12 bp):
TAAAATATAACA
Found at i:972789 original size:2 final size:2
Alignment explanation
Indices: 972782--972816 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
972772 CGATTCTACG
972782 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
972817 AAATTGAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:979691 original size:25 final size:22
Alignment explanation
Indices: 979663--979712 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 22
979653 AAAATATAAT
*
979663 ATTAATATCAAAATTAATATATTTA
1 ATTAA-ATCAAAAATAA-AT-TTTA
*
979688 ATTAAATTAAAAATAAATTTTA
1 ATTAAATCAAAAATAAATTTTA
979710 ATT
1 ATT
979713 TTTTTTACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.30
23 2 0.09
24 9 0.39
25 5 0.22
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTAAATCAAAAATAAATTTTA
Found at i:980008 original size:18 final size:17
Alignment explanation
Indices: 979944--980004 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
979934 AATTATTTAA
979944 TAATAATTAAAAATAATT
1 TAATAATTAAAAATAA-T
* * *
979962 TTATAGTTAAAAA-AAA
1 TAATAATTAAAAATAAT
* *
979978 TAATAAATATAAATAAT
1 TAATAATTAAAAATAAT
979995 TAATAATTAA
1 TAATAATTAA
980005 TAAAATATAT
Statistics
Matches: 32, Mismatches: 10, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
16 9 0.28
17 12 0.38
18 11 0.34
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
TAATAATTAAAAATAAT
Found at i:980216 original size:13 final size:14
Alignment explanation
Indices: 980191--980222 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
980181 ATTTATCACC
980191 TATTTAGTTATTAT
1 TATTTAGTTATTAT
980205 TATTTA-TTATTAT
1 TATTTAGTTATTAT
980218 TATTT
1 TATTT
980223 TTAAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (14 bp):
TATTTAGTTATTAT
Found at i:988623 original size:18 final size:17
Alignment explanation
Indices: 988593--988631 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
988583 CTTTATGGTG
*
988593 AAAAATATTTTTTTTCA
1 AAAAATATATTTTTTCA
*
988610 AAAAATTATATTTTTTGA
1 AAAAA-TATATTTTTTCA
988628 AAAA
1 AAAA
988632 TAAGTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (17 bp):
AAAAATATATTTTTTCA
Found at i:988730 original size:15 final size:15
Alignment explanation
Indices: 988710--988741 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
988700 CTAAATGTTC
*
988710 TTAATTTATTTTATT
1 TTAATTTATTTAATT
988725 TTAATTTATTTAATT
1 TTAATTTATTTAATT
988740 TT
1 TT
988742 TTTATTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTAATTTATTTAATT
Found at i:990392 original size:12 final size:12
Alignment explanation
Indices: 990377--990407 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
990367 ATCATCGTTG
990377 TTATTATCGTCA
1 TTATTATCGTCA
*
990389 TTATCATCGTCA
1 TTATTATCGTCA
990401 TTATTAT
1 TTATTAT
990408 TAGTTATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (12 bp):
TTATTATCGTCA
Found at i:991902 original size:21 final size:21
Alignment explanation
Indices: 991856--991910 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
991846 TATTATTTCG
991856 TAATATTT-TATATAAAATTA
1 TAATATTTATATATAAAATTA
*
991876 TAAATATTTATATAT-AATTTAA
1 T-AATATTTATATATAAAATT-A
991898 TAATATTTATATA
1 TAATATTTATATA
991911 ATTGGTTACA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 1 0.03
21 23 0.74
22 7 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATATTTATATATAAAATTA
Found at i:992492 original size:433 final size:429
Alignment explanation
Indices: 991882--993548 Score: 1306
Period size: 433 Copynumber: 3.9 Consensus size: 429
991872 ATTATAAATA
** * *
991882 TTTATATATAATTTAATAATA-TT-TATATAATTGGTTACATATAAATATTACATTT-TAAAATT
1 TTTATATATAATTTAATAATATTTATATATAATTTATTACATACAAATATTAC-TTTCAAAAATT
* * * * ** * *
991944 -TTTTCGCCAATATTTTAGTC-ATTACATATATTACATATAAACATTATTTACTCTTTAATAATT
65 CTTTTCACAAATATATTA-TCTATTACATATATTACATACAAACATTACCTACACTTTAATAAAT
* * * * * * * ** ** *
992007 TATATAAATTTTAATATTTATATGTAACATTAGTAATTTTTAGTTGTAATTTTTATAAATTAATA
129 GATGTAAATTTTAATATTTATGTGCAATATTAATAATATTTAGTTGTAATTCCTACCAACTAATA
** *
992072 AAAATCTAAATTTTATTGTAAAATTAAATTTTTATTAACATAATATATTTATTATTAATATTAAA
194 AAAATCTAAATTTTATCATAAAA-TAAATTTTTATTAATATAATATATTTATTATTAATATTAAA
*
992137 AATATATTAATAAAATAAGAAATATAAAATTTTTTCACTTCAAAAATTACTAAAAAAATTAATTT
258 AATATATTAATAAAATAA-AAATAT-AAATTTTTTAACTTCAAAAATTACTAAAAAAATTAA-TT
* *
992202 TGAT-CATATAAAATATATTTAATAAAAATCAAAATAATTTTAAAGAAATTATATTTAATTTT-T
320 TCATACATATAAAATATATTTAATAAAAATAAAAATAATTTTAAA-AAATTATATTTAATTTTCT
* * * *
992265 TAAATAATATTTTACATTTCGATGCTGTTCTATTTAAAATCGTAATG
384 TAAATAATATTTTACATTAC-ATGCTGTTTTATGTAAAATAGTAATG
* * * *
992312 TTTATAAATAATATATTAATATTTATATGTAATTTATTACATACAAATATTACCTTT-AAAAATT
1 TTTATATATAATTTAATAATATTTATATATAATTTATTACATACAAATATTA-CTTTCAAAAATT
* * * * * * *
992376 CTTTACATAAATATATTATCTATTGCATATATTACATATAAAAATTACTTGCACTTTAATAAATG
65 CTTTTCACAAATATATTATCTATTACATATATTACATACAAACATTACCTACACTTTAATAAATG
* * * **
992441 ATGTAAATTCTAATATTTATGTGCAGTATCAATAATATTTAGTTGTAATTTTTACCAACTAATAA
130 ATGTAAATTTTAATATTTATGTGCAATATTAATAATATTTAGTTGTAATTCCTACCAACTAATAA
* * * **
992506 AAATTTAAATTTTATCATAAAATTAA-TTTT-TT-AT-T-AT-T-TTTA--A-AAATA-T-ATTA
195 AAATCTAAATTTTATCATAAAATAAATTTTTATTAATATAATATATTTATTATTAATATTAAAAA
* * * * *
992559 -ATA-GAATAAAAT-AATATA-AAAGTTTTTAACTTCAAAAATTA-TTAAAAAA-TAATTTCATT
260 TATATTAATAAAATAAAAATATAAATTTTTTAACTTCAAAAATTACTAAAAAAATTAATTTCATA
* *
992618 CATATATAATATATTTAATAATAAATGAAAAATATTTTTAAAAAATTATATTTAATTTTCTTAAA
325 CATATAAAATATATTTAATAA-AAAT-AAAAATAATTTTAAAAAATTATATTTAATTTTCTTAAA
* ** * *
992683 -ACATACTTTTTGCATTACAGTTTTGGTAATATTATGTAAAAAAGT-ATA
388 TA-ATA--TTTTACATTACA-TGCT-GT--T-TTATGTAAAATAGTAATG
* *** * * * * * ** *
992731 CTTATAGGCAATCTAATAATGTTTATGTATAATTTGTTATATGTAAACATTACTTTCAAAAATTC
1 TTTATATATAATTTAATAATATTTATATATAATTTATTACATACAAATATTACTTTCAAAAATTC
* * * * * * * * *
992796 TTTTCATAAATAAATTA-CTAATTAAATATATTATATACAAACATTGCCTACACTCTAATGATTT
66 TTTTCACAAATATATTATCT-ATTACATATATTACATACAAACATTACCTACACTTTAATAAATG
* * * * * *
992860 ATG---A--GT-A-ATTT-CG-G------T-AT--TATTTGGTTCTCA--CCTACTAA-T-A-AA
130 ATGTAAATTTTAATATTTATGTGCAATATTAATAATATTTAGTTGTAATTCCTACCAACTAATAA
* * *
992902 AAATCTAAA-TTTATCATAAAATTAATTTTTATTAATATAGTATATTTATTAATAATATTAAATA
195 AAATCTAAATTTTATCATAAAATAAATTTTTATTAATATAATATATTTATTATTAATATTAAA-A
* * * * *
992966 ATATATTAATAAAATATAAATATAAATTTTTTAATTTCAAAAATTAC-AAGAGAAGTAATTTCAT
259 ATATATTAATAAAATAAAAATATAAATTTTTTAACTTCAAAAATTACTAAAAAAATTAATTTCAT
*
993030 ACATATATATAATATATTTAATAAAAACTTAAAAATATTTTTGAAAAAATTATATTTAATTTT-T
324 ACATATA-A-AATATATTTAATAAAAA--TAAAAATAATTTT-AAAAAATTATATTTAATTTTCT
* * *
993094 AAAATAATTTTTTTACATAAATACATTATAGTTTCAATAATGTTTTATGTAAAATAATAATG
384 TAAATAA-TATTTTACAT---TAC---AT-G---C-----TGTTTTATGTAAAATAGTAATG
* * * ** * *
993156 TTTGTATGTAATTTGATTCTGTTTATATATAATTTATTACATACAAATATTACTTTCAAAGATTC
1 TTTATATATAATTTAATAATATTTATATATAATTTATTACATACAAATATTACTTTCAAAAATTC
* * * * * * * *
993221 TTTTCACAAATATATTACCCATAACGTATATTACATACACACACTACCTACACTTTAATAATTTA
66 TTTTCACAAATATATTATCTATTACATATATTACATACAAACATTACCTACACTTTAATAAATGA
* * *
993286 TGTAAATTTTAATATTTATGTGTAATTTTAATAATATTTAGTTATAATTCCTACCAACTAATGAA
131 TGTAAATTTTAATATTTATGTGCAATATTAATAATATTTAGTTGTAATTCCTACCAACTAAT--A
* * * *
993351 AAAATCTAAATTTTATCATAAAATCAATTTTTCACTAATATAATGTATTTATTACTAATATTAAA
194 AAAATCTAAATTTTATCATAAAATAAATTTTT-ATTAATATAATATATTTATTATTAATATTAAA
*
993416 AATATATTAATAAAAATTAAAATAT-AATTTTTTAACTTCAAAAATTACT-AAAAAATTAATTTC
258 AATATATTAAT-AAAATAAAAATATAAATTTTTTAACTTCAAAAATTACTAAAAAAATTAATTTC
* *
993479 ATACATATAAAATATATTTGATAGAAAATCAAAAATAATTTCAAAAAAAATTATATTTAATTTTC
322 ATACATATAAAATATATTTAATA-AAAAT-AAAAATAATTT--TAAAAAATTATATTTAATTTTC
993544 TTAAA
383 TTAAA
993549 AGAATCTTTT
Statistics
Matches: 975, Mismatches: 166, Indels: 171
0.74 0.13 0.13
Matches are distributed among these distances:
395 16 0.02
396 14 0.01
397 3 0.00
398 3 0.00
399 6 0.01
400 1 0.00
401 11 0.01
402 4 0.00
403 2 0.00
404 1 0.00
405 4 0.00
406 1 0.00
407 1 0.00
408 1 0.00
409 3 0.00
410 9 0.01
411 10 0.01
412 52 0.05
413 45 0.05
414 53 0.05
415 32 0.03
416 39 0.04
417 6 0.01
418 14 0.01
419 103 0.11
420 13 0.01
421 1 0.00
422 4 0.00
423 1 0.00
424 12 0.01
425 110 0.11
426 2 0.00
427 4 0.00
428 3 0.00
429 1 0.00
430 21 0.02
431 7 0.01
432 41 0.04
433 123 0.13
434 1 0.00
440 1 0.00
441 2 0.00
443 10 0.01
445 7 0.01
446 1 0.00
447 1 0.00
448 1 0.00
449 22 0.02
450 36 0.04
451 77 0.08
452 39 0.04
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (429 bp):
TTTATATATAATTTAATAATATTTATATATAATTTATTACATACAAATATTACTTTCAAAAATTC
TTTTCACAAATATATTATCTATTACATATATTACATACAAACATTACCTACACTTTAATAAATGA
TGTAAATTTTAATATTTATGTGCAATATTAATAATATTTAGTTGTAATTCCTACCAACTAATAAA
AATCTAAATTTTATCATAAAATAAATTTTTATTAATATAATATATTTATTATTAATATTAAAAAT
ATATTAATAAAATAAAAATATAAATTTTTTAACTTCAAAAATTACTAAAAAAATTAATTTCATAC
ATATAAAATATATTTAATAAAAATAAAAATAATTTTAAAAAATTATATTTAATTTTCTTAAATAA
TATTTTACATTACATGCTGTTTTATGTAAAATAGTAATG
Found at i:993298 original size:19 final size:20
Alignment explanation
Indices: 993274--993320 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
993264 CTACCTACAC
993274 TTTAATAATTTATGT-AAAT
1 TTTAATAATTTATGTGAAAT
*
993293 TTTAAT-ATTTATGTGTAAT
1 TTTAATAATTTATGTGAAAT
993312 TTTAATAAT
1 TTTAATAAT
993321 ATTTAGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 8 0.32
19 15 0.60
20 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (20 bp):
TTTAATAATTTATGTGAAAT
Found at i:995155 original size:21 final size:21
Alignment explanation
Indices: 995126--995166 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
995116 TTGAAAGAAT
*
995126 GTTTTTATGTAACTCTATAAA
1 GTTTGTATGTAACTCTATAAA
995147 GTTTGTATGTAACTCTATAA
1 GTTTGTATGTAACTCTATAA
995167 TTATTACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (21 bp):
GTTTGTATGTAACTCTATAAA
Found at i:995395 original size:17 final size:18
Alignment explanation
Indices: 995358--995397 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
995348 GATAATATAA
*
995358 TTTATGTAACTTTTATGT
1 TTTATGTAACTATTATGT
*
995376 TTTATGTAA-TATTATTT
1 TTTATGTAACTATTATGT
995393 TTTAT
1 TTTAT
995398 TATCTTTGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.65
Consensus pattern (18 bp):
TTTATGTAACTATTATGT
Found at i:995468 original size:76 final size:76
Alignment explanation
Indices: 995376--995709 Score: 216
Period size: 78 Copynumber: 4.3 Consensus size: 76
995366 ACTTTTATGT
*
995376 TTTATGTAATATTATTTTTTATTATCTTTGCTAATATATTTATGTAATTTATAAAATT-TTTATG
1 TTTATATAATA-TATTTTTTATTATCTTTG-TAATATATTTATGTAATTTATAAAATTATTTATG
* *
995440 TAAATGTAATAAT
64 TAAATATAATAAA
* * * *
995453 TTTATATATTATATTTTTTTATTATCTTT-TATTATAATTTATGTAATATAT-AATTTATATATA
1 TTTATATAATATA-TTTTTTATTATCTTTGTAATAT-ATTTATGTAATTTATAAAATTAT-T-TA
* *
995516 TGTAATTATAAAAAA
62 TGTAAATATAATAAA
* * * * * * *
995531 TATATATAATAT-TTATTTCTATTACCTATGATTATAAACTTATGTAA-TTAGAAAATATAATTT
1 TTTATATAATATATT-TTT-TATTATCTTTG-TAATATATTTATGTAATTTATAAAAT-T-ATTT
* * *
995594 ATGTAATTGTAAT-AT
61 ATGTAAATATAATAAA
* ** * * *
995609 TTTATGTAATACTACATATTATTATTTATTGGTAATATATTTTTGTAATTTATAAAA-T-TTTAT
1 TTTATATAATA-TATTTTTTATTATCT-TT-GTAATATATTTATGTAATTTATAAAATTATTTAT
* *
995672 GAAAATATGATAAA
63 GTAAATATAATAAA
* * *
995686 TTTATATATTAAAATTTTTATTAT
1 TTTATATAATATATTTTTTATTAT
995710 ATTTTATAGT
Statistics
Matches: 192, Mismatches: 47, Indels: 37
0.70 0.17 0.13
Matches are distributed among these distances:
75 9 0.05
76 40 0.21
77 38 0.20
78 50 0.26
79 40 0.21
80 13 0.07
81 2 0.01
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (76 bp):
TTTATATAATATATTTTTTATTATCTTTGTAATATATTTATGTAATTTATAAAATTATTTATGTA
AATATAATAAA
Found at i:995614 original size:18 final size:18
Alignment explanation
Indices: 995591--995672 Score: 58
Period size: 19 Copynumber: 4.3 Consensus size: 18
995581 GAAAATATAA
995591 TTTATGTAATTGTAATAT
1 TTTATGTAATTGTAATAT
**
995609 TTTATGTAATACTACATAT
1 TTTATGTAATTGTA-ATAT
*
995628 TATTAT-TTATTGGTAATAT
1 T-TTATGTAATT-GTAATAT
* * *
995647 ATTTTTGTAATTTATAAAAT
1 -TTTATGTAA-TTGTAATAT
995667 TTTATG
1 TTTATG
995673 AAAATATGAT
Statistics
Matches: 48, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
18 12 0.25
19 20 0.42
20 14 0.29
21 2 0.04
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (18 bp):
TTTATGTAATTGTAATAT
Found at i:995672 original size:233 final size:229
Alignment explanation
Indices: 995259--995763 Score: 599
Period size: 233 Copynumber: 2.2 Consensus size: 229
995249 TACTATAAAG
* * **
995259 ATTTATGTAATATATAATTTATATTTGTAATTATAATAAAAAAGTGTAATACATATTTTTATTTT
1 ATTTATGTAATATATAATTTATATTTGTAATTATAATAAAAAAGTATAATACATATTTCTATTAC
* * * *
995324 ATATGATAATAAACTTATATAATAGATAATATAATTTATGTAACTTTTATGTTTTATGTAATATT
66 ATATGATAATAAACTTATATAATAGAAAATATAATTTATGTAACTTTAATATTTTATGTAATACT
** * * * *
995389 ATTTTTTATTATCTTTGCTAATATATTTATGTAATTTATAAAATTTTTATGTAAATGTAATAATT
131 ACATATTATTATCTTTGCTAATATATTTATGTAATTTATAAAATTTTTATGAAAATATAATAAAT
** *
995454 TTATATATTATATTTTTTTATTATCTTTTATTA-TA
196 TTATATATTA-AAATTTTTATTATATTTTA-TAGTA
**
995489 ATTTATGTAATATATAATTTATATATATGTAATTATAA-AAAATATA-TATAATATTTATTTCTA
1 ATTTATGTAATATATAATTTATAT-T-TGTAATTATAATAAAA-A-AGTATAATACATATTTCTA
* * *
995552 TTACCTATGATTATAAACTTATGTAATTAGAAAATATAATTTATGTAA-TTGTAATATTTTATGT
62 TTACATATGATAATAAACTTATATAA-TAGAAAATATAATTTATGTAACTT-TAATATTTTATGT
* * *
995616 AATACTACATATTATTATTTATTGGTAATATATTTTTGTAATTTATAAAA-TTTTATGAAAATAT
125 AATACTACATATTATTATCT-TTGCTAATATATTTATGTAATTTATAAAATTTTTATGAAAATAT
*
995680 GATAAATTTATATATTAAAATTTTTATTATATTTTATAGTA
189 AATAAATTTATATATTAAAATTTTTATTATATTTTATAGTA
* * * *
995721 ATTTATATAAATAAATAA-TGAGTATGTGTAATTATAATAAAAA
1 ATTTATGT-AATATATAATTTA-TATTTGTAATTATAATAAAAA
995764 TATGTAATGC
Statistics
Matches: 234, Mismatches: 30, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
230 24 0.10
231 19 0.08
232 79 0.34
233 85 0.36
234 27 0.12
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.50
Consensus pattern (229 bp):
ATTTATGTAATATATAATTTATATTTGTAATTATAATAAAAAAGTATAATACATATTTCTATTAC
ATATGATAATAAACTTATATAATAGAAAATATAATTTATGTAACTTTAATATTTTATGTAATACT
ACATATTATTATCTTTGCTAATATATTTATGTAATTTATAAAATTTTTATGAAAATATAATAAAT
TTATATATTAAAATTTTTATTATATTTTATAGTA
Found at i:995765 original size:233 final size:232
Alignment explanation
Indices: 995259--995771 Score: 573
Period size: 232 Copynumber: 2.2 Consensus size: 232
995249 TACTATAAAG
* * * ** *
995259 ATTTATGTAATATATAATT--TATATTTGTAATTATAATAAAA-A-AGTGTAATACATATTTTTA
1 ATTTATATAATATATAATTAATATATATGTAATTATAA-AAAATATA-TATAATATTTATTTCTA
*** * * *
995320 TTTTATATGATAATAAACTTATATAATAGATAATATAATTTATGTAACTTTTATGTTTTATGTAA
64 TTACCTATGATAATAAACTTATATAATAGAAAATATAATTTATGTAACTTTAATATTTTATGTAA
* ** * * *
995385 TATTATTTTTTATTATCTTTGCTAATATATTTATGTAATTTATAAAATTTTTATGTAAATGTAAT
129 TACTACATATTATTATCTTTGCTAATATATTTATGTAATTTATAAAATTTTTATGAAAATATAAT
* ** *
995450 AATTTTATATATTATATTTTTTTATTATCTTTTATTATA
194 AAATTTATATATTATAAATTTTTATTATATTTTATTATA
* *
995489 ATTTATGTAATATATAATTTATATATATGTAATTATAAAAAATATATATAATATTTATTTCTATT
1 ATTTATATAATATATAATTAATATATATGTAATTATAAAAAATATATATAATATTTATTTCTATT
* *
995554 ACCTATGATTATAAACTTATGTAATTAGAAAATATAATTTATGTAA-TTGTAATATTTTATGTAA
66 ACCTATGATAATAAACTTATATAA-TAGAAAATATAATTTATGTAACTT-TAATATTTTATGTAA
* * * *
995618 TACTACATATTATTATTTATTGGTAATATATTTTTGTAATTTATAAAA-TTTTATGAAAATATGA
129 TACTACATATTATTATCT-TTGCTAATATATTTATGTAATTTATAAAATTTTTATGAAAATATAA
995682 TAAATTTATATATTA-AAATTTTTATTATATTTTA-TAGTA
193 TAAATTTATATATTATAAATTTTTATTATATTTTATTA-TA
* *
995721 ATTTATATAA-ATA-AA-TAATGAGTATGTGTAATTATAATAAAA-ATATGTAAT
1 ATTTATATAATATATAATTAAT-A-TATATGTAATTATAA-AAAATATATATAAT
995772 GCAAATTTAT
Statistics
Matches: 241, Mismatches: 31, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
229 3 0.01
230 22 0.09
231 31 0.13
232 84 0.35
233 74 0.31
234 27 0.11
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.50
Consensus pattern (232 bp):
ATTTATATAATATATAATTAATATATATGTAATTATAAAAAATATATATAATATTTATTTCTATT
ACCTATGATAATAAACTTATATAATAGAAAATATAATTTATGTAACTTTAATATTTTATGTAATA
CTACATATTATTATCTTTGCTAATATATTTATGTAATTTATAAAATTTTTATGAAAATATAATAA
ATTTATATATTATAAATTTTTATTATATTTTATTATA
Found at i:1002941 original size:58 final size:58
Alignment explanation
Indices: 1002847--1002961 Score: 203
Period size: 58 Copynumber: 2.0 Consensus size: 58
1002837 GGAATAGACA
*
1002847 CATTTTGGTCTTGACTTAGGAAGCACAGACAGTGTCACAACATGGTTGGGACCTGAAC
1 CATTTTGGTCTTGACTTAGGAAGCACAAACAGTGTCACAACATGGTTGGGACCTGAAC
* *
1002905 CATTTTGGTCTTGACTTAGGAAGCACAAAGATTGTCACAACATGGTTGGGACCTGAA
1 CATTTTGGTCTTGACTTAGGAAGCACAAACAGTGTCACAACATGGTTGGGACCTGAA
1002962 TCCCAACTCG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (58 bp):
CATTTTGGTCTTGACTTAGGAAGCACAAACAGTGTCACAACATGGTTGGGACCTGAAC
Found at i:1002980 original size:58 final size:56
Alignment explanation
Indices: 1002857--1002973 Score: 144
Period size: 58 Copynumber: 2.0 Consensus size: 56
1002847 CATTTTGGTC
* ** *
1002857 TTGACTTAGGAAGCACAGACAGTGTCACAACATGGTTGGGACCTGAACCATTTTGG
1 TTGACTTAGGAAGCACAAACAGTGTCACAACATGGTTGGGACCTGAACCAACTCGG
* *
1002913 TCTTGACTTAGGAAGCACAAAGATTGTCACAACATGGTTGGGACCTGAATCCCAACTCGG
1 --TTGACTTAGGAAGCACAAACAGTGTCACAACATGGTTGGGACCTGAA--CCAACTCGG
1002973 T
1 T
1002974 GAACTTAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
58 45 0.88
60 6 0.12
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (56 bp):
TTGACTTAGGAAGCACAAACAGTGTCACAACATGGTTGGGACCTGAACCAACTCGG
Found at i:1004114 original size:21 final size:21
Alignment explanation
Indices: 1004076--1004130 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
1004066 GTAAAAACAA
*
1004076 AAAGAATTTAAAACAAATCCTT
1 AAAGAA-TTAAAACAAATCATT
1004098 AAAGAATTAAGAA-AAATCATT
1 AAAGAATTAA-AACAAATCATT
*
1004119 CAAGAATTAAAA
1 AAAGAATTAAAA
1004131 TAAAAATTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 2 0.07
21 20 0.67
22 8 0.27
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.24
Consensus pattern (21 bp):
AAAGAATTAAAACAAATCATT
Found at i:1007374 original size:22 final size:20
Alignment explanation
Indices: 1007349--1007394 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
1007339 AATGCATGAT
*
1007349 CATGGGAATAATGACAATAATG
1 CATGGAAATAAT-ACAA-AATG
*
1007371 CATGGAAATAATATAAAATG
1 CATGGAAATAATACAAAATG
1007391 CATG
1 CATG
1007395 TGTCATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 3 0.14
22 11 0.50
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.24
Consensus pattern (20 bp):
CATGGAAATAATACAAAATG
Found at i:1009558 original size:79 final size:78
Alignment explanation
Indices: 1009468--1010040 Score: 456
Period size: 79 Copynumber: 7.3 Consensus size: 78
1009458 TTTAGAGATG
* *
1009468 AAAATGGGGTTGGAGTATCCTCTCGAAAACAACGGGGTTGGAGTATCCCTGATGGTGAAAAATCG
1 AAAATAGGGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAAATCG
*
1009533 ATACTTTGAAAAT
66 ATATTTTGAAAAT
* * * * * * * * * *
1009546 AAAACCAAGGTTGGAATAACCCCTTGGAAATAATGGGGCTGGAATAT-CCTCGATGGTGAAAAAT
1 AAAA-TAGGGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCCT-GATGGTGAAAAAT
* *
1009610 TGATATTTTGGAAATAA
64 CGATATTTT-GAAA-AT
* * * *
1009627 AAAATAGGGTTGGAGTAT-CTCCTCGAAAACAATGGGGTTGGAATAT-CTTCGATGGTGAAAAAT
1 AAAATAGGGTTGGAGTATCCT-CTCGAAAATAACGGGGTTGGAGTATCCCT-GATGGTGAAAAAT
** *
1009690 TAATATTTTGGAAAT
64 CGATATTTTGAAAAT
* * * * *
1009705 AAAATTGGGATTGGAGTAATCC-CTTGGAAATAACAGGGTTGAAGTATCCTCT-ATGGTGAAAAA
1 AAAATAGGG-TTGGAGT-ATCCTCTCGAAAATAACGGGGTTGGAGTATCC-CTGATGGTGAAAAA
1009768 TCGATATTTTGAAAAT
63 TCGATATTTTGAAAAT
* * * *
1009784 AAAA-ATGGAGTTGAAGTATCC-CTTAGAAAATAACAGGGTTGGAGTAT-TCTCGATGGTGAAAA
1 AAAATA-GG-GTTGGAGTATCCTC-TCGAAAATAACGGGGTTGGAGTATCCCT-GATGGTGAAAA
* *
1009846 ATCTATATTTTGGAAAT
62 ATCGATATTTTGAAAAT
* * *
1009863 AAAAATAGGGTTGGAGTATCCCCTC-AGAAATAACGGGGTTACG-GTATCCTTGATGGTGAAAAA
1 -AAAATAGGGTTGGAGTATCCTCTCGA-AAATAACGGGGTT-GGAGTATCCCTGATGGTGAAAAA
*
1009926 TTGATATTTT-AAAAGT
63 TCGATATTTTGAAAA-T
* * * * **
1009942 AAAACTGGGGTTGGAGTAT-CTCCTCAAAAATAACGAGGTTAGAGTATCCCCAATGGTGAAAAAT
1 AAAA-TAGGGTTGGAGTATCCT-CTCGAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAAAT
1010006 CGATA-TTT-AAAA-
64 CGATATTTTGAAAAT
* *
1010018 AAAATGAAGGTTCGAGTATCCTC
1 AAAAT-AGGGTTGGAGTATCCTC
1010041 GATAGTGAAA
Statistics
Matches: 399, Mismatches: 68, Indels: 58
0.76 0.13 0.11
Matches are distributed among these distances:
75 1 0.00
76 15 0.04
77 4 0.01
78 38 0.10
79 260 0.65
80 73 0.18
81 8 0.02
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.28
Consensus pattern (78 bp):
AAAATAGGGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAAATCG
ATATTTTGAAAAT
Found at i:1009678 original size:26 final size:26
Alignment explanation
Indices: 1009625--1009678 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
1009615 TTTTGGAAAT
*
1009625 AAAAAATAGGGTTGGAGTATCTCCTCG
1 AAAAAATAGGGTTGGAATATCT-CTCG
*
1009652 AAAACAATGGGGTTGGAATATCT-TCG
1 AAAA-AATAGGGTTGGAATATCTCTCG
1009678 A
1 A
1009679 TGGTGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 4 0.17
27 4 0.17
28 16 0.67
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (26 bp):
AAAAAATAGGGTTGGAATATCTCTCG
Found at i:1009877 original size:158 final size:158
Alignment explanation
Indices: 1009468--1010013 Score: 574
Period size: 158 Copynumber: 3.4 Consensus size: 158
1009458 TTTAGAGATG
*
1009468 AAAATGGGGTTGGAGTA--TCCTCTCGAAAACAACGGGGTTGGAGTATCCCTGATGGTGAAAAAT
1 AAAATGGGGTTGGAGTATCTCCT-TAGAAAACAACGGGGTTGGAGTATCCC-GATGGTGAAAAAT
* * ** * * * * *
1009531 CGATACTTTGAAAATAAAACCAAGGTTGGAATAACCCCTTGGAAATAATGGGGCTGGAA-TATCC
64 CGATATTTTGGAAATAAAAATAGGGTTGGAGTAATCCCTTGGAAATAACGGGG-TTGAAGTATCC
* *
1009595 TCGATGGTGAAAAATTGATATTTTGGAAATAA
128 TCTATGGTGAAAAATTGATATTTTGAAAAT-A
* * * * * *
1009627 AAAATAGGGTTGGAGTATCTCC-TCGAAAACAATGGGGTTGGAATATCTTCGATGGTGAAAAATT
1 AAAATGGGGTTGGAGTATCTCCTTAGAAAACAACGGGGTTGGAGTATC-CCGATGGTGAAAAATC
* * *
1009691 AATATTTTGGAAAT-AAAATTGGGATTGGAGTAATCCCTTGGAAATAACAGGGTTGAAGTATCCT
65 GATATTTTGGAAATAAAAATAGGG-TTGGAGTAATCCCTTGGAAATAACGGGGTTGAAGTATCCT
*
1009755 CTATGGTGAAAAATCGATATTTTGAAAATA
129 CTATGGTGAAAAATTGATATTTTGAAAATA
* * * * *
1009785 AAAATGGAGTTGAAGTATC-CCTTAGAAAATAACAGGGTTGGAGTATTCTCGATGGTGAAAAATC
1 AAAATGGGGTTGGAGTATCTCCTTAGAAAACAACGGGGTTGGAGTA-TCCCGATGGTGAAAAATC
* ** *
1009849 TATATTTTGGAAATAAAAATAGGGTTGGAGT-ATCCCCTCAGAAATAACGGGGTT-ACGGTATCC
65 GATATTTTGGAAATAAAAATAGGGTTGGAGTAAT-CCCTTGGAAATAACGGGGTTGA-AGTATCC
1009912 T-TGATGGTGAAAAATTGATATTTT-AAAAGTA
128 TCT-ATGGTGAAAAATTGATATTTTGAAAA-TA
* * * * * *
1009943 AAACTGGGGTTGGAGTATCTCCTCA-AAAATAACGAGGTTAGAGTATCCCCAATGGTGAAAAATC
1 AAAATGGGGTTGGAGTATCTCCTTAGAAAACAACGGGGTTGGAGTAT-CCCGATGGTGAAAAATC
1010007 GATATTT
65 GATATTT
1010014 AAAAAAAATG
Statistics
Matches: 327, Mismatches: 46, Indels: 29
0.81 0.11 0.07
Matches are distributed among these distances:
157 11 0.03
158 179 0.55
159 133 0.41
160 1 0.00
161 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (158 bp):
AAAATGGGGTTGGAGTATCTCCTTAGAAAACAACGGGGTTGGAGTATCCCGATGGTGAAAAATCG
ATATTTTGGAAATAAAAATAGGGTTGGAGTAATCCCTTGGAAATAACGGGGTTGAAGTATCCTCT
ATGGTGAAAAATTGATATTTTGAAAATA
Found at i:1010079 original size:127 final size:128
Alignment explanation
Indices: 1009906--1010141 Score: 338
Period size: 127 Copynumber: 1.9 Consensus size: 128
1009896 CGGGGTTACG
* * *
1009906 GTATCCTTGATGGTGAAAAATTGATATTTTAAAAGTAAAACTGGGGTTGGAGTATCTCCTCAAAA
1 GTATCCTCGATAGTGAAAAATTGATATTTTAAAAGTAAAACTGGGGTTGAAGTATCTCCTCAAAA
1009971 ATAAC-GAGGTTAGAGTATCCCCAATGGTGAA-AAA-TCGATATTTAAAAAAAATGAAGGTTCGA
66 ATAACAG-GGTTAGAGTATCCCCAATGGTGAAGAAATTC-ATATTTAAAAAAAATGAAGGTTCGA
*
1010033 GTATCCTCGATAGTGAAAAATTGATATTTTGAAAA-TAAAA-TCGGGGTTGAAGTATCTCCTCGA
1 GTATCCTCGATAGTGAAAAATTGATATTTT-AAAAGTAAAACT-GGGGTTGAAGTATCTCCTCAA
* * *
1010096 AAATAACAGGGTTGGAGTGTCCCCGATGGTGAAGAAATTCATATTT
64 AAATAACAGGGTTAGAGTATCCCCAATGGTGAAGAAATTCATATTT
1010142 TGGAAATAAA
Statistics
Matches: 97, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
126 1 0.01
127 80 0.82
128 14 0.14
129 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (128 bp):
GTATCCTCGATAGTGAAAAATTGATATTTTAAAAGTAAAACTGGGGTTGAAGTATCTCCTCAAAA
ATAACAGGGTTAGAGTATCCCCAATGGTGAAGAAATTCATATTTAAAAAAAATGAAGGTTCGA
Found at i:1014445 original size:39 final size:39
Alignment explanation
Indices: 1014402--1014477 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
1014392 TAATTGCTTG
* *
1014402 ACATTAACCAAGTATTTAAATTATATAGTAAAAATATGC
1 ACATTAACAAAGTATTTAAACTATATAGTAAAAATATGC
* * *
1014441 ACATTAACAAAGTCTTTAAGCTATGTAGTAAAAATAT
1 ACATTAACAAAGTATTTAAACTATATAGTAAAAATAT
1014478 ATACTGTTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (39 bp):
ACATTAACAAAGTATTTAAACTATATAGTAAAAATATGC
Found at i:1015008 original size:2 final size:2
Alignment explanation
Indices: 1015001--1015025 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1014991 ATAACTCATT
1015001 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1015026 TATTAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1015316 original size:13 final size:13
Alignment explanation
Indices: 1015298--1015323 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1015288 ATATTTTAAA
1015298 TAATAAAAAATAT
1 TAATAAAAAATAT
1015311 TAATAAAAAATAT
1 TAATAAAAAATAT
1015324 AAACTCTTAA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATAAAAAATAT
Found at i:1015341 original size:47 final size:46
Alignment explanation
Indices: 1015249--1015341 Score: 109
Period size: 47 Copynumber: 2.0 Consensus size: 46
1015239 ATGAATATAC
* * * *
1015249 AAATATAAAAAATATTTATAAATATTATATAAATTTATAATATTTT
1 AAATATAAAAAATATTAATAAATATAATATAAATTTAAAAAATTTT
1015295 AAATAATAAAAAATATTAATAAA-A-AATATAAACTCTTAAAAAATTTT
1 AAAT-ATAAAAAATATTAATAAATATAATATAAA-T-TTAAAAAATTTT
1015342 CTCTCATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
45 7 0.17
46 6 0.15
47 27 0.68
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (46 bp):
AAATATAAAAAATATTAATAAATATAATATAAATTTAAAAAATTTT
Found at i:1015427 original size:26 final size:23
Alignment explanation
Indices: 1015398--1015449 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 23
1015388 AATAAATTTT
1015398 TAATATGTTAAAAATATACAAAAATA
1 TAATAT-TT-AAAATATA-AAAAATA
* *
1015424 TAATATTTTAAGTATAAAAAATA
1 TAATATTTAAAATATAAAAAATA
1015447 TAA
1 TAA
1015450 ATACAAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.42
24 6 0.25
25 2 0.08
26 6 0.25
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (23 bp):
TAATATTTAAAATATAAAAAATA
Found at i:1015516 original size:23 final size:25
Alignment explanation
Indices: 1015485--1015531 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
1015475 TTTTTATAAA
* *
1015485 TTTTGCTTTTTTTTTC-TTCTTTTG
1 TTTTGCTTTATTTCTCTTTCTTTTG
1015509 TTTT-CTTTATTTCTCTTTCTTTT
1 TTTTGCTTTATTTCTCTTTCTTTT
1015532 TCATCACGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.02, C:0.15, G:0.04, T:0.79
Consensus pattern (25 bp):
TTTTGCTTTATTTCTCTTTCTTTTG
Found at i:1016129 original size:2 final size:2
Alignment explanation
Indices: 1016122--1016167 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
1016112 ACATAAAATG
* * *
1016122 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AC AA AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1016163 AT AT A
1 AT AT A
1016168 GAAATATAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:1016742 original size:16 final size:16
Alignment explanation
Indices: 1016721--1016815 Score: 75
Period size: 16 Copynumber: 5.5 Consensus size: 16
1016711 TCTCTCATAT
1016721 ATAAAATAAATTATAA
1 ATAAAATAAATTATAA
* * *
1016737 ATAAAATATATAAAAA
1 ATAAAATAAATTATAA
1016753 ATAAAATAAATTATTAATA
1 ATAAAATAAATTA-T-A-A
*
1016772 TATAAAAATATAATATTTAA
1 -AT-AAAATA-AAT-TATAA
1016792 ATAAAA-AAATTATAA
1 ATAAAATAAATTATAA
1016807 ATATAAATA
1 ATA-AAATA
1016816 CATAAATTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
15 7 0.11
16 30 0.48
17 2 0.03
18 5 0.08
19 3 0.05
20 3 0.05
21 7 0.11
22 4 0.06
23 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAAATAAATTATAA
Found at i:1016747 original size:27 final size:27
Alignment explanation
Indices: 1016717--1016814 Score: 78
Period size: 27 Copynumber: 3.6 Consensus size: 27
1016707 TTTATCTCTC
1016717 ATATATAAAATAAATTATAAATAAAAT
1 ATATATAAAATAAATTATAAATAAAAT
* *
1016744 ATATAAAAAATAAA--ATAAATTATTAAT
1 ATATATAAAATAAATTATAAA-TA-AAAT
*
1016771 ATATA-AAAATATAATATTTAAATAAAA-
1 ATATATAAAATA-AAT-TATAAATAAAAT
*
1016798 AAATTATAAATATAAAT
1 ATA-TATAAA-ATAAAT
1016815 ACATAAATTT
Statistics
Matches: 57, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
25 5 0.09
26 8 0.14
27 25 0.44
28 4 0.07
29 8 0.14
30 7 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (27 bp):
ATATATAAAATAAATTATAAATAAAAT
Found at i:1016761 original size:25 final size:28
Alignment explanation
Indices: 1016717--1016793 Score: 79
Period size: 27 Copynumber: 2.8 Consensus size: 28
1016707 TTTATCTCTC
*
1016717 ATATATAAAATAAATTATAAA-TA-AAAT
1 ATATAAAAAATAAA-TATAAATTATAAAT
*
1016744 ATATAAAAAATAAA-ATAAATTATTAAT
1 ATATAAAAAATAAATATAAATTATAAAT
*
1016771 ATATAAAAATATAATATTTAAAT
1 ATATAAAAA-ATAA-ATATAAAT
1016794 AAAAAAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
25 5 0.12
26 2 0.05
27 25 0.60
28 4 0.10
29 1 0.02
30 5 0.12
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (28 bp):
ATATAAAAAATAAATATAAATTATAAAT
Done.